Hugo_Symbol	Entrez_Gene_Id	Center	NCBI_Build	Chromosome	Start_position	End_position	Strand	Variant_Classification	Variant_Type	Reference_Allele	Tumor_Seq_Allele1	Tumor_Seq_Allele2	dbSNP_RS	dbSNP_Val_Status	Tumor_Sample_Barcode	Matched_Norm_Sample_Barcode	Match_Norm_Seq_Allele1	Match_Norm_Seq_Allele2	Tumor_Validation_Allele1	Tumor_Validation_Allele2	Match_Norm_Validation_Allele1	Match_Norm_Validation_Allele2	Verification_Status	Validation_Status	Mutation_Status	Sequencing_Phase	Sequence_Source	Validation_Method	Score	BAM_file	Sequencer	Tumor_Sample_UUID	Matched_Norm_Sample_UUID	Genome_Change	Annotation_Transcript	Transcript_Strand	Transcript_Exon	Transcript_Position	cDNA_Change	Codon_Change	Protein_Change	Other_Transcripts	Refseq_mRNA_Id	Refseq_prot_Id	SwissProt_acc_Id	SwissProt_entry_Id	Description	UniProt_AApos	UniProt_Region	UniProt_Site	UniProt_Natural_Variations	UniProt_Experimental_Info	GO_Biological_Process	GO_Cellular_Component	GO_Molecular_Function	COSMIC_overlapping_mutations	COSMIC_fusion_genes	COSMIC_tissue_types_affected	COSMIC_total_alterations_in_gene	Tumorscape_Amplification_Peaks	Tumorscape_Deletion_Peaks	TCGAscape_Amplification_Peaks	TCGAscape_Deletion_Peaks	DrugBank	ref_context	gc_content	CCLE_ONCOMAP_overlapping_mutations	CCLE_ONCOMAP_total_mutations_in_gene	CGC_Mutation_Type	CGC_Translocation_Partner	CGC_Tumor_Types_Somatic	CGC_Tumor_Types_Germline	CGC_Other_Diseases	DNARepairGenes_Role	FamilialCancerDatabase_Syndromes	MUTSIG_Published_Results	OREGANNO_ID	OREGANNO_Values	t_alt_count	t_ref_count	validation_status	validation_method	validation_tumor_sample	validation_alt_allele	filter
SLC35E2	9906	broad.mit.edu	37	1	1666131	1666131	+	Nonsense_Mutation	SNP	G	A	A			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
DNAJC11	55735	broad.mit.edu	37	1	6700080	6700080	+	Missense_Mutation	SNP	G	A	A			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
KIF1B	23095	broad.mit.edu	37	1	10342554	10342554	+	Missense_Mutation	SNP	C	G	G			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
KIF1B	23095	broad.mit.edu	37	1	10380147	10380147	+	Missense_Mutation	SNP	G	A	A			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
UBR4	23352	broad.mit.edu	37	1	19494528	19494528	+	Missense_Mutation	SNP	G	C	C			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
HSPG2	3339	broad.mit.edu	37	1	22202777	22202777	+	Missense_Mutation	SNP	C	G	G			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
RHD	6007	broad.mit.edu	37	1	25617255	25617255	+	Silent	SNP	G	A	A			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
MYCL1	4610	broad.mit.edu	37	1	40363471	40363471	+	Missense_Mutation	SNP	C	A	A			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
LEPR	3953	broad.mit.edu	37	1	66036310	66036310	+	Missense_Mutation	SNP	G	C	C			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
C1orf141	400757	broad.mit.edu	37	1	67558694	67558694	+	Silent	SNP	G	A	A			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
GBP7	388646	broad.mit.edu	37	1	89615179	89615179	+	Silent	SNP	T	A	A			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
LPPR5	163404	broad.mit.edu	37	1	99418658	99418658	+	Missense_Mutation	SNP	C	A	A			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
SARS	6301	broad.mit.edu	37	1	109756748	109756748	+	Missense_Mutation	SNP	G	A	A			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
GNAT2	2780	broad.mit.edu	37	1	110148995	110148995	+	Silent	SNP	G	C	C			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
SLC16A4	9122	broad.mit.edu	37	1	110921905	110921905	+	Missense_Mutation	SNP	G	C	C			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
MCL1	4170	broad.mit.edu	37	1	150551448	150551448	+	Missense_Mutation	SNP	G	A	A			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
CRNN	49860	broad.mit.edu	37	1	152382343	152382343	+	Silent	SNP	C	T	T			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
PKLR	5313	broad.mit.edu	37	1	155263135	155263135	+	Splice_Site	SNP	C	T	T			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
PKLR	5313	broad.mit.edu	37	1	155264083	155264083	+	Missense_Mutation	SNP	C	G	G			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
RIT1	6016	broad.mit.edu	37	1	155874207	155874207	+	Missense_Mutation	SNP	G	T	T			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
DNM3	26052	broad.mit.edu	37	1	172011204	172011204	+	Nonsense_Mutation	SNP	C	T	T			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
DARS2	55157	broad.mit.edu	37	1	173826783	173826783	+	Silent	SNP	G	C	C			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
TSEN15	116461	broad.mit.edu	37	1	184023991	184023991	+	Missense_Mutation	SNP	A	G	G			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
DDX59	83479	broad.mit.edu	37	1	200635181	200635181	+	Missense_Mutation	SNP	G	C	C			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
DDX59	83479	broad.mit.edu	37	1	200635425	200635425	+	Silent	SNP	G	A	A			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
DDX59	83479	broad.mit.edu	37	1	200635460	200635460	+	Missense_Mutation	SNP	G	T	T			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
PTPN14	5784	broad.mit.edu	37	1	214531328	214531328	+	Silent	SNP	G	A	A			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
TARBP1	6894	broad.mit.edu	37	1	234569206	234569206	+	Missense_Mutation	SNP	G	C	C			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
TARBP1	6894	broad.mit.edu	37	1	234569302	234569302	+	Missense_Mutation	SNP	G	T	T			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
LYST	1130	broad.mit.edu	37	1	235945292	235945292	+	Nonsense_Mutation	SNP	G	T	T			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
NID1	4811	broad.mit.edu	37	1	236208960	236208960	+	Silent	SNP	T	C	C			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
RYR2	6262	broad.mit.edu	37	1	237659980	237659980	+	Missense_Mutation	SNP	G	A	A			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
FMN2	56776	broad.mit.edu	37	1	240370862	240370862	+	Missense_Mutation	SNP	G	A	A			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
SCCPDH	51097	broad.mit.edu	37	1	246923314	246923314	+	Missense_Mutation	SNP	T	A	A			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
MYT1L	23040	broad.mit.edu	37	2	1796159	1796159	+	Silent	SNP	G	A	A			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
DPYSL5	56896	broad.mit.edu	37	2	27147901	27147901	+	Missense_Mutation	SNP	G	T	T			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
SLC30A3	7781	broad.mit.edu	37	2	27479355	27479355	+	Missense_Mutation	SNP	C	T	T			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
MCFD2	90411	broad.mit.edu	37	2	47135052	47135052	+	Missense_Mutation	SNP	G	A	A			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
FSHR	2492	broad.mit.edu	37	2	49381409	49381409	+	Missense_Mutation	SNP	C	T	T			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
ALMS1	7840	broad.mit.edu	37	2	73682351	73682351	+	Missense_Mutation	SNP	G	A	A			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
RTKN	6242	broad.mit.edu	37	2	74653636	74653636	+	Silent	SNP	G	A	A			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
IL1RL1	9173	broad.mit.edu	37	2	102959613	102959613	+	Missense_Mutation	SNP	A	T	T			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
GPR45	11250	broad.mit.edu	37	2	105858475	105858475	+	Missense_Mutation	SNP	G	A	A			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
RANBP2	5903	broad.mit.edu	37	2	109383853	109383853	+	Silent	SNP	G	A	A			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
BUB1	699	broad.mit.edu	37	2	111428129	111428129	+	Missense_Mutation	SNP	G	A	A			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
FOXD4L1	200350	broad.mit.edu	37	2	114257217	114257217	+	Silent	SNP	C	G	G			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
THSD7B	80731	broad.mit.edu	37	2	137917884	137917884	+	Missense_Mutation	SNP	T	G	G			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
THSD7B	80731	broad.mit.edu	37	2	137917917	137917917	+	Missense_Mutation	SNP	C	G	G			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
LRP1B	53353	broad.mit.edu	37	2	141457836	141457836	+	Missense_Mutation	SNP	C	G	G			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
RIF1	55183	broad.mit.edu	37	2	152319636	152319636	+	Nonsense_Mutation	SNP	C	G	G			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
NR4A2	4929	broad.mit.edu	37	2	157186333	157186333	+	Nonsense_Mutation	SNP	G	T	T			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.chr2:157186333G>T	uc002tyz.3	-	3	788	c.366C>A	c.(364-366)TAC>TAA	p.Y122*	NR4A2_uc002tyx.3_Nonsense_Mutation_p.Y59*|NR4A2_uc010zcf.1_Nonsense_Mutation_p.Y122*|NR4A2_uc010zcg.1_5'Flank	NM_006186	NP_006177	P43354	NR4A2_HUMAN	nuclear receptor subfamily 4, group A, member 2	122	Gln-rich.				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						AGGAGGGCTTGTAGTAAACCG	0.607													6	196	---	---	---	---	PASS
SCN3A	6328	broad.mit.edu	37	2	165987921	165987921	+	Missense_Mutation	SNP	T	G	G			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
TTN	7273	broad.mit.edu	37	2	179576712	179576712	+	Missense_Mutation	SNP	C	A	A			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
ZNF804A	91752	broad.mit.edu	37	2	185800831	185800831	+	Nonsense_Mutation	SNP	C	A	A			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
CCDC150	284992	broad.mit.edu	37	2	197521510	197521510	+	Silent	SNP	C	G	G			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
SGOL2	151246	broad.mit.edu	37	2	201437262	201437262	+	Missense_Mutation	SNP	T	G	G			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
AOX1	316	broad.mit.edu	37	2	201477490	201477490	+	Missense_Mutation	SNP	G	C	C			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
PIKFYVE	200576	broad.mit.edu	37	2	209190867	209190867	+	Missense_Mutation	SNP	C	G	G			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
PIKFYVE	200576	broad.mit.edu	37	2	209192962	209192962	+	Missense_Mutation	SNP	C	G	G			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
PER2	8864	broad.mit.edu	37	2	239184406	239184406	+	Silent	SNP	G	A	A			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
SCN5A	6331	broad.mit.edu	37	3	38627355	38627355	+	Missense_Mutation	SNP	C	T	T			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
BSN	8927	broad.mit.edu	37	3	49699829	49699829	+	Silent	SNP	C	T	T			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
ARHGEF3	50650	broad.mit.edu	37	3	56787587	56787587	+	Missense_Mutation	SNP	A	G	G			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
STXBP5L	9515	broad.mit.edu	37	3	121137260	121137260	+	Missense_Mutation	SNP	G	A	A			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
SNX4	8723	broad.mit.edu	37	3	125216804	125216804	+	Silent	SNP	G	C	C			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
PLXNA1	5361	broad.mit.edu	37	3	126746920	126746920	+	Nonsense_Mutation	SNP	C	A	A			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.chr3:126746920C>A	uc003ejg.2	+	23	4435	c.4431C>A	c.(4429-4431)TAC>TAA	p.Y1477*	PLXNA1_uc003ejh.2_Nonsense_Mutation_p.Y145*	NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	1500	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)		AGATTGACTACAAGACACTGG	0.652													5	131	---	---	---	---	PASS
RASA2	5922	broad.mit.edu	37	3	141304930	141304930	+	Missense_Mutation	SNP	C	G	G			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
MECOM	2122	broad.mit.edu	37	3	168838844	168838844	+	Missense_Mutation	SNP	A	C	C			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
TNIK	23043	broad.mit.edu	37	3	170800083	170800083	+	Missense_Mutation	SNP	C	G	G			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
PIK3CA	5290	broad.mit.edu	37	3	178938934	178938934	+	Missense_Mutation	SNP	G	A	A			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
ABCC5	10057	broad.mit.edu	37	3	183655727	183655727	+	Missense_Mutation	SNP	G	C	C			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
EIF4A2	1974	broad.mit.edu	37	3	186502264	186502264	+	Missense_Mutation	SNP	G	C	C			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
RTP2	344892	broad.mit.edu	37	3	187416707	187416707	+	Missense_Mutation	SNP	G	A	A			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
ATP13A4	84239	broad.mit.edu	37	3	193151649	193151649	+	Missense_Mutation	SNP	G	A	A			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
C3orf34	84984	broad.mit.edu	37	3	196434643	196434643	+	Nonsense_Mutation	SNP	C	A	A	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
C3orf34	84984	broad.mit.edu	37	3	196434703	196434703	+	Missense_Mutation	SNP	C	G	G			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
JAKMIP1	152789	broad.mit.edu	37	4	6064080	6064080	+	Missense_Mutation	SNP	C	T	T			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
CCDC158	339965	broad.mit.edu	37	4	77276503	77276503	+	Nonsense_Mutation	SNP	C	A	A			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
SHROOM3	57619	broad.mit.edu	37	4	77662003	77662003	+	Nonsense_Mutation	SNP	C	T	T			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
RAP1GDS1	5910	broad.mit.edu	37	4	99339876	99339876	+	Missense_Mutation	SNP	G	T	T			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.chr4:99339876G>T	uc003htx.3	+	10	1298	c.1108G>T	c.(1108-1110)GTA>TTA	p.V370L	RAP1GDS1_uc003htw.3_Missense_Mutation_p.V371L|RAP1GDS1_uc003htv.3_Missense_Mutation_p.V371L|RAP1GDS1_uc003htz.3_Missense_Mutation_p.V321L|RAP1GDS1_uc003hty.3_Missense_Mutation_p.V322L|RAP1GDS1_uc003hua.3_Missense_Mutation_p.V279L	NM_001100427	NP_001093897	P52306	GDS1_HUMAN	RAP1, GTP-GDP dissociation stimulator 1 isoform	370	ARM 3.						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)		GGACAGACATGTAGAAGATGG	0.378			T	NUP98	T-ALL								3	34	---	---	---	---	PASS
TET2	54790	broad.mit.edu	37	4	106155466	106155466	+	Missense_Mutation	SNP	C	A	A			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
TET2	54790	broad.mit.edu	37	4	106157923	106157923	+	Missense_Mutation	SNP	C	T	T			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
C4orf21	55345	broad.mit.edu	37	4	113539912	113539912	+	Nonsense_Mutation	SNP	G	C	C	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
BBS7	55212	broad.mit.edu	37	4	122775966	122775966	+	Missense_Mutation	SNP	C	G	G			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
HSPA4L	22824	broad.mit.edu	37	4	128724970	128724970	+	Missense_Mutation	SNP	C	T	T			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
PCDH10	57575	broad.mit.edu	37	4	134073688	134073688	+	Missense_Mutation	SNP	A	C	C			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
PALLD	23022	broad.mit.edu	37	4	169835086	169835086	+	Silent	SNP	C	T	T			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
ADCY2	108	broad.mit.edu	37	5	7727361	7727361	+	Missense_Mutation	SNP	C	T	T			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
FAM105B	90268	broad.mit.edu	37	5	14693101	14693101	+	Missense_Mutation	SNP	G	C	C			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
CDH10	1008	broad.mit.edu	37	5	24535881	24535881	+	Missense_Mutation	SNP	C	A	A			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
ACTBL2	345651	broad.mit.edu	37	5	56778146	56778146	+	Missense_Mutation	SNP	G	T	T			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.chr5:56778146G>T	uc003jrm.2	-	1	491	c.389C>A	c.(388-390)ACA>AAA	p.T130K		NM_001017992	NP_001017992	Q562R1	ACTBL_HUMAN	actin, beta-like 2	130						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)		CATGGCTGGTGTGTTGAAAGC	0.562													4	50	---	---	---	---	PASS
GPR98	84059	broad.mit.edu	37	5	89986823	89986823	+	Missense_Mutation	SNP	G	C	C			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
ST8SIA4	7903	broad.mit.edu	37	5	100222116	100222116	+	Missense_Mutation	SNP	A	T	T			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
CHSY3	337876	broad.mit.edu	37	5	129520539	129520539	+	Missense_Mutation	SNP	C	A	A			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
PCDHA3	56145	broad.mit.edu	37	5	140183011	140183011	+	Missense_Mutation	SNP	C	A	A			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
PCDHA6	56142	broad.mit.edu	37	5	140209689	140209689	+	Missense_Mutation	SNP	G	C	C			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
PCDHGA3	56112	broad.mit.edu	37	5	140725244	140725244	+	Silent	SNP	G	A	A			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
SLIT3	6586	broad.mit.edu	37	5	168093540	168093540	+	Silent	SNP	G	A	A			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
HIST1H2BC	8347	broad.mit.edu	37	6	26123911	26123911	+	Silent	SNP	G	A	A			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
RNF5	6048	broad.mit.edu	37	6	32147865	32147865	+	Missense_Mutation	SNP	C	T	T			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.chr6:32147865C>T	uc003oaj.3	+	5	534	c.407C>T	c.(406-408)ACC>ATC	p.T136I	AGPAT1_uc003oaf.2_5'Flank|AGPAT1_uc003oag.2_5'Flank|AGPAT1_uc003oah.2_5'Flank	NM_006913	NP_008844	Q99942	RNF5_HUMAN	ring finger protein 5	136	Helical; (Potential).				ER-associated misfolded protein catabolic process|protein K48-linked ubiquitination|protein K63-linked ubiquitination	endoplasmic reticulum membrane|integral to membrane|mitochondrial membrane	protein binding|ubiquitin-protein ligase activity|zinc ion binding				0						TTTTTCACCACCGTCTTCAAT	0.557													9	210	---	---	---	---	PASS
NOTCH4	4855	broad.mit.edu	37	6	32163533	32163533	+	Missense_Mutation	SNP	C	G	G			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
TBX18	9096	broad.mit.edu	37	6	85446684	85446684	+	Missense_Mutation	SNP	G	C	C			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
FUT9	10690	broad.mit.edu	37	6	96651713	96651713	+	Missense_Mutation	SNP	G	A	A			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
NR2E1	7101	broad.mit.edu	37	6	108502128	108502128	+	Missense_Mutation	SNP	C	T	T			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
CD164	8763	broad.mit.edu	37	6	109700790	109700790	+	Missense_Mutation	SNP	T	C	C			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
GPR6	2830	broad.mit.edu	37	6	110300475	110300475	+	Missense_Mutation	SNP	C	G	G			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
WISP3	8838	broad.mit.edu	37	6	112389443	112389443	+	Missense_Mutation	SNP	T	A	A			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
PHACTR2	9749	broad.mit.edu	37	6	144086763	144086763	+	Missense_Mutation	SNP	G	A	A			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
RMND1	55005	broad.mit.edu	37	6	151766679	151766679	+	Missense_Mutation	SNP	C	G	G			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
SYNE1	23345	broad.mit.edu	37	6	152690680	152690680	+	Missense_Mutation	SNP	C	T	T			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
RBM16	22828	broad.mit.edu	37	6	155152162	155152162	+	Silent	SNP	C	A	A			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
PDE10A	10846	broad.mit.edu	37	6	165809938	165809938	+	Missense_Mutation	SNP	C	T	T			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
CHN2	1124	broad.mit.edu	37	7	29552201	29552201	+	Missense_Mutation	SNP	C	A	A			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.chr7:29552201C>A	uc003szz.2	+	13	1694	c.1257C>A	c.(1255-1257)GAC>GAA	p.D419E	CHN2_uc011jzs.1_Missense_Mutation_p.D494E|CHN2_uc010kva.2_3'UTR|CHN2_uc010kvb.2_RNA|CHN2_uc010kvc.2_Missense_Mutation_p.D384E|CHN2_uc011jzt.1_Missense_Mutation_p.D432E|CHN2_uc010kvd.2_Missense_Mutation_p.D275E|CHN2_uc011jzu.1_Missense_Mutation_p.D404E|CHN2_uc010kvg.2_Missense_Mutation_p.D237E|CHN2_uc010kvh.2_Missense_Mutation_p.D179E|CHN2_uc010kvi.2_Missense_Mutation_p.D211E|CHN2_uc010kve.2_3'UTR|CHN2_uc003taa.2_Missense_Mutation_p.D283E|CHN2_uc010kvf.2_Missense_Mutation_p.D225E|CHN2_uc010kvj.2_Missense_Mutation_p.D192E|CHN2_uc010kvk.2_Missense_Mutation_p.D94E|CHN2_uc010kvl.2_RNA|CHN2_uc010kvm.2_Missense_Mutation_p.D238E|CHN2_uc011jzv.1_Missense_Mutation_p.D212E	NM_004067	NP_004058	P52757	CHIO_HUMAN	beta chimerin isoform 2	419	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						ATGAAAAAGACAATTTCATGA	0.428													4	61	---	---	---	---	PASS
AMPH	273	broad.mit.edu	37	7	38502604	38502604	+	Missense_Mutation	SNP	C	T	T			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
WBSCR17	64409	broad.mit.edu	37	7	71175772	71175772	+	Missense_Mutation	SNP	C	A	A			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
MGC26647	219557	broad.mit.edu	37	7	88423766	88423766	+	Missense_Mutation	SNP	G	A	A			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
AKAP9	10142	broad.mit.edu	37	7	91631106	91631106	+	Silent	SNP	G	C	C			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
ARPC1A	10552	broad.mit.edu	37	7	98951667	98951667	+	Missense_Mutation	SNP	C	G	G			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
PILRA	29992	broad.mit.edu	37	7	99971947	99971947	+	Silent	SNP	G	T	T			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
RELN	5649	broad.mit.edu	37	7	103124174	103124174	+	Silent	SNP	G	A	A			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
SND1	27044	broad.mit.edu	37	7	127528043	127528043	+	Missense_Mutation	SNP	G	C	C			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
LPL	4023	broad.mit.edu	37	8	19797007	19797007	+	Missense_Mutation	SNP	C	A	A			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
KCTD9	54793	broad.mit.edu	37	8	25293004	25293004	+	Missense_Mutation	SNP	G	C	C			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
GPR124	25960	broad.mit.edu	37	8	37672477	37672477	+	Silent	SNP	G	T	T			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
HOOK3	84376	broad.mit.edu	37	8	42821647	42821647	+	Missense_Mutation	SNP	C	T	T			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
POTEA	340441	broad.mit.edu	37	8	43157168	43157168	+	Missense_Mutation	SNP	C	G	G			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
MCM4	4173	broad.mit.edu	37	8	48877253	48877253	+	Missense_Mutation	SNP	G	A	A			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
MMP16	4325	broad.mit.edu	37	8	89180185	89180185	+	Missense_Mutation	SNP	G	C	C			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
CSMD3	114788	broad.mit.edu	37	8	113697958	113697958	+	Missense_Mutation	SNP	G	A	A			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
RHPN1	114822	broad.mit.edu	37	8	144459598	144459598	+	Missense_Mutation	SNP	G	C	C			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
FOXD4	2298	broad.mit.edu	37	9	117745	117745	+	Silent	SNP	G	C	C			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
KIAA2026	158358	broad.mit.edu	37	9	5921511	5921511	+	Silent	SNP	C	T	T			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
ECM2	1842	broad.mit.edu	37	9	95264875	95264875	+	Silent	SNP	G	C	C			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
GALNT12	79695	broad.mit.edu	37	9	101611252	101611252	+	Missense_Mutation	SNP	G	A	A			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
MAPKAP1	79109	broad.mit.edu	37	9	128419946	128419946	+	Missense_Mutation	SNP	G	C	C			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
PRDM12	59335	broad.mit.edu	37	9	133556880	133556880	+	Nonsense_Mutation	SNP	C	T	T			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
VAV2	7410	broad.mit.edu	37	9	136671274	136671274	+	Silent	SNP	C	T	T			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
COL5A1	1289	broad.mit.edu	37	9	137677895	137677895	+	Splice_Site	SNP	G	C	C			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
DIP2C	22982	broad.mit.edu	37	10	436246	436246	+	Silent	SNP	G	A	A			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
PITRM1	10531	broad.mit.edu	37	10	3202450	3202450	+	Silent	SNP	G	A	A			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
ITGA8	8516	broad.mit.edu	37	10	15639281	15639281	+	Missense_Mutation	SNP	G	T	T			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
EPC1	80314	broad.mit.edu	37	10	32581966	32581966	+	Missense_Mutation	SNP	C	T	T			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
SLC18A3	6572	broad.mit.edu	37	10	50819868	50819868	+	Missense_Mutation	SNP	C	T	T			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
SFTPA1	653509	broad.mit.edu	37	10	81371658	81371658	+	Missense_Mutation	SNP	G	T	T			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
MMS19	64210	broad.mit.edu	37	10	99221792	99221792	+	Silent	SNP	G	A	A			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
CHUK	1147	broad.mit.edu	37	10	101980409	101980409	+	Missense_Mutation	SNP	T	C	C			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
PDCD11	22984	broad.mit.edu	37	10	105184879	105184879	+	Missense_Mutation	SNP	G	C	C			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
C10orf118	55088	broad.mit.edu	37	10	115910894	115910894	+	Missense_Mutation	SNP	G	T	T			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
C10orf119	79892	broad.mit.edu	37	10	121616948	121616948	+	Missense_Mutation	SNP	G	C	C			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
C10orf88	80007	broad.mit.edu	37	10	124708165	124708165	+	Silent	SNP	C	G	G			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
LDLRAD3	143458	broad.mit.edu	37	11	36248660	36248660	+	Silent	SNP	G	T	T			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
OR8H2	390151	broad.mit.edu	37	11	55873016	55873016	+	Missense_Mutation	SNP	G	T	T			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.chr11:55873016G>T	uc010riy.1	+	1	498	c.498G>T	c.(496-498)TTG>TTT	p.L166F		NM_001005200	NP_001005200	Q8N162	OR8H2_HUMAN	olfactory receptor, family 8, subfamily H,	166	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	Esophageal squamous(21;0.00693)					TGAGCAGATTGCATTTCTACG	0.423										HNSCC(53;0.14)			4	181	---	---	---	---	PASS
OR1S2	219958	broad.mit.edu	37	11	57971290	57971290	+	Missense_Mutation	SNP	C	T	T	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
OR10W1	81341	broad.mit.edu	37	11	58035329	58035329	+	Missense_Mutation	SNP	A	T	T			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
VWCE	220001	broad.mit.edu	37	11	61048621	61048621	+	Missense_Mutation	SNP	C	T	T			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
PPP2R5B	5526	broad.mit.edu	37	11	64694350	64694350	+	Silent	SNP	C	T	T			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
ARHGEF17	9828	broad.mit.edu	37	11	73066920	73066920	+	Silent	SNP	G	A	A			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
GPR83	10888	broad.mit.edu	37	11	94134045	94134045	+	Silent	SNP	G	C	C			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
PIWIL4	143689	broad.mit.edu	37	11	94300723	94300723	+	Silent	SNP	C	T	T			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
PPP2R1B	5519	broad.mit.edu	37	11	111618706	111618706	+	Silent	SNP	A	G	G			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
PHLDB1	23187	broad.mit.edu	37	11	118509911	118509911	+	Missense_Mutation	SNP	G	A	A			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
FOXR1	283150	broad.mit.edu	37	11	118851317	118851317	+	Silent	SNP	C	T	T			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
WNK1	65125	broad.mit.edu	37	12	1009828	1009828	+	Missense_Mutation	SNP	C	A	A			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
PRPF40B	25766	broad.mit.edu	37	12	50037728	50037728	+	Missense_Mutation	SNP	G	C	C			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
KRT72	140807	broad.mit.edu	37	12	52992774	52992774	+	Silent	SNP	C	A	A			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.chr12:52992774C>A	uc001sar.2	-	2	635	c.549G>T	c.(547-549)CTG>CTT	p.L183L	KRT72_uc001saq.2_Silent_p.L183L|KRT72_uc010sns.1_Silent_p.L183L|KRT72_uc010snt.1_5'UTR	NM_001146225	NP_001139697	Q14CN4	K2C72_HUMAN	keratin 72 isoform 1	183	Coil 1B.|Rod.					keratin filament	structural molecule activity			ovary(5)|pancreas(1)	6				BRCA - Breast invasive adenocarcinoma(357;0.195)		GCTGCTTCTGCAGGTTGCTGA	0.537													13	169	---	---	---	---	PASS
MYL6	4637	broad.mit.edu	37	12	56553920	56553920	+	Missense_Mutation	SNP	C	G	G			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
BAZ2A	11176	broad.mit.edu	37	12	57008797	57008797	+	Splice_Site	SNP	C	A	A			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
C12orf61	283416	broad.mit.edu	37	12	62996892	62996892	+	Missense_Mutation	SNP	G	C	C			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
PPFIA2	8499	broad.mit.edu	37	12	81762563	81762563	+	Missense_Mutation	SNP	C	G	G			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
UHRF1BP1L	23074	broad.mit.edu	37	12	100452907	100452907	+	Missense_Mutation	SNP	T	C	C			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
GNPTAB	79158	broad.mit.edu	37	12	102158641	102158641	+	Nonsense_Mutation	SNP	G	C	C			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
HCFC2	29915	broad.mit.edu	37	12	104487212	104487212	+	Nonsense_Mutation	SNP	G	T	T			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
BRAP	8315	broad.mit.edu	37	12	112087808	112087808	+	Missense_Mutation	SNP	C	G	G			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
SFRS9	8683	broad.mit.edu	37	12	120903553	120903553	+	Missense_Mutation	SNP	C	G	G			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
RNF10	9921	broad.mit.edu	37	12	120995234	120995234	+	Missense_Mutation	SNP	C	G	G			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
EP400	57634	broad.mit.edu	37	12	132445647	132445647	+	Silent	SNP	C	G	G			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
GOLGA3	2802	broad.mit.edu	37	12	133372731	133372731	+	Missense_Mutation	SNP	G	C	C			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
ZNF10	7556	broad.mit.edu	37	12	133733132	133733132	+	Missense_Mutation	SNP	G	C	C			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
FKBP3	2287	broad.mit.edu	37	14	45587322	45587322	+	Missense_Mutation	SNP	C	T	T			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
FRMD6	122786	broad.mit.edu	37	14	52182111	52182111	+	Nonsense_Mutation	SNP	C	A	A			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
ZBTB1	22890	broad.mit.edu	37	14	64988550	64988550	+	Missense_Mutation	SNP	C	G	G			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
ZBTB1	22890	broad.mit.edu	37	14	64988812	64988812	+	Missense_Mutation	SNP	C	T	T			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
SPATA7	55812	broad.mit.edu	37	14	88904590	88904590	+	Missense_Mutation	SNP	G	A	A			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
AHNAK2	113146	broad.mit.edu	37	14	105409872	105409872	+	Silent	SNP	C	T	T			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
AHNAK2	113146	broad.mit.edu	37	14	105409902	105409902	+	Silent	SNP	C	A	A			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
AHNAK2	113146	broad.mit.edu	37	14	105419662	105419662	+	Missense_Mutation	SNP	A	T	T			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
C15orf56	644809	broad.mit.edu	37	15	40544699	40544699	+	Silent	SNP	C	G	G			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
LIPC	3990	broad.mit.edu	37	15	58834752	58834752	+	Missense_Mutation	SNP	G	A	A	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
VPS13C	54832	broad.mit.edu	37	15	62223364	62223364	+	Nonsense_Mutation	SNP	G	C	C			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
PTPN9	5780	broad.mit.edu	37	15	75762273	75762273	+	Missense_Mutation	SNP	G	A	A			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
HAPLN3	145864	broad.mit.edu	37	15	89424863	89424863	+	Missense_Mutation	SNP	C	T	T			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
CLCN7	1186	broad.mit.edu	37	16	1499072	1499072	+	Silent	SNP	C	T	T			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
BTBD12	84464	broad.mit.edu	37	16	3652259	3652259	+	Missense_Mutation	SNP	C	G	G			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
GRIN2A	2903	broad.mit.edu	37	16	9857426	9857426	+	Silent	SNP	G	A	A			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
MYH11	4629	broad.mit.edu	37	16	15831356	15831356	+	Silent	SNP	G	C	C			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
MYH11	4629	broad.mit.edu	37	16	15841585	15841585	+	Missense_Mutation	SNP	G	C	C			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
ABCC1	4363	broad.mit.edu	37	16	16110447	16110447	+	Missense_Mutation	SNP	C	T	T			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
CLN3	1201	broad.mit.edu	37	16	28497729	28497729	+	Missense_Mutation	SNP	C	T	T			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
TUFM	7284	broad.mit.edu	37	16	28856350	28856350	+	Silent	SNP	G	A	A			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
ZNF319	57567	broad.mit.edu	37	16	58030723	58030723	+	Missense_Mutation	SNP	C	T	T			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
B3GNT9	84752	broad.mit.edu	37	16	67184165	67184165	+	Missense_Mutation	SNP	G	A	A			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
ZFP90	146198	broad.mit.edu	37	16	68598214	68598214	+	Missense_Mutation	SNP	G	C	C			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
CHST4	10164	broad.mit.edu	37	16	71570713	71570713	+	Missense_Mutation	SNP	G	A	A			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
DPEP1	1800	broad.mit.edu	37	16	89704569	89704569	+	Missense_Mutation	SNP	G	A	A			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
KIAA0753	9851	broad.mit.edu	37	17	6499544	6499544	+	Silent	SNP	G	T	T			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
RNASEK	440400	broad.mit.edu	37	17	6916010	6916010	+	Nonsense_Mutation	SNP	C	A	A			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
CD68	968	broad.mit.edu	37	17	7484226	7484226	+	Missense_Mutation	SNP	C	G	G			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
TP53	7157	broad.mit.edu	37	17	7577127	7577127	+	Missense_Mutation	SNP	C	T	T			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
DNAH9	1770	broad.mit.edu	37	17	11711192	11711192	+	Missense_Mutation	SNP	A	C	C			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
TUBG2	27175	broad.mit.edu	37	17	40818455	40818455	+	Missense_Mutation	SNP	C	A	A			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
CD300A	11314	broad.mit.edu	37	17	72469886	72469886	+	Silent	SNP	C	G	G			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
ENPP7	339221	broad.mit.edu	37	17	77710932	77710932	+	Missense_Mutation	SNP	C	A	A			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.chr17:77710932C>A	uc002jxa.2	+	4	1139	c.1119C>A	c.(1117-1119)TTC>TTA	p.F373L		NM_178543	NP_848638	Q6UWV6	ENPP7_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	373					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)			GCCCTAGCTTCAGGGCGGGCC	0.607													5	104	---	---	---	---	PASS
TCEB3C	162699	broad.mit.edu	37	18	44554593	44554593	+	Missense_Mutation	SNP	C	G	G			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
SMAD4	4089	broad.mit.edu	37	18	48604754	48604754	+	Nonsense_Mutation	SNP	G	T	T			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
S1PR4	8698	broad.mit.edu	37	19	3179147	3179147	+	Silent	SNP	C	T	T			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
SLC25A41	284427	broad.mit.edu	37	19	6433624	6433624	+	Missense_Mutation	SNP	G	C	C			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
S1PR5	53637	broad.mit.edu	37	19	10624743	10624743	+	Silent	SNP	G	A	A			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
ZSWIM4	65249	broad.mit.edu	37	19	13930269	13930269	+	Missense_Mutation	SNP	C	G	G			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
PKN1	5585	broad.mit.edu	37	19	14580255	14580255	+	Missense_Mutation	SNP	C	A	A			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
SLC27A1	376497	broad.mit.edu	37	19	17581502	17581502	+	Silent	SNP	G	C	C			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
CRTC1	23373	broad.mit.edu	37	19	18864380	18864380	+	Silent	SNP	A	G	G			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
ZNF675	171392	broad.mit.edu	37	19	23845859	23845859	+	Missense_Mutation	SNP	C	A	A			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
ZNF565	147929	broad.mit.edu	37	19	36673603	36673603	+	Missense_Mutation	SNP	T	A	A			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
ZNF780A	284323	broad.mit.edu	37	19	40581535	40581535	+	Missense_Mutation	SNP	A	C	C			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
C19orf54	284325	broad.mit.edu	37	19	41248484	41248484	+	Nonsense_Mutation	SNP	G	A	A			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
MEGF8	1954	broad.mit.edu	37	19	42872647	42872647	+	Missense_Mutation	SNP	G	T	T			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
FBXO46	23403	broad.mit.edu	37	19	46215941	46215941	+	Silent	SNP	G	T	T			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
SNRNP70	6625	broad.mit.edu	37	19	49601727	49601727	+	Missense_Mutation	SNP	G	C	C			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
PPFIA3	8541	broad.mit.edu	37	19	49631272	49631272	+	Missense_Mutation	SNP	G	A	A			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
FCGRT	2217	broad.mit.edu	37	19	50017655	50017655	+	Silent	SNP	C	T	T			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
SIGLEC8	27181	broad.mit.edu	37	19	51957955	51957955	+	Missense_Mutation	SNP	G	C	C			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
ZNF256	10172	broad.mit.edu	37	19	58452800	58452800	+	Missense_Mutation	SNP	C	G	G			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
C20orf7	79133	broad.mit.edu	37	20	13782282	13782282	+	Missense_Mutation	SNP	G	C	C	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
SPAG4	6676	broad.mit.edu	37	20	34204067	34204067	+	Nonsense_Mutation	SNP	G	T	T			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
SPAG4	6676	broad.mit.edu	37	20	34204119	34204119	+	Missense_Mutation	SNP	G	C	C			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
NDRG3	57446	broad.mit.edu	37	20	35312861	35312861	+	Missense_Mutation	SNP	A	G	G			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
PLTP	5360	broad.mit.edu	37	20	44538310	44538310	+	Silent	SNP	G	A	A			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
TSHZ2	128553	broad.mit.edu	37	20	51872765	51872765	+	Missense_Mutation	SNP	A	G	G			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
PMEPA1	56937	broad.mit.edu	37	20	56227337	56227337	+	Silent	SNP	C	T	T			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
VAPB	9217	broad.mit.edu	37	20	57009745	57009745	+	Nonsense_Mutation	SNP	C	G	G			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
ZNF831	128611	broad.mit.edu	37	20	57769737	57769737	+	Silent	SNP	C	T	T			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
ITSN1	6453	broad.mit.edu	37	21	35127600	35127600	+	Splice_Site	SNP	A	T	T			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
CLTCL1	8218	broad.mit.edu	37	22	19197964	19197964	+	Missense_Mutation	SNP	T	A	A			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
SFI1	9814	broad.mit.edu	37	22	32011205	32011205	+	Silent	SNP	G	A	A			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
PICK1	9463	broad.mit.edu	37	22	38469093	38469093	+	Silent	SNP	G	A	A			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
SYNGR1	9145	broad.mit.edu	37	22	39777839	39777839	+	Missense_Mutation	SNP	G	A	A			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
SMCR7L	54471	broad.mit.edu	37	22	39908484	39908484	+	Silent	SNP	C	G	G			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
CACNA1I	8911	broad.mit.edu	37	22	40061891	40061891	+	Missense_Mutation	SNP	C	G	G			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
SMC1B	27127	broad.mit.edu	37	22	45789624	45789624	+	Missense_Mutation	SNP	G	C	C			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
CELSR1	9620	broad.mit.edu	37	22	46859695	46859695	+	Silent	SNP	G	A	A			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
RBBP7	5931	broad.mit.edu	37	X	16881153	16881153	+	Silent	SNP	G	A	A			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
SPANXN5	494197	broad.mit.edu	37	X	52825601	52825601	+	Missense_Mutation	SNP	G	A	A			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
NSDHL	50814	broad.mit.edu	37	X	152037559	152037559	+	Missense_Mutation	SNP	G	A	A			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
DUSP9	1852	broad.mit.edu	37	X	152915069	152915069	+	Nonsense_Mutation	SNP	C	A	A			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
NRG2	9542	broad.mit.edu	37	5	139422532	139422534	+	In_Frame_Del	DEL	GCT	-	-			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.chr5:139422532_139422534delGCT	uc003lex.1	-	1	346_348	c.121_123delAGC	c.(121-123)AGCdel	p.S41del	NRG2_uc003lev.1_In_Frame_Del_p.S41del|NRG2_uc003lew.1_In_Frame_Del_p.S41del|NRG2_uc003ley.1_In_Frame_Del_p.S41del	NM_004883	NP_004874	O14511	NRG2_HUMAN	neuregulin 2 isoform 1	41	Poly-Ser.				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)			tgccgctctcgctgctgctgctg	0.291													6	3	---	---	---	---	
TRAF3	7187	broad.mit.edu	37	14	103372057	103372063	+	Frame_Shift_Del	DEL	ATATTAA	-	-			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	---	---	---	---