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	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
CAMTA1	23261	broad.mit.edu	37	1	7724962	7724962	+	Silent	SNP	G	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:7724962G>A	uc001aoi.2	+	9	2562	c.2355G>A	c.(2353-2355)GGG>GGA	p.G785G		NM_015215	NP_056030	Q9Y6Y1	CMTA1_HUMAN	calmodulin-binding transcription activator 1	785					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calmodulin binding			ovary(5)|central_nervous_system(2)|breast(1)|pancreas(1)	9	Ovarian(185;0.0634)	all_epithelial(116;8.38e-23)|all_lung(118;5.87e-07)|Lung NSC(185;3.43e-06)|Renal(390;0.000219)|Breast(487;0.000307)|Colorectal(325;0.000615)|Hepatocellular(190;0.0088)|Myeloproliferative disorder(586;0.0303)|Ovarian(437;0.0388)		UCEC - Uterine corpus endometrioid carcinoma (279;0.101)|Colorectal(212;1.33e-05)|COAD - Colon adenocarcinoma(227;0.000235)|BRCA - Breast invasive adenocarcinoma(304;0.000864)|Kidney(185;0.00244)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0179)|READ - Rectum adenocarcinoma(331;0.133)		CCGTGGAGGGGGGCAGCAGCA	0.627													84	173	---	---	---	---	PASS
H6PD	9563	broad.mit.edu	37	1	9323588	9323588	+	Missense_Mutation	SNP	A	G	G			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:9323588A>G	uc001apt.2	+	5	1309	c.1036A>G	c.(1036-1038)AAC>GAC	p.N346D		NM_004285	NP_004276	O95479	G6PE_HUMAN	hexose-6-phosphate dehydrogenase precursor	346	Glucose 1-dehydrogenase.					endoplasmic reticulum lumen	6-phosphogluconolactonase activity|glucose 1-dehydrogenase|glucose-6-phosphate dehydrogenase activity|NADP binding				0	all_lung(157;0.23)	all_epithelial(116;1.28e-19)|all_lung(118;5.22e-06)|Lung NSC(185;1.98e-05)|Renal(390;0.000147)|Breast(348;0.00109)|Colorectal(325;0.00205)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;1.88e-07)|COAD - Colon adenocarcinoma(227;7.47e-05)|Kidney(185;0.000244)|KIRC - Kidney renal clear cell carcinoma(229;0.000905)|STAD - Stomach adenocarcinoma(132;0.00176)|BRCA - Breast invasive adenocarcinoma(304;0.00183)|READ - Rectum adenocarcinoma(331;0.0419)	NADH(DB00157)	GCACATTGACAACCTTCGCTG	0.607													27	42	---	---	---	---	PASS
KIF17	57576	broad.mit.edu	37	1	21031280	21031280	+	Silent	SNP	G	C	C			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:21031280G>C	uc001bdr.3	-	5	901	c.783C>G	c.(781-783)ACC>ACG	p.T261T	KIF17_uc001bds.3_Silent_p.T261T	NM_020816	NP_065867	Q9P2E2	KIF17_HUMAN	kinesin family member 17 isoform a	261	Kinesin-motor.				microtubule-based movement|protein transport	cytoplasm|microtubule	ATP binding			ovary(3)|skin(1)	4		all_lung(284;2.99e-05)|Lung NSC(340;3.26e-05)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|COAD - Colon adenocarcinoma(152;1.43e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000168)|Kidney(64;0.000221)|GBM - Glioblastoma multiforme(114;0.000651)|KIRC - Kidney renal clear cell carcinoma(64;0.0031)|STAD - Stomach adenocarcinoma(196;0.00336)|READ - Rectum adenocarcinoma(331;0.0686)|Lung(427;0.209)		GGTTGATCTTGGTGGCCTCCT	0.682													34	49	---	---	---	---	PASS
EIF4G3	8672	broad.mit.edu	37	1	21139701	21139701	+	Missense_Mutation	SNP	G	C	C			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:21139701G>C	uc001bec.2	-	30	4635	c.4379C>G	c.(4378-4380)CCT>CGT	p.P1460R	EIF4G3_uc010odi.1_Missense_Mutation_p.P1064R|EIF4G3_uc010odj.1_Missense_Mutation_p.P1459R|EIF4G3_uc009vpz.2_Missense_Mutation_p.P1180R|EIF4G3_uc001bed.2_Missense_Mutation_p.P1460R|EIF4G3_uc001bef.2_Missense_Mutation_p.P1496R|EIF4G3_uc001bee.2_Missense_Mutation_p.P1466R	NM_003760	NP_003751	O43432	IF4G3_HUMAN	eukaryotic translation initiation factor 4	1460	EIF4A-binding (By similarity).|W2.				interspecies interaction between organisms|regulation of translational initiation|RNA metabolic process	eukaryotic translation initiation factor 4F complex	protein binding|RNA cap binding|translation initiation factor activity			skin(1)	1		all_lung(284;2.61e-06)|Lung NSC(340;2.81e-06)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00149)|Ovarian(437;0.00338)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.023)|COAD - Colon adenocarcinoma(152;5.42e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000327)|GBM - Glioblastoma multiforme(114;0.000696)|Kidney(64;0.0018)|STAD - Stomach adenocarcinoma(196;0.00644)|KIRC - Kidney renal clear cell carcinoma(64;0.0185)|READ - Rectum adenocarcinoma(331;0.124)|Lung(427;0.191)		AAGGAATGTAGGTGAACTCAT	0.308													14	30	---	---	---	---	PASS
RHD	6007	broad.mit.edu	37	1	25599144	25599144	+	Missense_Mutation	SNP	G	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:25599144G>A	uc001bjz.2	+	1	164	c.106G>A	c.(106-108)GCT>ACT	p.A36T	RHD_uc010oep.1_Missense_Mutation_p.A36T|RHD_uc001bkc.2_Missense_Mutation_p.A36T|RHD_uc009vrm.2_5'UTR|RHD_uc001bka.2_Missense_Mutation_p.A36T|RHD_uc001bkb.2_Missense_Mutation_p.A36T|RHD_uc009vrn.2_Missense_Mutation_p.A36T|RHD_uc009vro.2_Missense_Mutation_p.A36T|RHD_uc009vrp.2_Missense_Mutation_p.A36T	NM_016124	NP_057208	Q02161	RHD_HUMAN	Rh blood group D antigen isoform 1	36						integral to plasma membrane				breast(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;0.000245)|all_lung(284;0.000335)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0101)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0936)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0415)|OV - Ovarian serous cystadenocarcinoma(117;7.39e-27)|Colorectal(126;8.83e-09)|COAD - Colon adenocarcinoma(152;6.43e-07)|STAD - Stomach adenocarcinoma(196;0.000332)|BRCA - Breast invasive adenocarcinoma(304;0.000438)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|GBM - Glioblastoma multiforme(114;0.000908)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		CCACTATGACGCTTCCTTAGA	0.547													10	62	---	---	---	---	PASS
RSPO1	284654	broad.mit.edu	37	1	38082241	38082241	+	Missense_Mutation	SNP	G	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:38082241G>T	uc001cbl.1	-	5	989	c.201C>A	c.(199-201)AAC>AAA	p.N67K	RSPO1_uc001cbm.1_Missense_Mutation_p.N67K|RSPO1_uc009vvf.1_Missense_Mutation_p.N40K|RSPO1_uc009vvg.1_Missense_Mutation_p.N67K	NM_001038633	NP_001033722	Q2MKA7	RSPO1_HUMAN	R-spondin1 precursor	67	FU 1.				positive regulation of canonical Wnt receptor signaling pathway|regulation of receptor internalization		heparin binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				GGCGGATGTCGTTCCTCTCCA	0.617													15	53	---	---	---	---	PASS
TIE1	7075	broad.mit.edu	37	1	43775104	43775104	+	Missense_Mutation	SNP	G	C	C			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:43775104G>C	uc001ciu.2	+	9	1313	c.1234G>C	c.(1234-1236)GAG>CAG	p.E412Q	TIE1_uc010okd.1_Missense_Mutation_p.E412Q|TIE1_uc010oke.1_Missense_Mutation_p.E367Q|TIE1_uc009vwq.2_Missense_Mutation_p.E368Q|TIE1_uc010okf.1_Missense_Mutation_p.E57Q|TIE1_uc010okg.1_Missense_Mutation_p.E57Q|TIE1_uc010okc.1_3'UTR	NM_005424	NP_005415	P35590	TIE1_HUMAN	tyrosine kinase with immunoglobulin-like and	412	Ig-like C2-type 2.|Extracellular (Potential).				mesoderm development	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|stomach(1)|salivary_gland(1)|ovary(1)|skin(1)	7	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				AGCTGAGTTCGAGGTGCCCCG	0.597													10	27	---	---	---	---	PASS
ZSWIM5	57643	broad.mit.edu	37	1	45501360	45501360	+	Missense_Mutation	SNP	C	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:45501360C>T	uc001cnd.2	-	10	2519	c.2291G>A	c.(2290-2292)AGG>AAG	p.R764K		NM_020883	NP_065934	Q9P217	ZSWM5_HUMAN	zinc finger, SWIM domain containing 5	764							zinc ion binding				0	Acute lymphoblastic leukemia(166;0.155)					GGCTACCCACCTCATGGCACG	0.463													15	17	---	---	---	---	PASS
PRDX1	5052	broad.mit.edu	37	1	45980646	45980646	+	Silent	SNP	T	C	C			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:45980646T>C	uc001cnz.2	-	3	314	c.282A>G	c.(280-282)CAA>CAG	p.Q94Q	PRDX1_uc001coa.2_Silent_p.Q94Q|PRDX1_uc001cob.2_Silent_p.Q94Q|PRDX1_uc001coc.2_Silent_p.Q94Q	NM_181697	NP_859048	Q06830	PRDX1_HUMAN	peroxiredoxin 1	94	Thioredoxin.				cell proliferation|cell redox homeostasis|hydrogen peroxide catabolic process|skeletal system development	melanosome|mitochondrion|nucleus	protein binding|thioredoxin peroxidase activity				0	Acute lymphoblastic leukemia(166;0.155)					CCAGTCCTCCTTGTTTCTTAG	0.453													55	105	---	---	---	---	PASS
LRRC7	57554	broad.mit.edu	37	1	70397187	70397187	+	Intron	SNP	T	C	C			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:70397187T>C	uc001dep.2	+						LRRC7_uc009wbg.2_Intron	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7							centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						CCATCTGTTGTAGGTCAATGC	0.398													9	16	---	---	---	---	PASS
LPPR5	163404	broad.mit.edu	37	1	99422237	99422237	+	Missense_Mutation	SNP	G	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:99422237G>T	uc001dsb.2	-	2	520	c.298C>A	c.(298-300)CAG>AAG	p.Q100K	LPPR5_uc001dsc.2_Missense_Mutation_p.Q100K	NM_001037317	NP_001032394	Q32ZL2	LPPR5_HUMAN	phosphatidic acid phosphatase type 2d isoform 1	100						integral to membrane	hydrolase activity				0						GTTTTTTCCTGGTTTTCAAAA	0.328													16	38	---	---	---	---	PASS
EPS8L3	79574	broad.mit.edu	37	1	110293417	110293417	+	Intron	SNP	G	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:110293417G>T	uc001dyr.1	-						EPS8L3_uc001dys.1_Intron|EPS8L3_uc001dyq.1_Intron|EPS8L3_uc009wfm.1_Intron	NM_133181	NP_573444	Q8TE67	ES8L3_HUMAN	epidermal growth factor receptor pathway							cytoplasm	protein binding			ovary(2)|skin(1)	3		all_epithelial(167;1.95e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)		Lung(183;0.0245)|Colorectal(144;0.0365)|all cancers(265;0.103)|Epithelial(280;0.109)|LUSC - Lung squamous cell carcinoma(189;0.137)|COAD - Colon adenocarcinoma(174;0.141)		TCACCGTGCTGTGAACAAAAC	0.597													5	12	---	---	---	---	PASS
TARS2	80222	broad.mit.edu	37	1	150477408	150477408	+	Missense_Mutation	SNP	T	C	C			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:150477408T>C	uc001euq.2	+	16	1854	c.1847T>C	c.(1846-1848)GTG>GCG	p.V616A	TARS2_uc001eur.2_Missense_Mutation_p.V534A|TARS2_uc009wlt.2_Missense_Mutation_p.V242A|TARS2_uc009wls.2_Missense_Mutation_p.V486A	NM_025150	NP_079426	Q9BW92	SYTM_HUMAN	threonyl-tRNA synthetase 2, mitochondrial	616					threonyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|threonine-tRNA ligase activity			ovary(1)	1	all_cancers(9;3.13e-53)|all_epithelial(9;3.74e-43)|all_lung(15;2.43e-34)|Lung NSC(24;8.86e-31)|Breast(34;0.000326)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0757)|all cancers(9;1.51e-21)|BRCA - Breast invasive adenocarcinoma(12;0.000734)|LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.206)		L-Threonine(DB00156)	CCGTTCCAGGTGGTGGTCATC	0.552													13	39	---	---	---	---	PASS
RPTN	126638	broad.mit.edu	37	1	152129048	152129048	+	Missense_Mutation	SNP	T	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:152129048T>A	uc001ezs.1	-	3	592	c.527A>T	c.(526-528)CAA>CTA	p.Q176L		NM_001122965	NP_001116437	Q6XPR3	RPTN_HUMAN	repetin	176	Gln-rich.					proteinaceous extracellular matrix	calcium ion binding				0						ATCTCTGTCTTGTCTCTCAGG	0.468													205	195	---	---	---	---	PASS
HCN3	57657	broad.mit.edu	37	1	155252407	155252407	+	Missense_Mutation	SNP	C	T	T	rs34277242		TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:155252407C>T	uc001fjz.1	+	2	492	c.484C>T	c.(484-486)CGG>TGG	p.R162W	RAG1AP1_uc010pey.1_Intron|HCN3_uc010pfz.1_5'UTR	NM_020897	NP_065948	Q9P1Z3	HCN3_HUMAN	hyperpolarization activated cyclic	162	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)|breast(1)	2	all_lung(78;2.32e-23)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		Epithelial(20;3.72e-10)|all cancers(21;1.19e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)			GCTGGCACCGCGGGCCATCCG	0.567													37	53	---	---	---	---	PASS
KLHL20	27252	broad.mit.edu	37	1	173703000	173703000	+	Missense_Mutation	SNP	A	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:173703000A>T	uc001gjc.2	+	3	351	c.172A>T	c.(172-174)ATT>TTT	p.I58F	KLHL20_uc010pmr.1_Intron|KLHL20_uc009wwf.2_Missense_Mutation_p.I40F|KLHL20_uc001gjd.2_Missense_Mutation_p.I58F	NM_014458	NP_055273	Q9Y2M5	KLH20_HUMAN	kelch-like 20	58					cytoskeleton organization|negative regulation of apoptosis|proteasomal ubiquitin-dependent protein catabolic process|response to interferon-alpha	actin cytoskeleton|cell surface|Cul3-RING ubiquitin ligase complex|Golgi apparatus|perinuclear region of cytoplasm|PML body	actin binding|interferon-gamma binding|ubiquitin-protein ligase activity			ovary(1)	1						CTTGGAAGTGATTAACCTTCT	0.527													19	77	---	---	---	---	PASS
RC3H1	149041	broad.mit.edu	37	1	173907969	173907969	+	Missense_Mutation	SNP	T	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:173907969T>A	uc001gju.3	-	19	3379	c.3292A>T	c.(3292-3294)AGC>TGC	p.S1098C	RC3H1_uc010pms.1_Missense_Mutation_p.S1089C|RC3H1_uc001gjv.2_Missense_Mutation_p.S1090C|RC3H1_uc010pmt.1_Missense_Mutation_p.S1099C	NM_172071	NP_742068	Q5TC82	RC3H1_HUMAN	roquin	1098					cytoplasmic mRNA processing body assembly|negative regulation of activated T cell proliferation|negative regulation of B cell proliferation|negative regulation of germinal center formation|negative regulation of T-helper cell differentiation|nuclear-transcribed mRNA catabolic process|regulation of mRNA stability|regulation of T cell receptor signaling pathway	cytoplasmic mRNA processing body|stress granule	mRNA 3'-UTR binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						GATAGGAGGCTGATATTCTCT	0.413													52	46	---	---	---	---	PASS
DHX9	1660	broad.mit.edu	37	1	182812436	182812436	+	Missense_Mutation	SNP	T	G	G			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:182812436T>G	uc001gpr.2	+	3	282	c.119T>G	c.(118-120)GTG>GGG	p.V40G	DHX9_uc001gps.2_5'UTR	NM_001357	NP_001348	Q08211	DHX9_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 9	40	DRBM 1.|Interaction with CREBBP.				CRD-mediated mRNA stabilization|nuclear mRNA splicing, via spliceosome	centrosome|CRD-mediated mRNA stability complex|nucleolus|nucleoplasm|ribonucleoprotein complex	ATP binding|ATP-dependent DNA helicase activity|ATP-dependent RNA helicase activity|DNA binding|double-stranded RNA binding|protein binding			ovary(2)	2						AAGGTTCAGGTGGAAGGTTAT	0.333													7	32	---	---	---	---	PASS
HMCN1	83872	broad.mit.edu	37	1	186072723	186072723	+	Missense_Mutation	SNP	G	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:186072723G>T	uc001grq.1	+	69	10922	c.10693G>T	c.(10693-10695)GAT>TAT	p.D3565Y		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	3565	Ig-like C2-type 34.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						CTGGATGAAAGATGGCCGGCC	0.438													27	24	---	---	---	---	PASS
HMCN1	83872	broad.mit.edu	37	1	186072724	186072724	+	Missense_Mutation	SNP	A	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:186072724A>T	uc001grq.1	+	69	10923	c.10694A>T	c.(10693-10695)GAT>GTT	p.D3565V		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	3565	Ig-like C2-type 34.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						TGGATGAAAGATGGCCGGCCC	0.438													27	22	---	---	---	---	PASS
KCNT2	343450	broad.mit.edu	37	1	196461394	196461394	+	Nonsense_Mutation	SNP	G	C	C			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:196461394G>C	uc001gtd.1	-	2	233	c.173C>G	c.(172-174)TCA>TGA	p.S58*	KCNT2_uc001gte.1_Nonsense_Mutation_p.S58*|KCNT2_uc001gtf.1_Nonsense_Mutation_p.S58*|KCNT2_uc001gtg.1_RNA|KCNT2_uc009wyu.2_Nonsense_Mutation_p.S58*|KCNT2_uc009wyv.1_Nonsense_Mutation_p.S58*	NM_198503	NP_940905	Q6UVM3	KCNT2_HUMAN	potassium channel, subfamily T, member 2	58	Cytoplasmic (Potential).					voltage-gated potassium channel complex	ATP binding|calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(5)|breast(1)|skin(1)	7						TAACTTACTTGATCTCTGGTT	0.259													5	6	---	---	---	---	PASS
CRB1	23418	broad.mit.edu	37	1	197404496	197404496	+	Missense_Mutation	SNP	G	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:197404496G>A	uc001gtz.2	+	9	3638	c.3503G>A	c.(3502-3504)GGA>GAA	p.G1168E	CRB1_uc010poz.1_Missense_Mutation_p.G1144E|CRB1_uc010ppa.1_RNA|CRB1_uc009wza.2_Missense_Mutation_p.G1056E|CRB1_uc010ppb.1_Intron|CRB1_uc010ppd.1_Missense_Mutation_p.G649E|CRB1_uc001gub.1_Missense_Mutation_p.G817E	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	1168	Extracellular (Potential).|EGF-like 15.				cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						TGTCCCTTGGGATGGTCAGGG	0.473													10	40	---	---	---	---	PASS
NAV1	89796	broad.mit.edu	37	1	201687855	201687855	+	Missense_Mutation	SNP	A	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:201687855A>T	uc001gwu.2	+	3	1545	c.1198A>T	c.(1198-1200)ATG>TTG	p.M400L		NM_020443	NP_065176	Q8NEY1	NAV1_HUMAN	neuron navigator 1	400					cell differentiation|nervous system development	cytoplasm|microtubule	nucleoside-triphosphatase activity|nucleotide binding			central_nervous_system(3)|ovary(1)	4						GGGCAAGACCATGACGGAGGA	0.582													47	39	---	---	---	---	PASS
CR1L	1379	broad.mit.edu	37	1	207871122	207871122	+	Missense_Mutation	SNP	C	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:207871122C>A	uc001hga.3	+	7	1167	c.1046C>A	c.(1045-1047)TCC>TAC	p.S349Y	CR1L_uc001hfz.2_RNA|CR1L_uc001hgb.1_RNA	NM_175710	NP_783641	Q2VPA4	CR1L_HUMAN	complement component (3b/4b) receptor 1-like	349	Sushi 6.					cytoplasm|extracellular region|membrane					0						CCAGTGAAATCCTGTGATGAC	0.408													46	202	---	---	---	---	PASS
KCNH1	3756	broad.mit.edu	37	1	210948775	210948775	+	Missense_Mutation	SNP	G	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:210948775G>A	uc001hib.2	-	10	2197	c.2027C>T	c.(2026-2028)GCC>GTC	p.A676V	KCNH1_uc001hic.2_Missense_Mutation_p.A649V	NM_172362	NP_758872	O95259	KCNH1_HUMAN	potassium voltage-gated channel, subfamily H,	676	Cytoplasmic (Potential).|cNMP.|Calmodulin-binding.				myoblast fusion|regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	calmodulin binding|delayed rectifier potassium channel activity|two-component sensor activity			ovary(4)|central_nervous_system(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.0109)|all cancers(67;0.141)|Epithelial(68;0.185)		TTTCTGCAGGGCATCCCGCTT	0.512													3	40	---	---	---	---	PASS
USH2A	7399	broad.mit.edu	37	1	215953391	215953391	+	Intron	SNP	C	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:215953391C>T	uc001hku.1	-							NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B						maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TACCTGAAGACGTAGGAATTA	0.453										HNSCC(13;0.011)			5	34	---	---	---	---	PASS
USH2A	7399	broad.mit.edu	37	1	216256872	216256872	+	Missense_Mutation	SNP	A	G	G			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:216256872A>G	uc001hku.1	-	26	5611	c.5224T>C	c.(5224-5226)TTT>CTT	p.F1742L		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	1742	Laminin G-like 2.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		CTGAACTTAAAGGAAATCTCA	0.299										HNSCC(13;0.011)			49	119	---	---	---	---	PASS
USH2A	7399	broad.mit.edu	37	1	216595381	216595381	+	Missense_Mutation	SNP	G	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:216595381G>A	uc001hku.1	-	2	685	c.298C>T	c.(298-300)CTT>TTT	p.L100F	USH2A_uc001hkv.2_Missense_Mutation_p.L100F	NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	100	Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		GCTGAGAAAAGGGCAGTGTAG	0.453										HNSCC(13;0.011)			17	49	---	---	---	---	PASS
RHOU	58480	broad.mit.edu	37	1	228873446	228873446	+	Missense_Mutation	SNP	G	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:228873446G>A	uc001htf.2	+	2	910	c.289G>A	c.(289-291)GTG>ATG	p.V97M		NM_021205	NP_067028	Q7L0Q8	RHOU_HUMAN	ras homolog gene family, member U	97					regulation of small GTPase mediated signal transduction	cell projection|cytosol|focal adhesion|Golgi membrane|podosome	GTP binding|metal ion binding|protein binding				0	Breast(184;0.162)	Prostate(94;0.183)				TGGGCGGCCCGTGAGACTCCA	0.443													25	37	---	---	---	---	PASS
TAF5L	27097	broad.mit.edu	37	1	229738436	229738436	+	Missense_Mutation	SNP	C	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:229738436C>A	uc001htq.2	-	4	644	c.478G>T	c.(478-480)GAT>TAT	p.D160Y	TAF5L_uc001htr.2_Missense_Mutation_p.D160Y	NM_014409	NP_055224	O75529	TAF5L_HUMAN	PCAF associated factor 65 beta isoform a	160					histone H3 acetylation|transcription from RNA polymerase II promoter	STAGA complex|transcription factor TFTC complex	sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(1)	1	Breast(184;0.193)|Ovarian(103;0.249)	Prostate(94;0.167)				TACTTGTTATCTAGGAATGCT	0.468													63	66	---	---	---	---	PASS
FMN2	56776	broad.mit.edu	37	1	240256012	240256012	+	Silent	SNP	G	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:240256012G>A	uc010pyd.1	+	1	828	c.603G>A	c.(601-603)CAG>CAA	p.Q201Q	FMN2_uc010pye.1_Silent_p.Q201Q	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	201	Potential.|Gln-rich.				actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			ACATCCAGCAGGCGATCCGCC	0.428													8	32	---	---	---	---	PASS
FMN2	56776	broad.mit.edu	37	1	240519117	240519117	+	Silent	SNP	C	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:240519117C>A	uc010pyd.1	+	14	4992	c.4767C>A	c.(4765-4767)GCC>GCA	p.A1589A	FMN2_uc010pye.1_Silent_p.A1593A|FMN2_uc010pyf.1_Intron|FMN2_uc010pyg.1_Silent_p.A185A	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	1589	FH2.|Potential.				actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			TAATTTCAGCCTGTGAAGTTG	0.353													12	18	---	---	---	---	PASS
RGS7	6000	broad.mit.edu	37	1	241146395	241146395	+	Silent	SNP	T	C	C			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:241146395T>C	uc001hyv.2	-	4	540	c.210A>G	c.(208-210)TTA>TTG	p.L70L	RGS7_uc010pyh.1_Silent_p.L44L|RGS7_uc010pyj.1_5'UTR|RGS7_uc001hyu.2_Silent_p.L70L|RGS7_uc009xgn.1_Silent_p.L70L|RGS7_uc001hyw.2_Silent_p.L70L	NM_002924	NP_002915	P49802	RGS7_HUMAN	regulator of G-protein signaling 7	70	DEP.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|protein binding|signal transducer activity			ovary(4)|skin(2)|kidney(1)	7		all_cancers(173;0.0131)	OV - Ovarian serous cystadenocarcinoma(106;0.027)			CTTCTATAGTTAAGTTCTTTA	0.274													9	16	---	---	---	---	PASS
SDCCAG8	10806	broad.mit.edu	37	1	243581361	243581361	+	Silent	SNP	A	G	G			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:243581361A>G	uc001hzw.2	+	15	1992	c.1836A>G	c.(1834-1836)CAA>CAG	p.Q612Q	SDCCAG8_uc010pyk.1_Silent_p.Q467Q|SDCCAG8_uc010pyl.1_Silent_p.Q424Q|SDCCAG8_uc001hzx.2_Intron	NM_006642	NP_006633	Q86SQ7	SDCG8_HUMAN	serologically defined colon cancer antigen 8	612	Mediates interaction with OFD1.|Gln-rich.|Potential.|Sufficient for homodimerization (By similarity).				establishment of cell polarity|G2/M transition of mitotic cell cycle|tube formation	cell-cell junction|centriole|cytosol	protein binding				0	all_cancers(71;0.000545)|all_epithelial(71;0.000509)|all_lung(81;0.0821)|Ovarian(71;0.0919)|all_neural(11;0.101)|Breast(184;0.218)	all_cancers(173;0.00395)	all cancers(7;1.58e-07)|GBM - Glioblastoma multiforme(7;5.12e-06)|OV - Ovarian serous cystadenocarcinoma(106;0.00392)	COAD - Colon adenocarcinoma(196;0.145)		AACTGGAACAAATCTCTCAAA	0.328													17	54	---	---	---	---	PASS
OR2M2	391194	broad.mit.edu	37	1	248343811	248343811	+	Missense_Mutation	SNP	C	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:248343811C>A	uc010pzf.1	+	1	524	c.524C>A	c.(523-525)GCC>GAC	p.A175D		NM_001004688	NP_001004688	Q96R28	OR2M2_HUMAN	olfactory receptor, family 2, subfamily M,	175	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|skin(1)	4	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			CGGGAAATAGCCCACTTCTTC	0.428													145	150	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	2	905530	905530	+	RNA	SNP	T	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:905530T>A	uc010ewg.2	-	1		c.53A>T			uc010ewh.1_Missense_Mutation_p.E139V					Homo sapiens cDNA FLJ46162 fis, clone TESTI4002520.																		TTTCATTTCCTCCCGGCCTCC	0.612													8	371	---	---	---	---	PASS
XDH	7498	broad.mit.edu	37	2	31572970	31572970	+	Silent	SNP	C	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:31572970C>A	uc002rnv.1	-	25	2830	c.2751G>T	c.(2749-2751)GGG>GGT	p.G917G		NM_000379	NP_000370	P47989	XDH_HUMAN	xanthine dehydrogenase	917					purine nucleotide catabolic process|xanthine catabolic process	cytosol|extracellular region|peroxisome	2 iron, 2 sulfur cluster binding|electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|molybdopterin cofactor binding|protein homodimerization activity|xanthine dehydrogenase activity|xanthine oxidase activity			skin(4)|breast(2)|ovary(1)|central_nervous_system(1)	8	Acute lymphoblastic leukemia(172;0.155)				Allopurinol(DB00437)|Carvedilol(DB01136)|Daunorubicin(DB00694)|Deferoxamine(DB00746)|Desflurane(DB01189)|Menadione(DB00170)|Mercaptopurine(DB01033)|Methotrexate(DB00563)|NADH(DB00157)|Nitrofurazone(DB00336)|Papaverine(DB01113)|Procarbazine(DB01168)|Pyrazinamide(DB00339)|Rasburicase(DB00049)|Spermine(DB00127)|Trifluoperazine(DB00831)|Vitamin E(DB00163)	TCCCCTGGGGCCCCCCAAAGC	0.572													43	98	---	---	---	---	PASS
FSHR	2492	broad.mit.edu	37	2	49190309	49190309	+	Missense_Mutation	SNP	G	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:49190309G>A	uc002rww.2	-	10	1725	c.1651C>T	c.(1651-1653)CAC>TAC	p.H551Y	FSHR_uc002rwx.2_Missense_Mutation_p.H489Y|FSHR_uc010fbn.2_Missense_Mutation_p.H525Y	NM_000145	NP_000136	P23945	FSHR_HUMAN	follicle stimulating hormone receptor isoform 1	551	Cytoplasmic (Potential).				female gamete generation|male gonad development|spermatogenesis	integral to membrane|plasma membrane	follicle-stimulating hormone receptor activity|protein binding			ovary(4)|lung(2)|central_nervous_system(1)|skin(1)	8		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.181)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Choriogonadotropin alfa(DB00097)|Follitropin beta(DB00066)|Menotropins(DB00032)|Urofollitropin(DB00094)	AGGTAGATGTGGATATAGCAG	0.532									Gonadal_Dysgenesis_46_XX				5	13	---	---	---	---	PASS
CYP26B1	56603	broad.mit.edu	37	2	72360206	72360206	+	Silent	SNP	C	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:72360206C>A	uc002sih.1	-	5	1092	c.1092G>T	c.(1090-1092)CTG>CTT	p.L364L	CYP26B1_uc010yra.1_Silent_p.L347L|CYP26B1_uc010yrb.1_Silent_p.L289L	NM_019885	NP_063938	Q9NR63	CP26B_HUMAN	cytochrome P450, family 26, subfamily b,	364					cell fate determination|embryonic limb morphogenesis|male meiosis|negative regulation of retinoic acid receptor signaling pathway|proximal/distal pattern formation|retinoic acid catabolic process|spermatogenesis|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	electron carrier activity|heme binding|retinoic acid 4-hydroxylase activity|retinoic acid binding			skin(2)	2						TGGGCGTGAACAGGCGCATGA	0.677													10	36	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	2	89309502	89309502	+	RNA	SNP	A	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:89309502A>T	uc010ytr.1	-	74		c.6845T>A			uc002stl.2_Intron					Parts of antibodies, mostly variable regions.																		AGCTGTTGACAGTAATAAGTT	0.522													41	78	---	---	---	---	PASS
CREG2	200407	broad.mit.edu	37	2	101967539	101967539	+	Intron	SNP	G	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:101967539G>T	uc002tba.2	-							NM_153836	NP_722578	Q8IUH2	CREG2_HUMAN	cellular repressor of E1A-stimulated genes 2							extracellular region	FMN binding			ovary(1)	1						GTGCCTGCAGGAATAAAGAGA	0.498													15	21	---	---	---	---	PASS
GCC2	9648	broad.mit.edu	37	2	109087168	109087168	+	Silent	SNP	T	C	C			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:109087168T>C	uc002tec.2	+	6	1537	c.1383T>C	c.(1381-1383)GGT>GGC	p.G461G	GCC2_uc002ted.2_Silent_p.G360G	NM_181453	NP_852118	Q8IWJ2	GCC2_HUMAN	GRIP and coiled-coil domain-containing 2	461	Potential.				Golgi ribbon formation|late endosome to Golgi transport|microtubule anchoring|microtubule organizing center organization|protein localization in Golgi apparatus|protein targeting to lysosome|recycling endosome to Golgi transport|regulation of protein exit from endoplasmic reticulum	membrane|trans-Golgi network	identical protein binding			ovary(1)	1						AAATACAGGGTCTTAAGGAAC	0.299													17	25	---	---	---	---	PASS
MARCO	8685	broad.mit.edu	37	2	119732020	119732020	+	Intron	SNP	C	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:119732020C>A	uc002tln.1	+						MARCO_uc010yyf.1_Intron	NM_006770	NP_006761	Q9UEW3	MARCO_HUMAN	macrophage receptor with collagenous structure						cell surface receptor linked signaling pathway|innate immune response	collagen|integral to plasma membrane	pattern recognition receptor activity|scavenger receptor activity			ovary(3)|skin(2)|central_nervous_system(1)	6						GCAACAGGTACGGGTCTTTTT	0.607													5	8	---	---	---	---	PASS
LRP1B	53353	broad.mit.edu	37	2	141232773	141232773	+	Missense_Mutation	SNP	T	C	C			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:141232773T>C	uc002tvj.1	-	60	10531	c.9559A>G	c.(9559-9561)AGA>GGA	p.R3187G		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3187	Extracellular (Potential).|LDL-receptor class B 31.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		CAGTAGAGTCTACGATTAACA	0.368										TSP Lung(27;0.18)			35	37	---	---	---	---	PASS
LRP1B	53353	broad.mit.edu	37	2	141473550	141473550	+	Silent	SNP	T	A	A	rs148114444		TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:141473550T>A	uc002tvj.1	-	37	6987	c.6015A>T	c.(6013-6015)CCA>CCT	p.P2005P		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2005	Extracellular (Potential).|LDL-receptor class B 20.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		ACCCTTTCTCTGGGTGCACAG	0.328										TSP Lung(27;0.18)			26	45	---	---	---	---	PASS
LRP2	4036	broad.mit.edu	37	2	170013975	170013975	+	Silent	SNP	G	A	A	rs143815721		TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:170013975G>A	uc002ues.2	-	64	12138	c.11925C>T	c.(11923-11925)TGC>TGT	p.C3975C		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	3975	EGF-like 14.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	AATTTTGCTCGCATATATTTT	0.383													9	15	---	---	---	---	PASS
ZSWIM2	151112	broad.mit.edu	37	2	187697967	187697967	+	Intron	SNP	A	C	C			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:187697967A>C	uc002upu.1	-							NM_182521	NP_872327	Q8NEG5	ZSWM2_HUMAN	zinc finger, SWIM domain containing 2						apoptosis		zinc ion binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.164)			TTTCTGTAATAGGTAAAAGTA	0.289													7	2	---	---	---	---	PASS
PGAP1	80055	broad.mit.edu	37	2	197777635	197777635	+	Missense_Mutation	SNP	G	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:197777635G>A	uc002utw.2	-	4	734	c.620C>T	c.(619-621)CCT>CTT	p.P207L	PGAP1_uc002utx.2_Missense_Mutation_p.P33L|PGAP1_uc002uty.1_Missense_Mutation_p.P207L|PGAP1_uc010zgv.1_RNA|PGAP1_uc010fsj.2_Missense_Mutation_p.P33L	NM_024989	NP_079265	Q75T13	PGAP1_HUMAN	GPI deacylase	207	Lumenal (Potential).				attachment of GPI anchor to protein|C-terminal protein lipidation|intracellular protein transport|myo-inositol transport	integral to membrane|intrinsic to endoplasmic reticulum membrane	nuclease activity|phosphoric ester hydrolase activity			ovary(3)|central_nervous_system(1)	4						TGGCATCACAGGAGCAACATG	0.333													15	32	---	---	---	---	PASS
MDH1B	130752	broad.mit.edu	37	2	207604309	207604309	+	Intron	SNP	C	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:207604309C>A	uc002vbs.2	-						MDH1B_uc010ziw.1_Intron|MDH1B_uc010fui.2_Intron|MDH1B_uc010fuj.2_Intron|MDH1B_uc002vbt.2_Intron	NM_001039845	NP_001034934	Q5I0G3	MDH1B_HUMAN	malate dehydrogenase 1B, NAD (soluble)						carbohydrate metabolic process|malate metabolic process|tricarboxylic acid cycle		binding|malate dehydrogenase activity			ovary(3)|kidney(1)	4				LUSC - Lung squamous cell carcinoma(261;0.0763)|Epithelial(149;0.131)|Lung(261;0.145)		GTTTTGTCTACCACCTACCAT	0.378													9	29	---	---	---	---	PASS
MDH1B	130752	broad.mit.edu	37	2	207604310	207604310	+	Intron	SNP	C	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:207604310C>A	uc002vbs.2	-						MDH1B_uc010ziw.1_Intron|MDH1B_uc010fui.2_Intron|MDH1B_uc010fuj.2_Intron|MDH1B_uc002vbt.2_Intron	NM_001039845	NP_001034934	Q5I0G3	MDH1B_HUMAN	malate dehydrogenase 1B, NAD (soluble)						carbohydrate metabolic process|malate metabolic process|tricarboxylic acid cycle		binding|malate dehydrogenase activity			ovary(3)|kidney(1)	4				LUSC - Lung squamous cell carcinoma(261;0.0763)|Epithelial(149;0.131)|Lung(261;0.145)		TTTTGTCTACCACCTACCATT	0.373													9	28	---	---	---	---	PASS
PTPRN	5798	broad.mit.edu	37	2	220167078	220167078	+	Missense_Mutation	SNP	G	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:220167078G>A	uc002vkz.2	-	6	864	c.775C>T	c.(775-777)CAC>TAC	p.H259Y	PTPRN_uc010zlc.1_Missense_Mutation_p.H169Y|PTPRN_uc002vla.2_Missense_Mutation_p.H259Y	NM_002846	NP_002837	Q16849	PTPRN_HUMAN	protein tyrosine phosphatase, receptor type, N	259	Extracellular (Potential).				response to reactive oxygen species	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity	p.H259Y(1)		ovary(2)|lung(1)|skin(1)	4		Renal(207;0.0474)		Epithelial(149;4.22e-07)|all cancers(144;8.82e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)|STAD - Stomach adenocarcinoma(1183;0.0875)		CCGTAGGAGTGGCCAGGGTGG	0.637													8	14	---	---	---	---	PASS
GPR55	9290	broad.mit.edu	37	2	231775189	231775189	+	Silent	SNP	C	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:231775189C>A	uc002vrg.2	-	2	682	c.489G>T	c.(487-489)GTG>GTT	p.V163V	GPR55_uc002vrf.2_RNA|GPR55_uc010fxs.1_Silent_p.V163V	NM_005683	NP_005674	Q9Y2T6	GPR55_HUMAN	G protein-coupled receptor 55	163	Extracellular (Potential).				activation of phospholipase C activity|bone resorption|negative regulation of osteoclast differentiation|positive regulation of ERK1 and ERK2 cascade|positive regulation of Rho protein signal transduction	integral to plasma membrane	cannabinoid receptor activity			ovary(1)	1		Renal(207;0.0112)|all_lung(227;0.0741)|all_hematologic(139;0.0748)|Acute lymphoblastic leukemia(138;0.167)|Lung NSC(271;0.204)		Epithelial(121;1.04e-11)|all cancers(144;4.22e-09)|LUSC - Lung squamous cell carcinoma(224;0.0119)|Lung(119;0.0145)		TGTATTTTTCCACTTTCCCAT	0.542													24	55	---	---	---	---	PASS
AQP12A	375318	broad.mit.edu	37	2	241631698	241631698	+	Missense_Mutation	SNP	C	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:241631698C>A	uc002vzu.2	+	2	400	c.331C>A	c.(331-333)CAG>AAG	p.Q111K	AQP12A_uc002vzv.2_RNA	NM_198998	NP_945349	Q8IXF9	AQ12A_HUMAN	aquaporin 12A	111	Helical; Name=3; (Potential).					integral to membrane	transporter activity				0		all_epithelial(40;7.49e-12)|Breast(86;0.000148)|Renal(207;0.00571)|Ovarian(221;0.104)|all_neural(83;0.107)|all_hematologic(139;0.182)|all_lung(227;0.186)|Melanoma(123;0.238)		Epithelial(32;2.2e-31)|all cancers(36;1.08e-28)|OV - Ovarian serous cystadenocarcinoma(60;2.13e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;7.52e-06)|Lung(119;0.00163)|LUSC - Lung squamous cell carcinoma(224;0.008)|Colorectal(34;0.0124)|COAD - Colon adenocarcinoma(134;0.0757)		GCTGGGCATGCAGGCCGCCTG	0.687													16	28	---	---	---	---	PASS
CCR5	1234	broad.mit.edu	37	3	46414528	46414528	+	Silent	SNP	T	C	C			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:46414528T>C	uc003cpo.3	+	3	257	c.135T>C	c.(133-135)TTT>TTC	p.F45F	CCR5_uc010hjd.2_Silent_p.F45F	NM_001100168	NP_001093638	P51681	CCR5_HUMAN	chemokine (C-C motif) receptor 5	45	Helical; Name=1; (Potential).				cell-cell signaling|cellular defense response|dendritic cell chemotaxis|elevation of cytosolic calcium ion concentration|entry into host cell|immune response|inflammatory response|initiation of viral infection	endosome|external side of plasma membrane|integral to plasma membrane	actin binding|C-C chemokine receptor activity|coreceptor activity|phosphatidylinositol phospholipase C activity			lung(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6				BRCA - Breast invasive adenocarcinoma(193;0.00112)|KIRC - Kidney renal clear cell carcinoma(197;0.017)|Kidney(197;0.02)	Maraviroc(DB04835)	TCTTTGGTTTTGTGGGCAACA	0.478													52	39	---	---	---	---	PASS
OR5H14	403273	broad.mit.edu	37	3	97868652	97868652	+	Silent	SNP	C	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:97868652C>T	uc003dsg.1	+	1	423	c.423C>T	c.(421-423)TGC>TGT	p.C141C		NM_001005514	NP_001005514	A6NHG9	O5H14_HUMAN	olfactory receptor, family 5, subfamily H,	141	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						ATGGACTGTGCATCCGGCTAT	0.388													47	152	---	---	---	---	PASS
SLC9A10	285335	broad.mit.edu	37	3	111997567	111997567	+	Intron	SNP	A	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:111997567A>T	uc003dyu.2	-						SLC9A10_uc011bhu.1_Intron|SLC9A10_uc010hqc.2_Intron	NM_183061	NP_898884	Q4G0N8	S9A10_HUMAN	sperm-specific sodium proton exchanger						cell differentiation|multicellular organismal development|sodium ion transport|spermatogenesis	cilium|flagellar membrane|integral to membrane	solute:hydrogen antiporter activity			ovary(3)|breast(2)	5						ACCAAAAAAGAATGCTTACCT	0.284													26	63	---	---	---	---	PASS
DIRC2	84925	broad.mit.edu	37	3	122525799	122525799	+	Splice_Site	SNP	T	C	C			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:122525799T>C	uc003efw.3	+	2	576	c.437_splice	c.e2+2	p.R146_splice	DIRC2_uc010hrl.2_Splice_Site|DIRC2_uc010hrm.2_Intron	NM_032839	NP_116228	Q96SL1	DIRC2_HUMAN	disrupted in renal carcinoma 2						transport	integral to membrane					0				GBM - Glioblastoma multiforme(114;0.0614)		TAAAAGAAGGTAAATCCTGTA	0.328													25	24	---	---	---	---	PASS
CEP63	80254	broad.mit.edu	37	3	134251738	134251738	+	Missense_Mutation	SNP	T	C	C	rs145156085	byFrequency	TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:134251738T>C	uc003eqo.1	+	6	886	c.437T>C	c.(436-438)ATA>ACA	p.I146T	CEP63_uc003eql.1_Missense_Mutation_p.I146T|CEP63_uc003eqm.2_Missense_Mutation_p.I146T|CEP63_uc003eqn.1_Missense_Mutation_p.I146T	NM_025180	NP_079456	Q96MT8	CEP63_HUMAN	centrosomal protein 63 isoform a	146	Potential.				cell division|DNA damage checkpoint|G2/M transition of mitotic cell cycle|mitosis|signal transduction in response to DNA damage|spindle assembly	centrosome|cytosol|spindle pole	protein binding			ovary(1)	1						ACTGCAAAAATAGAGGTATGT	0.358													14	21	---	---	---	---	PASS
BCHE	590	broad.mit.edu	37	3	165504057	165504057	+	Silent	SNP	G	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:165504057G>A	uc003fem.3	-	3	1720	c.1560C>T	c.(1558-1560)GTC>GTT	p.V520V	BCHE_uc003fen.3_RNA	NM_000055	NP_000046	P06276	CHLE_HUMAN	butyrylcholinesterase precursor	520					choline metabolic process|cocaine metabolic process|synaptic transmission, cholinergic	endoplasmic reticulum lumen|extracellular space|membrane	acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|enzyme binding			ovary(3)|pancreas(1)	4					Ambenonium(DB01122)|Atropine(DB00572)|Bambuterol(DB01408)|Chlorpromazine(DB00477)|Choline(DB00122)|Cinnarizine(DB00568)|Demecarium bromide(DB00944)|Dibucaine(DB00527)|Donepezil(DB00843)|Echothiophate Iodide(DB01057)|Edrophonium(DB01010)|Ethopropazine(DB00392)|Etomidate(DB00292)|Galantamine(DB00674)|Hexafluronium bromide(DB00941)|Isoflurophate(DB00677)|Mefloquine(DB00358)|Mivacurium(DB01226)|Neostigmine(DB01400)|Pancuronium(DB01337)|Pralidoxime(DB00733)|Procainamide(DB01035)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Succinylcholine(DB00202)|Terbutaline(DB00871)|Trimethaphan(DB01116)	TGCTTTTGAAGACAGGCCAGC	0.318													14	58	---	---	---	---	PASS
ECT2	1894	broad.mit.edu	37	3	172534584	172534584	+	Missense_Mutation	SNP	A	C	C			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:172534584A>C	uc003fii.2	+	23	2657	c.2519A>C	c.(2518-2520)GAT>GCT	p.D840A	ECT2_uc003fih.2_Missense_Mutation_p.D839A|ECT2_uc003fij.1_Missense_Mutation_p.D840A|ECT2_uc003fik.1_Missense_Mutation_p.D840A|ECT2_uc003fil.1_Missense_Mutation_p.D871A|ECT2_uc003fim.1_Missense_Mutation_p.D139A	NM_018098	NP_060568	Q9H8V3	ECT2_HUMAN	epithelial cell transforming sequence 2 oncogene	840					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity|signal transducer activity			breast(2)|ovary(1)|skin(1)	4	Ovarian(172;0.00197)|Breast(254;0.158)		Lung(28;1.33e-14)|LUSC - Lung squamous cell carcinoma(14;1.48e-14)			TCCAGCAATGATAAGCATGTA	0.388													33	113	---	---	---	---	PASS
PEX5L	51555	broad.mit.edu	37	3	179754368	179754368	+	Missense_Mutation	SNP	T	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:179754368T>A	uc003fki.1	-	1	150	c.20A>T	c.(19-21)CAG>CTG	p.Q7L	PEX5L_uc003fkj.1_Missense_Mutation_p.Q7L|PEX5L_uc010hxd.1_Missense_Mutation_p.Q7L|PEX5L_uc011bqg.1_Missense_Mutation_p.Q7L|PEX5L_uc011bqh.1_Missense_Mutation_p.Q7L	NM_016559	NP_057643	Q8IYB4	PEX5R_HUMAN	peroxisomal biogenesis factor 5-like	7					protein import into peroxisome matrix|regulation of cAMP-mediated signaling	cytosol|peroxisomal membrane	peroxisome matrix targeting signal-1 binding			ovary(3)|large_intestine(1)	4	all_cancers(143;3.94e-14)|Ovarian(172;0.0338)|Breast(254;0.183)		OV - Ovarian serous cystadenocarcinoma(80;1.75e-26)|GBM - Glioblastoma multiforme(14;0.000518)			ATGTCTTACCTGCATGTGTCC	0.522													38	173	---	---	---	---	PASS
ECE2	9718	broad.mit.edu	37	3	183975455	183975455	+	Missense_Mutation	SNP	G	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:183975455G>T	uc003fni.3	+	2	429	c.391G>T	c.(391-393)GGC>TGC	p.G131C	ECE2_uc003fnh.3_Missense_Mutation_p.G131C	NM_014693	NP_055508	O60344	ECE2_HUMAN	endothelin converting enzyme 2 isoform A	131	Cytoplasmic (Potential).|Methyltransferase-like region.				brain development|cardioblast differentiation|cell-cell signaling|peptide hormone processing	cytoplasmic vesicle membrane|Golgi membrane|integral to membrane	metal ion binding|metalloendopeptidase activity|methyltransferase activity			ovary(2)|skin(2)	4	all_cancers(143;1.39e-10)|Ovarian(172;0.0339)		Epithelial(37;8.28e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			GCTCGAGAAGGGCACGCTGGA	0.617													11	61	---	---	---	---	PASS
ZFYVE28	57732	broad.mit.edu	37	4	2306729	2306729	+	Silent	SNP	C	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:2306729C>A	uc003gex.1	-	8	1657	c.1338G>T	c.(1336-1338)GGG>GGT	p.G446G	ZFYVE28_uc011bvk.1_Silent_p.G376G|ZFYVE28_uc011bvl.1_Silent_p.G416G|ZFYVE28_uc003gew.1_Silent_p.G332G	NM_020972	NP_066023	Q9HCC9	LST2_HUMAN	zinc finger, FYVE domain containing 28	446					negative regulation of epidermal growth factor receptor activity	cytosol|early endosome membrane	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			skin(2)|ovary(1)	3						GCAAGCTGATCCCCGCCGCTC	0.687													14	28	---	---	---	---	PASS
YIPF7	285525	broad.mit.edu	37	4	44638112	44638112	+	Intron	SNP	G	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:44638112G>T	uc010ifx.1	-						YIPF7_uc010ify.1_Intron	NM_182592	NP_872398	Q8N8F6	YIPF7_HUMAN	Yip1 domain family, member 7							endoplasmic reticulum membrane|integral to membrane					0						TCTAGAAAAAGAAAAATACAA	0.363													9	7	---	---	---	---	PASS
HADH	3033	broad.mit.edu	37	4	108940716	108940716	+	Missense_Mutation	SNP	A	G	G			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:108940716A>G	uc003hyq.2	+	4	589	c.440A>G	c.(439-441)AAC>AGC	p.N147S	HADH_uc010ilx.2_Missense_Mutation_p.N147S|HADH_uc010ily.2_5'UTR|HADH_uc003hyr.2_Missense_Mutation_p.N151S	NM_005327	NP_005318	Q16836	HCDH_HUMAN	L-3-hydroxyacyl-Coenzyme A dehydrogenase	147					fatty acid beta-oxidation	mitochondrial matrix	3-hydroxyacyl-CoA dehydrogenase activity|NAD+ binding			ovary(1)	1		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000168)	NADH(DB00157)	TTTGCCAGCAACACTTCCTCC	0.438													4	87	---	---	---	---	PASS
PCDH10	57575	broad.mit.edu	37	4	134073843	134073843	+	Missense_Mutation	SNP	C	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:134073843C>T	uc003iha.2	+	1	3374	c.2548C>T	c.(2548-2550)CAC>TAC	p.H850Y	PCDH10_uc003igz.2_Missense_Mutation_p.H850Y	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	850	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		GGACACTGAGCACAACCCCTG	0.557													9	5	---	---	---	---	PASS
FGB	2244	broad.mit.edu	37	4	155487721	155487721	+	Missense_Mutation	SNP	G	C	C			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:155487721G>C	uc003ioa.3	+	3	426	c.387G>C	c.(385-387)GAG>GAC	p.E129D	FGB_uc010ipu.1_RNA|FGB_uc003iob.3_Missense_Mutation_p.E126D|FGB_uc010ipv.2_Missense_Mutation_p.E67D|FGB_uc010ipw.2_Missense_Mutation_p.E126D|FGB_uc003ioc.3_Intron	NM_005141	NP_005132	P02675	FIBB_HUMAN	fibrinogen, beta chain preproprotein	129					platelet activation|platelet degranulation|protein polymerization|response to calcium ion|signal transduction	external side of plasma membrane|fibrinogen complex|platelet alpha granule lumen|soluble fraction	chaperone binding|eukaryotic cell surface binding|protein binding, bridging|receptor binding			ovary(2)|upper_aerodigestive_tract(1)	3	all_hematologic(180;0.215)	Renal(120;0.0458)			Sucralfate(DB00364)	GTGTTGATGAGTTAAATAACA	0.418													28	15	---	---	---	---	PASS
TKTL2	84076	broad.mit.edu	37	4	164393493	164393493	+	Missense_Mutation	SNP	G	C	C			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:164393493G>C	uc003iqp.3	-	1	1555	c.1394C>G	c.(1393-1395)GCC>GGC	p.A465G		NM_032136	NP_115512	Q9H0I9	TKTL2_HUMAN	transketolase-like 2	465						cytoplasm	metal ion binding|transketolase activity			ovary(2)|skin(2)|pancreas(1)	5	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)				GGTATTGGCGGCTAGATAAAT	0.463													21	21	---	---	---	---	PASS
NEIL3	55247	broad.mit.edu	37	4	178274865	178274865	+	Missense_Mutation	SNP	C	G	G			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:178274865C>G	uc003iut.2	+	8	1560	c.1443C>G	c.(1441-1443)AAC>AAG	p.N481K	NEIL3_uc010irs.2_3'UTR	NM_018248	NP_060718	Q8TAT5	NEIL3_HUMAN	nei endonuclease VIII-like 3	481					base-excision repair|nucleotide-excision repair	nucleus	bubble DNA binding|damaged DNA binding|DNA N-glycosylase activity|DNA-(apurinic or apyrimidinic site) lyase activity|double-stranded DNA binding|single-stranded DNA binding|zinc ion binding			lung(2)|ovary(1)|central_nervous_system(1)	4		Breast(14;6.27e-05)|Melanoma(52;0.00102)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.164)		all cancers(43;1.96e-23)|Epithelial(43;2.52e-20)|OV - Ovarian serous cystadenocarcinoma(60;1.89e-11)|GBM - Glioblastoma multiforme(59;9.49e-05)|Colorectal(24;0.00013)|COAD - Colon adenocarcinoma(29;0.000696)|STAD - Stomach adenocarcinoma(60;0.00308)|LUSC - Lung squamous cell carcinoma(193;0.0398)|READ - Rectum adenocarcinoma(43;0.191)		AAAGCTGCAACCCTGGATATT	0.279								BER_DNA_glycosylases					8	17	---	---	---	---	PASS
ODZ3	55714	broad.mit.edu	37	4	183714330	183714330	+	Missense_Mutation	SNP	C	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:183714330C>T	uc003ivd.1	+	25	6542	c.6505C>T	c.(6505-6507)CGT>TGT	p.R2169C		NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	2169	Extracellular (Potential).|YD 19.				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		TAACAGTGCGCGTCTGACACC	0.473													24	30	---	---	---	---	PASS
MTNR1A	4543	broad.mit.edu	37	4	187455106	187455106	+	Missense_Mutation	SNP	C	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:187455106C>A	uc003izd.1	-	2	808	c.790G>T	c.(790-792)GAC>TAC	p.D264Y		NM_005958	NP_005949	P48039	MTR1A_HUMAN	melatonin receptor 1A	264	Extracellular (Potential).				circadian rhythm|G-protein signaling, coupled to cyclic nucleotide second messenger|mating behavior	integral to plasma membrane	melatonin receptor activity			ovary(1)|skin(1)|breast(1)|central_nervous_system(1)|pancreas(1)	5		all_cancers(14;6.39e-56)|all_epithelial(14;1.48e-41)|all_lung(41;2.45e-15)|Lung NSC(41;7.26e-15)|Melanoma(20;1.91e-06)|Hepatocellular(41;0.00335)|Prostate(90;0.00996)|all_hematologic(60;0.014)|Colorectal(36;0.0161)|Renal(120;0.0183)|all_neural(102;0.202)		OV - Ovarian serous cystadenocarcinoma(60;7.63e-12)|BRCA - Breast invasive adenocarcinoma(30;6.68e-07)|GBM - Glioblastoma multiforme(59;3.44e-05)|LUSC - Lung squamous cell carcinoma(40;0.000106)|STAD - Stomach adenocarcinoma(60;0.000279)|READ - Rectum adenocarcinoma(43;0.159)	Melatonin(DB01065)|Ramelteon(DB00980)	CTGGCGGGGTCAGAGGCCACG	0.512													22	35	---	---	---	---	PASS
ADAMTS16	170690	broad.mit.edu	37	5	5146247	5146247	+	Silent	SNP	T	C	C			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:5146247T>C	uc003jdl.2	+	3	318	c.180T>C	c.(178-180)TAT>TAC	p.Y60Y	ADAMTS16_uc003jdk.1_Silent_p.Y60Y|ADAMTS16_uc003jdj.1_Silent_p.Y60Y	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	60					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						TTTCAGAATATGACCTGGTCT	0.473													16	38	---	---	---	---	PASS
CTNND2	1501	broad.mit.edu	37	5	11346508	11346508	+	Missense_Mutation	SNP	A	G	G			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:11346508A>G	uc003jfa.1	-	9	1749	c.1604T>C	c.(1603-1605)ATT>ACT	p.I535T	CTNND2_uc010itt.2_Missense_Mutation_p.I444T|CTNND2_uc011cmy.1_Missense_Mutation_p.I198T|CTNND2_uc011cmz.1_Missense_Mutation_p.I102T|CTNND2_uc010itu.1_RNA|CTNND2_uc011cmx.1_Missense_Mutation_p.I102T	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	535					multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						AATGCTATCAATGGACGGGGA	0.488													22	64	---	---	---	---	PASS
CDH10	1008	broad.mit.edu	37	5	24492942	24492942	+	Silent	SNP	T	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:24492942T>A	uc003jgr.1	-	10	1940	c.1608A>T	c.(1606-1608)ACA>ACT	p.T536T	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	536	Cadherin 5.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		TATCCTGTACTGTGAAGTTTG	0.348										HNSCC(23;0.051)			89	97	---	---	---	---	PASS
CARD6	84674	broad.mit.edu	37	5	40852400	40852400	+	Silent	SNP	A	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:40852400A>T	uc003jmg.2	+	3	1041	c.966A>T	c.(964-966)CCA>CCT	p.P322P		NM_032587	NP_115976	Q9BX69	CARD6_HUMAN	caspase recruitment domain family, member 6	322					apoptosis|regulation of apoptosis	intracellular				ovary(2)|skin(2)|lung(1)	5						CTGAGAGTCCAGGAGACTTAG	0.443													25	30	---	---	---	---	PASS
GIN1	54826	broad.mit.edu	37	5	102433118	102433118	+	Missense_Mutation	SNP	T	C	C			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:102433118T>C	uc003koa.1	-	6	990	c.908A>G	c.(907-909)CAT>CGT	p.H303R	GIN1_uc003kob.1_Missense_Mutation_p.H156R|GIN1_uc003koc.1_Intron	NM_017676	NP_060146	Q9NXP7	GIN1_HUMAN	zinc finger, H2C2 domain containing	303					DNA integration		DNA binding			ovary(1)|skin(1)	2		all_cancers(142;3.23e-07)|all_epithelial(76;3.64e-10)|Prostate(80;0.00914)|Ovarian(225;0.0139)|Lung NSC(167;0.0212)|Colorectal(57;0.0249)|all_lung(232;0.0283)		Epithelial(69;3.57e-14)|COAD - Colon adenocarcinoma(37;0.00794)		ATCCACTTCATGAAGACTATC	0.323													48	33	---	---	---	---	PASS
TRPC7	57113	broad.mit.edu	37	5	135692755	135692755	+	Silent	SNP	C	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:135692755C>A	uc003lbn.1	-	1	321	c.318G>T	c.(316-318)GGG>GGT	p.G106G	TRPC7_uc010jef.1_Silent_p.G98G|TRPC7_uc010jeg.1_RNA|TRPC7_uc010jeh.1_Silent_p.G98G|TRPC7_uc010jei.1_Silent_p.G98G|TRPC7_uc010jej.1_5'UTR	NM_020389	NP_065122	Q9HCX4	TRPC7_HUMAN	transient receptor potential cation channel,	107	Cytoplasmic (Potential).				axon guidance|platelet activation	integral to membrane|plasma membrane	calcium channel activity|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			GCAGCGCGTCCCCCACCCGTG	0.662													18	13	---	---	---	---	PASS
PCDHA3	56145	broad.mit.edu	37	5	140181071	140181071	+	Missense_Mutation	SNP	G	C	C			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140181071G>C	uc003lhf.2	+	1	289	c.289G>C	c.(289-291)GGG>CGG	p.G97R	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA2_uc011czy.1_Intron|PCDHA3_uc011czz.1_Missense_Mutation_p.G97R	NM_018906	NP_061729	Q9Y5H8	PCDA3_HUMAN	protocadherin alpha 3 isoform 1 precursor	97	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(6)|skin(2)	8			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGAACTGTGCGGGCGGAGCGC	0.557													4	116	---	---	---	---	PASS
PCDHB6	56130	broad.mit.edu	37	5	140530850	140530850	+	Missense_Mutation	SNP	G	T	T	rs17844433		TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140530850G>T	uc003lir.2	+	1	1012	c.1012G>T	c.(1012-1014)GTG>TTG	p.V338L	PCDHB6_uc011dah.1_Missense_Mutation_p.V202L	NM_018939	NP_061762	Q9Y5E3	PCDB6_HUMAN	protocadherin beta 6 precursor	338	Cadherin 3.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GGTCCTGGACGTGAATGACAA	0.463													18	19	---	---	---	---	PASS
PDGFRB	5159	broad.mit.edu	37	5	149502632	149502632	+	Missense_Mutation	SNP	G	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:149502632G>A	uc003lro.2	-	15	2625	c.2156C>T	c.(2155-2157)GCT>GTT	p.A719V	PDGFRB_uc010jhd.2_Missense_Mutation_p.A558V	NM_002609	NP_002600	P09619	PGFRB_HUMAN	platelet-derived growth factor receptor beta	719	Cytoplasmic (Potential).|Protein kinase.				aorta morphogenesis|cardiac myofibril assembly|hemopoiesis|metanephric glomerular capillary formation|metanephric glomerular mesangial cell proliferation involved in metanephros development|peptidyl-tyrosine phosphorylation|positive regulation of calcium ion import|positive regulation of chemotaxis|positive regulation of DNA biosynthetic process|positive regulation of ERK1 and ERK2 cascade|positive regulation of MAP kinase activity|positive regulation of metanephric mesenchymal cell migration by platelet-derived growth factor receptor-beta signaling pathway|positive regulation of mitosis|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of reactive oxygen species metabolic process|positive regulation of smooth muscle cell migration|positive regulation of smooth muscle cell proliferation|protein autophosphorylation|regulation of actin cytoskeleton organization|retina vasculature development in camera-type eye|smooth muscle cell chemotaxis	apical plasma membrane|cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet activating factor receptor activity|platelet-derived growth factor beta-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|vascular endothelial growth factor receptor activity			central_nervous_system(4)|lung(4)|breast(3)|stomach(2)|prostate(2)|large_intestine(1)|ovary(1)	17		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		Becaplermin(DB00102)|Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	AACGGGCAGAGCATTGCTGTA	0.632			T	ETV6|TRIP11|HIP1|RAB5EP|H4|NIN|HCMOGT-1|PDE4DIP	MPD|AML|CMML|CML								31	26	---	---	---	---	PASS
HAVCR2	84868	broad.mit.edu	37	5	156533809	156533809	+	Missense_Mutation	SNP	C	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:156533809C>A	uc003lwk.1	-	2	367	c.223G>T	c.(223-225)GTG>TTG	p.V75L	HAVCR2_uc003lwl.2_Missense_Mutation_p.V75L	NM_032782	NP_116171	Q8TDQ0	HAVR2_HUMAN	T cell immunoglobulin mucin 3 precursor	75	Ig-like V-type.|Extracellular (Potential).					integral to membrane					0	Renal(175;0.00212)	Medulloblastoma(196;0.0354)|all_neural(177;0.0999)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			CAATAATTCACATCCCTTTCA	0.532													31	27	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	5	177482897	177482897	+	IGR	SNP	G	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:177482897G>A								FAM153C (6809 upstream) : N4BP3 (57659 downstream)																							TGGATGAGGAGAATGACGATT	0.542													24	15	---	---	---	---	PASS
GRM6	2916	broad.mit.edu	37	5	178410074	178410074	+	Missense_Mutation	SNP	C	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:178410074C>T	uc003mjr.2	-	9	2452	c.2273G>A	c.(2272-2274)AGC>AAC	p.S758N	GRM6_uc003mjq.2_Missense_Mutation_p.S161N	NM_000843	NP_000834	O15303	GRM6_HUMAN	glutamate receptor, metabotropic 6 precursor	758	Helical; Name=5; (Potential).				detection of visible light|visual perception	integral to plasma membrane				lung(4)|ovary(2)|breast(1)|pancreas(1)	8	all_cancers(89;0.000828)|Renal(175;0.000159)|all_epithelial(37;0.000167)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_cancers(40;0.0156)|all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.245)		GAGCAGGAGGCTGTAGCCCAG	0.612													7	25	---	---	---	---	PASS
GRM6	2916	broad.mit.edu	37	5	178410091	178410091	+	Silent	SNP	G	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:178410091G>A	uc003mjr.2	-	9	2435	c.2256C>T	c.(2254-2256)ATC>ATT	p.I752I	GRM6_uc003mjq.2_Silent_p.I155I	NM_000843	NP_000834	O15303	GRM6_HUMAN	glutamate receptor, metabotropic 6 precursor	752	Helical; Name=5; (Potential).				detection of visible light|visual perception	integral to plasma membrane				lung(4)|ovary(2)|breast(1)|pancreas(1)	8	all_cancers(89;0.000828)|Renal(175;0.000159)|all_epithelial(37;0.000167)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_cancers(40;0.0156)|all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.245)		CCAGGCAGCCGATGAGAGACA	0.632													15	21	---	---	---	---	PASS
KIF13A	63971	broad.mit.edu	37	6	17764629	17764629	+	Silent	SNP	G	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:17764629G>A	uc003ncg.3	-	39	5235	c.5130C>T	c.(5128-5130)AGC>AGT	p.S1710S	KIF13A_uc003ncf.2_Silent_p.S1662S|KIF13A_uc003nch.3_Silent_p.S1675S|KIF13A_uc003nci.3_Silent_p.S1662S|KIF13A_uc003nce.1_Silent_p.S261S	NM_022113	NP_071396	Q9H1H9	KI13A_HUMAN	kinesin family member 13A isoform a	1710					cargo loading into vesicle|cell cycle|cytokinesis|endosome to lysosome transport|Golgi to plasma membrane protein transport|melanosome organization|plus-end-directed vesicle transport along microtubule	centrosome|endosome membrane|microtubule|midbody|trans-Golgi network membrane	ATP binding|microtubule motor activity|protein binding			large_intestine(2)|ovary(2)	4	Breast(50;0.0107)|Ovarian(93;0.016)	all_hematologic(90;0.125)	all cancers(50;0.0865)|Epithelial(50;0.0974)			TGGCTGGCTGGCTAATTTTGC	0.517													18	28	---	---	---	---	PASS
ZNF311	282890	broad.mit.edu	37	6	28962782	28962782	+	Missense_Mutation	SNP	G	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:28962782G>A	uc003nlu.2	-	7	2510	c.1997C>T	c.(1996-1998)GCC>GTC	p.A666V	ZNF311_uc011dlk.1_Missense_Mutation_p.A574V|ZNF311_uc003nlv.2_Missense_Mutation_p.A574V	NM_001010877	NP_001010877	Q5JNZ3	ZN311_HUMAN	zinc finger protein 311	666					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding				0						TTATACTCAGGCACTGGTCAA	0.269													7	30	---	---	---	---	PASS
ATF6B	1388	broad.mit.edu	37	6	32084310	32084310	+	Missense_Mutation	SNP	T	C	C			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:32084310T>C	uc003nzn.2	-	17	1862	c.1829A>G	c.(1828-1830)AAC>AGC	p.N610S	TNXB_uc010jts.1_Intron|ATF6B_uc003nzm.1_Missense_Mutation_p.N183S|ATF6B_uc003nzo.2_Missense_Mutation_p.N607S	NM_004381	NP_004372	Q99941	ATF6B_HUMAN	activating transcription factor 6 beta isoform	610	Lumenal (Potential).				response to unfolded protein|signal transduction	endoplasmic reticulum membrane|integral to membrane|nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GGAGGTCTTGTTGTGGCTGAT	0.607													11	12	---	---	---	---	PASS
PI16	221476	broad.mit.edu	37	6	36922606	36922606	+	Missense_Mutation	SNP	C	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:36922606C>A	uc003ona.2	+	1	398	c.70C>A	c.(70-72)CCC>ACC	p.P24T	PI16_uc003omz.1_Missense_Mutation_p.P24T|PI16_uc003onb.2_Missense_Mutation_p.P24T	NM_153370	NP_699201	Q6UXB8	PI16_HUMAN	protease inhibitor 16 precursor	24						extracellular region|integral to membrane	peptidase inhibitor activity				0						CACCACAGGCCCCGTTGGAGC	0.507													16	32	---	---	---	---	PASS
DNAH8	1769	broad.mit.edu	37	6	38754673	38754673	+	Missense_Mutation	SNP	C	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:38754673C>T	uc003ooe.1	+	16	2477	c.1877C>T	c.(1876-1878)GCA>GTA	p.A626V		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						CCAGAACAGGCAAAGAGATTG	0.328													10	39	---	---	---	---	PASS
TTBK1	84630	broad.mit.edu	37	6	43230656	43230656	+	Silent	SNP	G	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:43230656G>A	uc003ouq.1	+	13	1833	c.1554G>A	c.(1552-1554)GTG>GTA	p.V518V	TTBK1_uc011dvg.1_Silent_p.V41V	NM_032538	NP_115927	Q5TCY1	TTBK1_HUMAN	tau tubulin kinase 1	518						cell junction|cytoplasm|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			lung(4)|ovary(2)|skin(2)|upper_aerodigestive_tract(1)	9			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0125)|OV - Ovarian serous cystadenocarcinoma(102;0.0399)			CAGCCTCTGTGGAGCAGGAGG	0.647													7	12	---	---	---	---	PASS
ZNF318	24149	broad.mit.edu	37	6	43304927	43304927	+	Missense_Mutation	SNP	T	C	C			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:43304927T>C	uc003oux.2	-	10	6887	c.6809A>G	c.(6808-6810)CAG>CGG	p.Q2270R	ZNF318_uc003ouw.2_Intron	NM_014345	NP_055160	Q5VUA4	ZN318_HUMAN	zinc finger protein 318	2270					meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	nucleic acid binding|zinc ion binding			ovary(3)|breast(2)|central_nervous_system(1)|skin(1)	7			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0171)|OV - Ovarian serous cystadenocarcinoma(102;0.0579)			TGTGTGGTCCTGGATGGCACC	0.458													13	37	---	---	---	---	PASS
CRISP2	7180	broad.mit.edu	37	6	49676880	49676880	+	Silent	SNP	A	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:49676880A>T	uc003ozq.2	-	4	286	c.30T>A	c.(28-30)GTT>GTA	p.V10V	CRISP2_uc003ozl.2_Silent_p.V10V|CRISP2_uc003ozn.2_Silent_p.V10V|CRISP2_uc003ozr.2_Silent_p.V10V|CRISP2_uc003ozo.2_Silent_p.V10V|CRISP2_uc003ozm.2_Silent_p.V10V|CRISP2_uc003ozp.2_Silent_p.V10V	NM_001142408	NP_001135880	P16562	CRIS2_HUMAN	cysteine-rich secretory protein 2 precursor	10						extracellular space				skin(1)	1	Lung NSC(77;0.0161)		KIRC - Kidney renal clear cell carcinoma(2;0.106)|Kidney(12;0.156)			GCAGCACAGTAACCAGAAACA	0.393													13	41	---	---	---	---	PASS
KLHL31	401265	broad.mit.edu	37	6	53519311	53519311	+	Missense_Mutation	SNP	G	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:53519311G>T	uc003pcb.3	-	2	901	c.760C>A	c.(760-762)CTT>ATT	p.L254I		NM_001003760	NP_001003760	Q9H511	KLH31_HUMAN	kelch repeat and BTB (POZ) domain containing 1	254	BACK.				regulation of transcription, DNA-dependent|transcription, DNA-dependent					ovary(1)	1	Lung NSC(77;0.0158)					TTGCTCAAAAGATCTGCAGCG	0.388													33	69	---	---	---	---	PASS
KHDRBS2	202559	broad.mit.edu	37	6	62407151	62407151	+	Nonsense_Mutation	SNP	C	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:62407151C>A	uc003peg.2	-	8	1148	c.901G>T	c.(901-903)GAA>TAA	p.E301*		NM_152688	NP_689901	Q5VWX1	KHDR2_HUMAN	KH domain-containing, RNA-binding, signal	301					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	SH3 domain binding			skin(7)|ovary(3)|liver(1)	11				BRCA - Breast invasive adenocarcinoma(397;0.149)		TCATAGTATTCAGGCACACTG	0.393													8	18	---	---	---	---	PASS
BAI3	577	broad.mit.edu	37	6	70064159	70064159	+	Missense_Mutation	SNP	G	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:70064159G>T	uc003pev.3	+	27	3942	c.3494G>T	c.(3493-3495)TGT>TTT	p.C1165F	BAI3_uc010kak.2_Missense_Mutation_p.C1165F|BAI3_uc011dxx.1_Missense_Mutation_p.C371F	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	1165	Cytoplasmic (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(27)|ovary(8)|skin(6)|pancreas(4)|central_nervous_system(3)|urinary_tract(1)|breast(1)	50		all_lung(197;0.212)				TTGAGAAACTGTCAGGATCCC	0.398													30	63	---	---	---	---	PASS
GABRR2	2570	broad.mit.edu	37	6	89974321	89974321	+	Missense_Mutation	SNP	G	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:89974321G>T	uc003pnb.2	-	8	979	c.971C>A	c.(970-972)ACG>AAG	p.T324K	GABRR2_uc011dzx.1_Missense_Mutation_p.T200K	NM_002043	NP_002034	P28476	GBRR2_HUMAN	gamma-aminobutyric acid (GABA) receptor, rho 2	324	Helical; (Potential).				synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity				0		all_cancers(76;1.67e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.49e-10)|all_hematologic(105;7.77e-07)|all_epithelial(107;2.51e-05)|Lung NSC(302;0.238)		BRCA - Breast invasive adenocarcinoma(108;0.0158)		CAGCACCGTCGTGATACCTGC	0.537													19	25	---	---	---	---	PASS
MDN1	23195	broad.mit.edu	37	6	90472061	90472061	+	Missense_Mutation	SNP	T	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:90472061T>A	uc003pnn.1	-	16	2449	c.2333A>T	c.(2332-2334)AAG>ATG	p.K778M	MDN1_uc003pno.1_Missense_Mutation_p.K196M	NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	778					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		TTTTCCATCCTTGTTAACAGC	0.478													41	51	---	---	---	---	PASS
BACH2	60468	broad.mit.edu	37	6	90660143	90660143	+	Missense_Mutation	SNP	T	C	C			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:90660143T>C	uc011eab.1	-	7	2491	c.1682A>G	c.(1681-1683)CAT>CGT	p.H561R	BACH2_uc003pnw.2_Missense_Mutation_p.H561R|BACH2_uc010kch.2_Missense_Mutation_p.H561R	NM_021813	NP_068585	Q9BYV9	BACH2_HUMAN	BTB and CNC homology 1, basic leucine zipper	561						nucleus	protein dimerization activity|sequence-specific DNA binding			ovary(3)|pancreas(1)|lung(1)|skin(1)	6		all_cancers(76;7.37e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.0063)		BRCA - Breast invasive adenocarcinoma(108;0.0799)		TGGTTCCTGATGTTCTGTGGC	0.572													33	31	---	---	---	---	PASS
RFX6	222546	broad.mit.edu	37	6	117240437	117240437	+	Missense_Mutation	SNP	C	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:117240437C>A	uc003pxm.2	+	11	1223	c.1160C>A	c.(1159-1161)ACA>AAA	p.T387K		NM_173560	NP_775831	Q8HWS3	RFX6_HUMAN	regulatory factor X, 6	387					glucose homeostasis|pancreatic A cell differentiation|pancreatic D cell differentiation|pancreatic E cell differentiation|positive regulation of transcription, DNA-dependent|regulation of insulin secretion|transcription, DNA-dependent|type B pancreatic cell differentiation	nucleus	protein binding|transcription regulatory region DNA binding			ovary(1)|pancreas(1)|skin(1)	3						AAACGACAAACATCTTTCTTA	0.353													20	35	---	---	---	---	PASS
IL20RA	53832	broad.mit.edu	37	6	137325764	137325764	+	Silent	SNP	T	C	C			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:137325764T>C	uc003qhj.2	-	6	1291	c.858A>G	c.(856-858)GCA>GCG	p.A286A	IL20RA_uc011edl.1_Silent_p.A237A|IL20RA_uc003qhk.2_Silent_p.A175A|IL20RA_uc003qhi.2_Silent_p.A18A	NM_014432	NP_055247	Q9UHF4	I20RA_HUMAN	interleukin 20 receptor, alpha precursor	286	Cytoplasmic (Potential).					integral to membrane	receptor activity			ovary(2)|skin(2)	4	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000351)|OV - Ovarian serous cystadenocarcinoma(155;0.00459)		TCACCAAATTTGCTGGGTGTT	0.423													45	95	---	---	---	---	PASS
SYNE1	23345	broad.mit.edu	37	6	152668185	152668185	+	Intron	SNP	G	C	C			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:152668185G>C	uc010kiw.2	-						SYNE1_uc003qot.3_Intron|SYNE1_uc003qou.3_Intron|SYNE1_uc010kja.1_Intron	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1						cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		ATGTTCTGGGGGCACTCACCC	0.473										HNSCC(10;0.0054)			9	18	---	---	---	---	PASS
TIAM2	26230	broad.mit.edu	37	6	155451258	155451258	+	Missense_Mutation	SNP	G	C	C			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:155451258G>C	uc003qqb.2	+	6	2174	c.901G>C	c.(901-903)GAA>CAA	p.E301Q	TIAM2_uc003qqe.2_Missense_Mutation_p.E301Q	NM_012454	NP_036586	Q8IVF5	TIAM2_HUMAN	T-cell lymphoma invasion and metastasis 2	301					apoptosis|cellular lipid metabolic process|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|filopodium|growth cone|lamellipodium	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			ovary(3)|breast(1)	4		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;8.1e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0053)		CTCCCTCCGGGAACTGTACAA	0.597													15	19	---	---	---	---	PASS
FNDC1	84624	broad.mit.edu	37	6	159677649	159677649	+	Silent	SNP	A	G	G			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:159677649A>G	uc010kjv.2	+	18	5360	c.5160A>G	c.(5158-5160)CTA>CTG	p.L1720L		NM_032532	NP_115921	Q4ZHG4	FNDC1_HUMAN	fibronectin type III domain containing 1	1720	Fibronectin type-III 5.					extracellular region				large_intestine(4)|ovary(3)|central_nervous_system(1)	8		Breast(66;0.000781)|Ovarian(120;0.0308)|Prostate(117;0.195)		OV - Ovarian serous cystadenocarcinoma(65;2.6e-16)|BRCA - Breast invasive adenocarcinoma(81;1.06e-05)		TTGAGAACCTAAAGCCCAACA	0.428													47	66	---	---	---	---	PASS
CCR6	1235	broad.mit.edu	37	6	167550795	167550795	+	Silent	SNP	G	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:167550795G>A	uc003qvl.2	+	13	3553	c.1077G>A	c.(1075-1077)CAG>CAA	p.Q359Q	CCR6_uc010kkm.2_Silent_p.Q359Q|CCR6_uc003qvn.3_Silent_p.Q359Q|CCR6_uc003qvm.3_Silent_p.Q359Q	NM_031409	NP_113597	P51684	CCR6_HUMAN	chemokine (C-C motif) receptor 6	359	Cytoplasmic (Potential).				cellular defense response|dendritic cell chemotaxis|elevation of cytosolic calcium ion concentration|humoral immune response	integral to plasma membrane	C-C chemokine receptor activity			ovary(1)	1		Breast(66;1.53e-05)|Ovarian(120;0.0606)		OV - Ovarian serous cystadenocarcinoma(33;8.21e-20)|BRCA - Breast invasive adenocarcinoma(81;4.55e-06)|GBM - Glioblastoma multiforme(31;0.00507)		TTTCTCGGCAGACCAGTGAGA	0.448													16	38	---	---	---	---	PASS
FAM120B	84498	broad.mit.edu	37	6	170626966	170626966	+	Missense_Mutation	SNP	T	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:170626966T>A	uc003qxp.2	+	2	596	c.488T>A	c.(487-489)GTA>GAA	p.V163E	FAM120B_uc003qxo.1_Missense_Mutation_p.V163E|FAM120B_uc011ehd.1_Intron	NM_032448	NP_115824	Q96EK7	F120B_HUMAN	family with sequence similarity 120B	163					cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			ovary(1)	1		Breast(66;0.000338)|Esophageal squamous(34;0.241)		OV - Ovarian serous cystadenocarcinoma(33;3.94e-22)|BRCA - Breast invasive adenocarcinoma(81;6.47e-06)|GBM - Glioblastoma multiforme(31;0.0899)		GATTATGAGGTAGCTTCCTAT	0.458													38	42	---	---	---	---	PASS
THSD7A	221981	broad.mit.edu	37	7	11514078	11514078	+	Missense_Mutation	SNP	G	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:11514078G>A	uc003ssf.3	-	8	2387	c.2135C>T	c.(2134-2136)TCA>TTA	p.S712L		NM_015204	NP_056019	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A	712	TSP type-1 7.|Extracellular (Potential).					integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		GGACGATACTGAGGTGTCCTC	0.517										HNSCC(18;0.044)			14	34	---	---	---	---	PASS
THSD7A	221981	broad.mit.edu	37	7	11632885	11632885	+	Missense_Mutation	SNP	C	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:11632885C>T	uc003ssf.3	-	3	1519	c.1267G>A	c.(1267-1269)GCC>ACC	p.A423T		NM_015204	NP_056019	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A	423	Extracellular (Potential).|TSP type-1 4.					integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		ACTCACGTGGCACAGGGGACA	0.418										HNSCC(18;0.044)			11	26	---	---	---	---	PASS
EEPD1	80820	broad.mit.edu	37	7	36194244	36194244	+	Missense_Mutation	SNP	G	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:36194244G>T	uc003tfa.2	+	2	951	c.311G>T	c.(310-312)GGC>GTC	p.G104V		NM_030636	NP_085139	Q7L9B9	EEPD1_HUMAN	endonuclease/exonuclease/phosphatase family	104					DNA repair		DNA binding				0						AGCAGCAAGGGCAGCTCAGCG	0.622													12	23	---	---	---	---	PASS
CCL26	10344	broad.mit.edu	37	7	75401237	75401237	+	Missense_Mutation	SNP	G	C	C			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:75401237G>C	uc003udt.1	-	3	266	c.158C>G	c.(157-159)ACC>AGC	p.T53S		NM_006072	NP_006063	Q9Y258	CCL26_HUMAN	chemokine (C-C motif) ligand 26 precursor	53					cell-cell signaling|chemotaxis|immune response|inflammatory response|positive regulation of actin filament polymerization|positive regulation of cell migration|positive regulation of endothelial cell proliferation|positive regulation of Rac GTPase activity|signal transduction	extracellular space	chemokine activity				0						GCTGTTACTGGTGAATTCATA	0.547													17	39	---	---	---	---	PASS
ADAM22	53616	broad.mit.edu	37	7	87564408	87564408	+	Silent	SNP	G	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:87564408G>T	uc003ujn.2	+	2	232	c.153G>T	c.(151-153)GTG>GTT	p.V51V	ADAM22_uc003uji.1_Silent_p.V50V|ADAM22_uc003ujj.1_Silent_p.V51V|ADAM22_uc003ujk.1_Silent_p.V51V|ADAM22_uc003ujl.1_Silent_p.V51V|ADAM22_uc003ujm.2_Silent_p.V51V|ADAM22_uc003ujo.2_Silent_p.V51V|ADAM22_uc003ujp.1_Silent_p.V103V	NM_021723	NP_068369	Q9P0K1	ADA22_HUMAN	ADAM metallopeptidase domain 22 isoform 1	51					cell adhesion|central nervous system development|negative regulation of cell adhesion|proteolysis	integral to membrane	integrin binding|metalloendopeptidase activity|protein binding|receptor activity|zinc ion binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Esophageal squamous(14;0.00202)		STAD - Stomach adenocarcinoma(171;0.215)			AGAGCATCGTGCCACTGCGCC	0.652													12	20	---	---	---	---	PASS
ZNF804B	219578	broad.mit.edu	37	7	88847538	88847538	+	Missense_Mutation	SNP	T	G	G			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:88847538T>G	uc011khi.1	+	2	716	c.178T>G	c.(178-180)TGT>GGT	p.C60G		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	60	C2H2-type.					intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			CTGTGAATTATGTGACAAGCA	0.363										HNSCC(36;0.09)			15	47	---	---	---	---	PASS
STAG3	10734	broad.mit.edu	37	7	99802847	99802847	+	Intron	SNP	T	C	C			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:99802847T>C	uc003utx.1	+						STAG3_uc011kjk.1_Intron|GATS_uc003uty.3_Intron|GATS_uc003utz.3_Intron|GATS_uc003uua.3_Intron|GATS_uc010lgt.2_Intron|STAG3_uc003uub.1_Intron	NM_012447	NP_036579	Q9UJ98	STAG3_HUMAN	stromal antigen 3						chromosome segregation|synaptonemal complex assembly	chromosome, centromeric region|meiotic cohesin complex|synaptonemal complex	binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					ACCTCTTTCATAGACTGTCCT	0.562													48	103	---	---	---	---	PASS
TMEM168	64418	broad.mit.edu	37	7	112424133	112424133	+	Missense_Mutation	SNP	C	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:112424133C>T	uc003vgn.2	-	2	1140	c.748G>A	c.(748-750)GAA>AAA	p.E250K	TMEM168_uc010lju.2_Missense_Mutation_p.E250K|TMEM168_uc011kmr.1_Intron	NM_022484	NP_071929	Q9H0V1	TM168_HUMAN	transmembrane protein 168	250						integral to membrane|transport vesicle				ovary(1)|central_nervous_system(1)	2						TTCCATCTTTCAGTTACTGAA	0.353													46	108	---	---	---	---	PASS
CHRM2	1129	broad.mit.edu	37	7	136700521	136700521	+	Silent	SNP	G	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:136700521G>A	uc003vtf.1	+	4	1532	c.909G>A	c.(907-909)CAG>CAA	p.Q303Q	CHRM2_uc003vtg.1_Silent_p.Q303Q|CHRM2_uc003vtj.1_Silent_p.Q303Q|CHRM2_uc003vtk.1_Silent_p.Q303Q|CHRM2_uc003vtl.1_Silent_p.Q303Q|CHRM2_uc003vtm.1_Silent_p.Q303Q|CHRM2_uc003vti.1_Silent_p.Q303Q|CHRM2_uc003vto.1_Silent_p.Q303Q|CHRM2_uc003vtn.1_Silent_p.Q303Q|uc003vtp.1_Intron	NM_001006630	NP_001006631	P08172	ACM2_HUMAN	cholinergic receptor, muscarinic 2	303	Cytoplasmic (By similarity).				activation of phospholipase C activity by muscarinic acetylcholine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|nervous system development|regulation of heart contraction|response to virus	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|protein binding			ovary(4)|central_nervous_system(1)	5					Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Carbachol(DB00411)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Desipramine(DB01151)|Diphenidol(DB01231)|Doxacurium(DB01334)|Doxacurium chloride(DB01135)|Flavoxate(DB01148)|Gallamine Triethiodide(DB00483)|Homatropine Methylbromide(DB00725)|Hyoscyamine(DB00424)|Ipratropium(DB00332)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Metocurine(DB01336)|Mivacurium(DB01226)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Pilocarpine(DB01085)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Rocuronium(DB00728)|Thiethylperazine(DB00372)|Tolterodine(DB01036)|Tridihexethyl(DB00505)|Triflupromazine(DB00508)	AAATAACCCAGGATGAAAACA	0.453													21	37	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	7	152143423	152143423	+	IGR	SNP	G	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:152143423G>A								FABP5L3 (3325 upstream) : LOC100128822 (17786 downstream)																							GCTGGCAGCCGCGGGAATTAA	0.527													55	75	---	---	---	---	PASS
SLC25A37	51312	broad.mit.edu	37	8	23423622	23423622	+	Missense_Mutation	SNP	C	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:23423622C>T	uc003xdo.2	+	2	365	c.212C>T	c.(211-213)ACA>ATA	p.T71I	SLC25A37_uc003xdn.1_Missense_Mutation_p.T71I|SLC25A37_uc003xdp.2_RNA|SLC25A37_uc010ltz.2_RNA|SLC25A37_uc003xdq.2_5'Flank	NM_016612	NP_057696	Q9NYZ2	MFRN1_HUMAN	solute carrier family 25, member 37	71	Solcar 1.				ion transport|iron ion homeostasis	integral to membrane|mitochondrial inner membrane					0		Prostate(55;0.114)		Colorectal(74;0.0198)|COAD - Colon adenocarcinoma(73;0.0751)		CGCTCCCAGACACGAATGCAG	0.458													8	7	---	---	---	---	PASS
CA8	767	broad.mit.edu	37	8	61139425	61139425	+	Intron	SNP	G	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:61139425G>A	uc003xtz.1	-						CA8_uc003xua.1_Intron	NM_004056	NP_004047	P35219	CAH8_HUMAN	carbonic anhydrase VIII						one-carbon metabolic process		carbonate dehydratase activity|zinc ion binding				0		all_cancers(86;0.172)|all_epithelial(80;0.0383)|all_lung(136;0.0413)|Lung NSC(129;0.0474)				TTTAAATAATGACTTACCTTA	0.214													7	30	---	---	---	---	PASS
REXO1L1	254958	broad.mit.edu	37	8	86573759	86573759	+	Silent	SNP	C	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:86573759C>T	uc011lfw.1	-	1	1510	c.1464G>A	c.(1462-1464)CAG>CAA	p.Q488Q		NM_172239	NP_758439	Q8IX06	GOR_HUMAN	exonuclease GOR	656						cytoplasm|nucleus	exonuclease activity|nucleic acid binding				0						TCTGGGCGCGCTGTCGGACCT	0.667													5	45	---	---	---	---	PASS
FAM83H	286077	broad.mit.edu	37	8	144808385	144808385	+	Silent	SNP	T	C	C			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:144808385T>C	uc003yzk.2	-	5	3315	c.3246A>G	c.(3244-3246)CCA>CCG	p.P1082P	FAM83H_uc010mfk.1_RNA	NM_198488	NP_940890	Q6ZRV2	FA83H_HUMAN	FAM83H	1082					biomineral tissue development					lung(1)|central_nervous_system(1)|pancreas(1)	3	all_cancers(97;3.74e-11)|all_epithelial(106;2.62e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.38e-41)|Epithelial(56;6.8e-40)|all cancers(56;6.43e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.146)			CGGACATATCTGGGGCCAGGA	0.711													15	11	---	---	---	---	PASS
CDK20	23552	broad.mit.edu	37	9	90584108	90584108	+	Splice_Site	SNP	C	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:90584108C>A	uc004apr.2	-	7	1149	c.843_splice	c.e7+1	p.K281_splice	CDK20_uc004aps.2_Splice_Site_p.K260_splice|CDK20_uc004apt.2_Splice_Site_p.K273_splice|CDK20_uc004apu.2_Splice_Site_p.R219_splice	NM_001039803	NP_001034892	Q8IZL9	CDK20_HUMAN	cell cycle related kinase isoform 3						cell division|multicellular organismal development	cilium|mitochondrion|nucleus	ATP binding|cyclin-dependent protein kinase activity			skin(1)	1						TCTCCCCCTACCTTGGAAGCT	0.597													47	23	---	---	---	---	PASS
PTPN3	5774	broad.mit.edu	37	9	112199224	112199224	+	Missense_Mutation	SNP	G	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:112199224G>T	uc004bed.2	-	9	726	c.614C>A	c.(613-615)TCC>TAC	p.S205Y	PTPN3_uc004beb.2_Missense_Mutation_p.S74Y|PTPN3_uc004bec.2_Missense_Mutation_p.S74Y|PTPN3_uc010mtu.2_RNA|PTPN3_uc011lwg.1_Missense_Mutation_p.S205Y|PTPN3_uc011lwh.1_Missense_Mutation_p.S96Y	NM_002829	NP_002820	P26045	PTN3_HUMAN	protein tyrosine phosphatase, non-receptor type	205	FERM.				negative regulation of membrane protein ectodomain proteolysis|negative regulation of mitotic cell cycle	cytoplasm|cytoskeleton|internal side of plasma membrane	ATPase binding|cytoskeletal protein binding|phosphotyrosine binding|protein tyrosine phosphatase activity			ovary(3)	3						GATATAGCAGGATTCTGCTTC	0.393													34	14	---	---	---	---	PASS
NOTCH1	4851	broad.mit.edu	37	9	139410454	139410454	+	Missense_Mutation	SNP	A	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:139410454A>T	uc004chz.2	-	10	1648	c.1648T>A	c.(1648-1650)TAC>AAC	p.Y550N	NOTCH1_uc004cia.1_5'Flank	NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	550	Extracellular (Potential).|EGF-like 14; calcium-binding (Potential).				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		ACACAGGTGTAAGTGTTGGGT	0.637			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			16	7	---	---	---	---	PASS
FRMD4A	55691	broad.mit.edu	37	10	13736020	13736020	+	Missense_Mutation	SNP	C	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:13736020C>T	uc001ims.2	-	15	1347	c.995G>A	c.(994-996)CGC>CAC	p.R332H	FRMD4A_uc009xjf.1_Missense_Mutation_p.R332H|FRMD4A_uc001imt.1_Missense_Mutation_p.R365H|FRMD4A_uc001imu.1_Missense_Mutation_p.R348H	NM_018027	NP_060497	Q9P2Q2	FRM4A_HUMAN	FERM domain containing 4A	332						cytoplasm|cytoskeleton	binding			ovary(1)|skin(1)|pancreas(1)	3						ACTCAGGCTGCGTGCTGCATG	0.587													3	50	---	---	---	---	PASS
CCDC7	221016	broad.mit.edu	37	10	32856664	32856664	+	Missense_Mutation	SNP	G	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:32856664G>A	uc001iwj.2	+	16	1834	c.1264G>A	c.(1264-1266)GGG>AGG	p.G422R	CCDC7_uc001iwk.2_Missense_Mutation_p.G422R|CCDC7_uc009xlv.2_RNA|C10orf68_uc001iwl.1_5'UTR|C10orf68_uc001iwm.1_5'UTR|C10orf68_uc001iwn.3_5'UTR	NM_145023	NP_659460	Q96M83	CCDC7_HUMAN	coiled-coil domain containing 7	422											0		Breast(68;0.000207)|Prostate(175;0.0107)				TAAAAGTGAGGGGAAAACTGA	0.308													13	19	---	---	---	---	PASS
PGBD3	267004	broad.mit.edu	37	10	50724411	50724411	+	Silent	SNP	T	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:50724411T>A	uc001jht.2	-	2	1005	c.750A>T	c.(748-750)ATA>ATT	p.I250I	ERCC6_uc001jhs.3_Intron|PGBD3_uc009xoe.2_Silent_p.I718I|PGBD3_uc001jhu.2_Silent_p.I718I	NM_170753	NP_736609	Q8N328	PGBD3_HUMAN	hypothetical protein LOC267004	250										pancreas(1)|breast(1)|skin(1)	3						TAAGTTTGCTTATGAGAGGTC	0.368													17	33	---	---	---	---	PASS
ANK3	288	broad.mit.edu	37	10	61836114	61836114	+	Missense_Mutation	SNP	C	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:61836114C>A	uc001jky.2	-	37	4717	c.4525G>T	c.(4525-4527)GCT>TCT	p.A1509S	ANK3_uc001jkw.2_Intron|ANK3_uc009xpa.2_Intron|ANK3_uc001jkx.2_Intron|ANK3_uc010qih.1_Intron|ANK3_uc001jkz.3_Intron|ANK3_uc001jkv.2_Intron|ANK3_uc009xpb.1_Intron|ANK3_uc009xpc.1_RNA	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	1509					establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						GTAATCGGAGCTGTTGTCCAG	0.468													8	31	---	---	---	---	PASS
PPA1	5464	broad.mit.edu	37	10	71974268	71974268	+	Silent	SNP	T	C	C			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:71974268T>C	uc001jqv.1	-	5	479	c.372A>G	c.(370-372)GAA>GAG	p.E124E		NM_021129	NP_066952	Q15181	IPYR_HUMAN	pyrophosphatase 1	124					diphosphate metabolic process|tRNA aminoacylation for protein translation	cytosol	inorganic diphosphatase activity|magnesium ion binding			breast(1)	1						TGCTTCCAATTTCACACACAT	0.318													13	29	---	---	---	---	PASS
SFTPA2	729238	broad.mit.edu	37	10	81319118	81319118	+	Missense_Mutation	SNP	A	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:81319118A>T	uc001kal.3	-	3	219	c.122T>A	c.(121-123)CTG>CAG	p.L41Q	SFTPA2_uc001kan.3_Missense_Mutation_p.L41Q|SFTPA2_uc001kam.2_RNA	NM_006926	NP_008857	Q8IWL1	SFPA2_HUMAN	RecName: Full=Pulmonary surfactant-associated protein A2;          Short=SP-A2;          Short=SP-A;          Short=PSP-A;          Short=PSPA; AltName: Full=Alveolar proteinosis protein; AltName: Full=35 kDa pulmonary surfactant-associated protein; Flags: Precursor;	41	Collagen-like.				cell junction assembly|respiratory gaseous exchange	collagen|extracellular space	sugar binding				0	all_cancers(46;0.197)|Breast(12;0.000326)|Prostate(51;0.00985)|all_epithelial(25;0.0149)		Epithelial(14;0.00957)|all cancers(16;0.0179)|Colorectal(32;0.229)			CCTGCCTGGCAGGCCGTGGGA	0.617									Pulmonary_Fibrosis_Idiopathic				17	19	---	---	---	---	PASS
HPS1	3257	broad.mit.edu	37	10	100184060	100184060	+	Intron	SNP	C	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:100184060C>T	uc010qpf.1	-						HPS1_uc001kpi.1_Intron|HPS1_uc001kpj.1_Intron|HPS1_uc001kpk.1_Intron|HPS1_uc010qpg.1_Intron|HPS1_uc009xwb.2_Intron	NM_000195	NP_000186	Q92902	HPS1_HUMAN	Hermansky-Pudlak syndrome 1 protein isoform a						lysosome organization|response to stimulus|visual perception	cytoplasmic membrane-bounded vesicle|integral to plasma membrane|lysosome|membrane fraction|soluble fraction	protein dimerization activity			skin(1)	1		Colorectal(252;0.234)		Epithelial(162;3.87e-12)|all cancers(201;5.63e-10)		TCCTGAGGCCCACCACTCACT	0.567									Hermansky-Pudlak_syndrome				4	8	---	---	---	---	PASS
NOLC1	9221	broad.mit.edu	37	10	103919769	103919769	+	Missense_Mutation	SNP	A	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:103919769A>T	uc001kuo.2	+	8	1211	c.976A>T	c.(976-978)AGT>TGT	p.S326C	NOLC1_uc001kup.2_Missense_Mutation_p.S336C|NOLC1_uc001kuq.2_Missense_Mutation_p.S327C|NOLC1_uc009xxb.1_Missense_Mutation_p.S45C|NOLC1_uc001kur.2_Missense_Mutation_p.S45C	NM_004741	NP_004732	Q14978	NOLC1_HUMAN	nucleolar and coiled-body phosphoprotein 1	326	11 X 12 AA approximate repeats of an acidic serine cluster.|Interacts with RPA194.|Acidic serine cluster 6.				mitosis|rRNA processing	cytoplasm|nucleolus	ATP binding|GTP binding|protein binding			ovary(1)	1		Colorectal(252;0.122)		Epithelial(162;5.19e-08)|all cancers(201;9.43e-07)		TGAAGACAGCAGTGATGAGTC	0.592													5	0	---	---	---	---	PASS
ACTR1A	10121	broad.mit.edu	37	10	104242820	104242820	+	Missense_Mutation	SNP	G	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:104242820G>T	uc001kvv.2	-	7	806	c.698C>A	c.(697-699)ACG>AAG	p.T233K	ACTR1A_uc010qqn.1_Missense_Mutation_p.T159K|ACTR1A_uc010qqo.1_Missense_Mutation_p.T186K	NM_005736	NP_005727	P61163	ACTZ_HUMAN	ARP1 actin-related protein 1 homolog A,	233					G2/M transition of mitotic cell cycle|vesicle-mediated transport	centrosome|cytosol|dynactin complex	ATP binding			central_nervous_system(1)	1		Colorectal(252;0.122)		Epithelial(162;5.34e-09)|all cancers(201;1.43e-07)|BRCA - Breast invasive adenocarcinoma(275;0.222)		TGTCTCTAGCGTCTCATCCTT	0.517													37	46	---	---	---	---	PASS
MUC5B	727897	broad.mit.edu	37	11	1254275	1254275	+	Missense_Mutation	SNP	C	G	G			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:1254275C>G	uc009ycr.1	+	34	4201	c.4075C>G	c.(4075-4077)CGC>GGC	p.R1359G	MUC5B_uc009yct.1_Missense_Mutation_p.R700G|MUC5B_uc001ltb.2_Missense_Mutation_p.R703G|MUC5B_uc001lta.2_Missense_Mutation_p.R368G	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	700	TIL 2.			R -> P (in Ref. 3; CAA06167).	cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CAAGTCCCAGCGCTACGCCTA	0.667													5	7	---	---	---	---	PASS
OR56A4	120793	broad.mit.edu	37	11	6023346	6023346	+	Missense_Mutation	SNP	T	C	C			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:6023346T>C	uc010qzv.1	-	1	1033	c.1033A>G	c.(1033-1035)ATT>GTT	p.I345V		NM_001005179	NP_001005179	Q8NGH8	O56A4_HUMAN	olfactory receptor, family 56, subfamily A,	293	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|skin(1)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;7.01e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CCATAAACAATGGGGTTCAGA	0.473													13	37	---	---	---	---	PASS
CCKBR	887	broad.mit.edu	37	11	6281297	6281297	+	Missense_Mutation	SNP	G	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:6281297G>T	uc001mcp.2	+	1	332	c.139G>T	c.(139-141)GCC>TCC	p.A47S	CCKBR_uc001mcq.2_5'UTR|CCKBR_uc001mcr.2_Missense_Mutation_p.A47S|CCKBR_uc001mcs.2_Missense_Mutation_p.A47S	NM_176875	NP_795344	P32239	GASR_HUMAN	cholecystokinin B receptor	47	Extracellular (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|cell proliferation|digestion|elevation of cytosolic calcium ion concentration|feeding behavior|positive regulation of cell proliferation|sensory perception		1-phosphatidylinositol-3-kinase regulator activity|gastrin receptor activity|phosphatidylinositol phospholipase C activity|type B gastrin/cholecystokinin receptor binding			lung(5)|ovary(2)|breast(1)	8		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;2.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.139)	Pentagastrin(DB00183)	CATTCGCGGAGCCGGGACACG	0.672													4	15	---	---	---	---	PASS
DCHS1	8642	broad.mit.edu	37	11	6661831	6661831	+	Silent	SNP	C	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:6661831C>A	uc001mem.1	-	2	1424	c.1014G>T	c.(1012-1014)GGG>GGT	p.G338G		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	338	Extracellular (Potential).|Cadherin 3.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CAGGGTGAGCCCCACCATCTC	0.587													16	56	---	---	---	---	PASS
PDE3B	5140	broad.mit.edu	37	11	14889073	14889073	+	Missense_Mutation	SNP	G	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:14889073G>A	uc001mln.2	+	15	3261	c.2908G>A	c.(2908-2910)GGT>AGT	p.G970S	PDE3B_uc010rcr.1_Missense_Mutation_p.G919S	NM_000922	NP_000913	Q13370	PDE3B_HUMAN	phosphodiesterase 3B	970	Catalytic (By similarity).				cAMP catabolic process|insulin receptor signaling pathway|negative regulation of lipid catabolic process|platelet activation	cytosol|endoplasmic reticulum|Golgi apparatus|guanyl-nucleotide exchange factor complex|integral to membrane|microsome	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding|protein kinase B binding				0						AGCAAATCTTGGTCTGCCCAT	0.393													23	36	---	---	---	---	PASS
HPS5	11234	broad.mit.edu	37	11	18313248	18313248	+	Silent	SNP	G	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:18313248G>A	uc001mod.1	-	16	2459	c.2181C>T	c.(2179-2181)TGC>TGT	p.C727C	HPS5_uc001moe.1_Silent_p.C613C|HPS5_uc001mof.1_Silent_p.C613C	NM_181507	NP_852608	Q9UPZ3	HPS5_HUMAN	Hermansky-Pudlak syndrome 5 isoform a	727						cytosol				ovary(1)|pancreas(1)|skin(1)	3						TTGCAATGGCGCATGGAGAAC	0.408									Hermansky-Pudlak_syndrome				4	91	---	---	---	---	PASS
C11orf46	120534	broad.mit.edu	37	11	30358242	30358242	+	Missense_Mutation	SNP	C	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:30358242C>A	uc001mso.1	+	4	847	c.683C>A	c.(682-684)TCT>TAT	p.S228Y	C11orf46_uc001msp.2_5'Flank	NM_152316	NP_689529	Q8N8R7	CK046_HUMAN	hypothetical protein LOC120534	228	Cys-rich.										0						GCCTGTGGTTCTACCAAGTGT	0.448													45	103	---	---	---	---	PASS
PRR5L	79899	broad.mit.edu	37	11	36440842	36440842	+	Missense_Mutation	SNP	G	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:36440842G>A	uc001mwo.3	+	4	672	c.283G>A	c.(283-285)GAC>AAC	p.D95N	PRR5L_uc001mwp.2_Missense_Mutation_p.D95N|PRR5L_uc009ykk.2_Missense_Mutation_p.D14N|PRR5L_uc010rfc.1_Missense_Mutation_p.D95N	NM_001160167	NP_001153639	Q6MZQ0	PRR5L_HUMAN	protor-2 isoform a	95										ovary(1)	1						ATTCATTACAGACTATTTTCA	0.483													31	46	---	---	---	---	PASS
OR5T3	390154	broad.mit.edu	37	11	56019884	56019884	+	Missense_Mutation	SNP	T	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:56019884T>A	uc010rjd.1	+	1	209	c.209T>A	c.(208-210)ATA>AAA	p.I70K		NM_001004747	NP_001004747	Q8NGG3	OR5T3_HUMAN	olfactory receptor, family 5, subfamily T,	70	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(21;0.00448)					TTTACCTTGATAGGCAATTTA	0.373													21	51	---	---	---	---	PASS
OR5T3	390154	broad.mit.edu	37	11	56020603	56020603	+	Missense_Mutation	SNP	A	G	G			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:56020603A>G	uc010rjd.1	+	1	928	c.928A>G	c.(928-930)ATT>GTT	p.I310V		NM_001004747	NP_001004747	Q8NGG3	OR5T3_HUMAN	olfactory receptor, family 5, subfamily T,	310	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(21;0.00448)					ATTTTACACAATTGTGATTCC	0.343													21	55	---	---	---	---	PASS
LRRC55	219527	broad.mit.edu	37	11	56954920	56954920	+	Missense_Mutation	SNP	G	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:56954920G>T	uc001njl.1	+	2	1139	c.992G>T	c.(991-993)CGC>CTC	p.R331L	LRRC55_uc001njm.1_5'Flank	NM_001005210	NP_001005210	Q6ZSA7	LRC55_HUMAN	leucine rich repeat containing 55	301						integral to membrane					0						TGCTGCCACCGCTGGAGCAAG	0.587													6	15	---	---	---	---	PASS
MS4A10	341116	broad.mit.edu	37	11	60563024	60563024	+	Intron	SNP	T	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:60563024T>A	uc001npz.1	+							NM_206893	NP_996776	Q96PG2	M4A10_HUMAN	membrane-spanning 4-domains, subfamily A, member							integral to membrane	receptor activity			ovary(1)|skin(1)	2						CTCTACCCTCTCAGGTCCACA	0.612													4	9	---	---	---	---	PASS
GAL3ST3	89792	broad.mit.edu	37	11	65810520	65810520	+	Missense_Mutation	SNP	G	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:65810520G>A	uc001ogv.2	-	2	914	c.754C>T	c.(754-756)CGG>TGG	p.R252W	GAL3ST3_uc001ogw.2_Missense_Mutation_p.R252W	NM_033036	NP_149025	Q96A11	G3ST3_HUMAN	galactose-3-O-sulfotransferase 3	252	Lumenal (Potential).				monosaccharide metabolic process|oligosaccharide metabolic process|poly-N-acetyllactosamine metabolic process|proteoglycan biosynthetic process|sulfur compound metabolic process	Golgi cisterna membrane|integral to membrane	3'-phosphoadenosine 5'-phosphosulfate binding|carbohydrate binding|galactosylceramide sulfotransferase activity|proteoglycan sulfotransferase activity			ovary(1)	1						AGTAGGCGCCGCAGCAGCACT	0.622													17	16	---	---	---	---	PASS
SF3B2	10992	broad.mit.edu	37	11	65820501	65820501	+	Missense_Mutation	SNP	G	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:65820501G>T	uc001ogy.1	+	3	224	c.184G>T	c.(184-186)GGC>TGC	p.G62C	SF3B2_uc001ogx.1_Missense_Mutation_p.G62C	NM_006842	NP_006833	Q13435	SF3B2_HUMAN	splicing factor 3B subunit 2	62					interspecies interaction between organisms	catalytic step 2 spliceosome|nucleoplasm|U12-type spliceosomal complex	nucleic acid binding|protein binding			ovary(2)|breast(1)	3						TTTGCAGACTGGCATCGTGCT	0.433													36	97	---	---	---	---	PASS
MYO7A	4647	broad.mit.edu	37	11	76893183	76893183	+	Missense_Mutation	SNP	G	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:76893183G>A	uc001oyb.2	+	24	3363	c.3091G>A	c.(3091-3093)GAC>AAC	p.D1031N	MYO7A_uc010rsl.1_Missense_Mutation_p.D1031N|MYO7A_uc010rsm.1_Missense_Mutation_p.D1020N|MYO7A_uc001oyc.2_Missense_Mutation_p.D1031N|MYO7A_uc001oyd.2_Missense_Mutation_p.D371N|MYO7A_uc009yus.1_RNA|MYO7A_uc009yut.1_Missense_Mutation_p.D242N	NM_000260	NP_000251	Q13402	MYO7A_HUMAN	myosin VIIA isoform 1	1031	MyTH4 1.				actin filament-based movement|equilibrioception|lysosome organization|sensory perception of sound|visual perception	cytosol|lysosomal membrane|myosin complex|photoreceptor inner segment|photoreceptor outer segment|synapse	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(3)|breast(1)	4						CTACCATGACGACGAGGGTGA	0.607													11	16	---	---	---	---	PASS
KIAA1731	85459	broad.mit.edu	37	11	93454925	93454925	+	Intron	SNP	G	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:93454925G>A	uc009ywb.1	+						KIAA1731_uc001pdu.1_Intron|SCARNA9_uc001pdv.2_RNA|KIAA1731_uc001pdw.1_5'Flank	NM_033395	NP_203753	Q9C0D2	K1731_HUMAN	hypothetical protein LOC85459							centrosome					0		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				GAGGGTGGGGGGGTGCGTATG	0.323													4	30	---	---	---	---	PASS
GUCY1A2	2977	broad.mit.edu	37	11	106681023	106681023	+	Missense_Mutation	SNP	T	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:106681023T>A	uc001pjg.1	-	5	1778	c.1388A>T	c.(1387-1389)GAT>GTT	p.D463V	GUCY1A2_uc010rvo.1_Missense_Mutation_p.D484V|GUCY1A2_uc009yxn.1_Missense_Mutation_p.D463V	NM_000855	NP_000846	P33402	GCYA2_HUMAN	guanylate cyclase 1, soluble, alpha 2	463					intracellular signal transduction|platelet activation	cytoplasm	GTP binding|guanylate cyclase activity|heme binding			large_intestine(3)|lung(2)|pancreas(2)|ovary(1)	8		all_epithelial(67;3.66e-05)|Melanoma(852;0.000382)|Acute lymphoblastic leukemia(157;0.001)|all_hematologic(158;0.0017)|Breast(348;0.026)|all_neural(303;0.068)		BRCA - Breast invasive adenocarcinoma(274;8.04e-05)|Epithelial(105;0.0036)|all cancers(92;0.0476)		CTTCAACCCATCTTGGGCCTT	0.453													24	46	---	---	---	---	PASS
ARHGEF12	23365	broad.mit.edu	37	11	120317760	120317760	+	Missense_Mutation	SNP	G	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:120317760G>A	uc001pxl.1	+	18	1562	c.1555G>A	c.(1555-1557)GCA>ACA	p.A519T	ARHGEF12_uc009zat.2_Missense_Mutation_p.A500T|ARHGEF12_uc010rzn.1_Missense_Mutation_p.A416T|ARHGEF12_uc009zau.1_Missense_Mutation_p.A416T	NM_015313	NP_056128	Q9NZN5	ARHGC_HUMAN	Rho guanine nucleotide exchange factor (GEF) 12	519	RGSL.				apoptosis|axon guidance|G-protein coupled receptor protein signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane	G-protein-coupled receptor binding|GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(2)|breast(2)|skin(2)|ovary(1)	7		Breast(109;0.000813)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.0831)|all_hematologic(192;0.107)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.231)		GCGGACATGTGCAGAACAGAT	0.438			T	MLL	AML								19	55	---	---	---	---	PASS
SORL1	6653	broad.mit.edu	37	11	121485765	121485765	+	Splice_Site	SNP	G	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:121485765G>T	uc001pxx.2	+	41	5684	c.5604_splice	c.e41+1	p.V1868_splice	SORL1_uc010rzp.1_Splice_Site_p.V714_splice|SORL1_uc010rzq.1_Splice_Site_p.V483_splice	NM_003105	NP_003096	Q92673	SORL_HUMAN	sortilin-related receptor containing LDLR class						cholesterol metabolic process|lipid transport|receptor-mediated endocytosis	integral to plasma membrane|low-density lipoprotein particle	low-density lipoprotein particle binding|transmembrane receptor activity			ovary(5)|breast(4)|large_intestine(2)|skin(2)|central_nervous_system(1)|pancreas(1)	15		Breast(109;0.00119)|Medulloblastoma(222;0.0429)|all_neural(223;0.113)		BRCA - Breast invasive adenocarcinoma(274;3.34e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.108)		CCGGAATGTGGTGAGTCAGCC	0.542													3	23	---	---	---	---	PASS
ASAM	79827	broad.mit.edu	37	11	122945410	122945410	+	Missense_Mutation	SNP	C	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:122945410C>T	uc001pyt.2	-	6	1180	c.821G>A	c.(820-822)CGA>CAA	p.R274Q		NM_024769	NP_079045	Q9H6B4	CLMP_HUMAN	adipocyte-specific adhesion molecule precursor	274	Cytoplasmic (Potential).					integral to membrane|tight junction					0		Breast(109;0.0025)|Lung NSC(97;0.0179)|all_lung(97;0.0182)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.73e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0446)		GGAGGTTTACCGAATTTCATT	0.448													59	163	---	---	---	---	PASS
OR10G8	219869	broad.mit.edu	37	11	123901029	123901029	+	Missense_Mutation	SNP	C	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:123901029C>A	uc001pzp.1	+	1	700	c.700C>A	c.(700-702)CAC>AAC	p.H234N		NM_001004464	NP_001004464	Q8NGN5	O10G8_HUMAN	olfactory receptor, family 10, subfamily G,	234	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0521)		AGAGGGGAAGCACAGAGCCTT	0.547													18	53	---	---	---	---	PASS
ITFG2	55846	broad.mit.edu	37	12	2927299	2927299	+	Missense_Mutation	SNP	G	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:2927299G>T	uc001qlb.1	+	4	326	c.262G>T	c.(262-264)GGC>TGC	p.G88C	ITFG2_uc001qla.1_Missense_Mutation_p.G88C|ITFG2_uc010seb.1_Intron|ITFG2_uc010sec.1_RNA	NM_018463	NP_060933	Q969R8	ITFG2_HUMAN	integrin alpha FG-GAP repeat containing 2	88											0			OV - Ovarian serous cystadenocarcinoma(31;0.000818)			GAGTGCTGAAGGCTGGTTTCA	0.507													29	49	---	---	---	---	PASS
CLSTN3	9746	broad.mit.edu	37	12	7295832	7295832	+	Missense_Mutation	SNP	A	G	G			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:7295832A>G	uc001qsr.2	+	12	2050	c.1772A>G	c.(1771-1773)CAG>CGG	p.Q591R	CLSTN3_uc001qss.2_Missense_Mutation_p.Q603R	NM_014718	NP_055533	Q9BQT9	CSTN3_HUMAN	calsyntenin 3 precursor	591	Extracellular (Potential).				homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			large_intestine(1)	1						CATGCCCTGCAGCATGTGGCT	0.617													39	72	---	---	---	---	PASS
ABCC9	10060	broad.mit.edu	37	12	22065959	22065959	+	Missense_Mutation	SNP	C	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:22065959C>A	uc001rfi.1	-	6	878	c.858G>T	c.(856-858)TGG>TGT	p.W286C	ABCC9_uc001rfh.2_Missense_Mutation_p.W286C|ABCC9_uc001rfj.1_Missense_Mutation_p.W286C	NM_005691	NP_005682	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9	286	Cytoplasmic (Potential).				defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	ACATTGCAAGCCATATAGATG	0.373													17	40	---	---	---	---	PASS
DNM1L	10059	broad.mit.edu	37	12	32896283	32896283	+	Intron	SNP	T	C	C			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:32896283T>C	uc001rld.2	+						DNM1L_uc001rle.2_Intron|DNM1L_uc001rlf.2_Intron|DNM1L_uc010skh.1_Intron|DNM1L_uc001rlg.2_Intron|DNM1L_uc001rlh.2_Intron|DNM1L_uc010ski.1_Intron	NM_012062	NP_036192	O00429	DNM1L_HUMAN	dynamin 1-like isoform 1						cellular component disassembly involved in apoptosis|mitochondrial fragmentation involved in apoptosis|mitochondrial membrane organization|positive regulation of mitochondrial fission	cis-Golgi network|cytosol|endomembrane system|endoplasmic reticulum|mitochondrial outer membrane	GTP binding|GTPase activity|ubiquitin protein ligase binding			ovary(1)|pancreas(1)	2	Lung NSC(5;2.15e-06)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.239)					TTTCCTTTAATGCAGGCATTA	0.313													16	28	---	---	---	---	PASS
NACA	4666	broad.mit.edu	37	12	57112430	57112430	+	Intron	SNP	C	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:57112430C>A	uc001slz.2	-						NACA_uc001sly.2_Intron|NACA_uc009zoy.1_Missense_Mutation_p.A962S|NACA_uc001smc.2_Intron|NACA_uc001sma.2_Intron|NACA_uc001smb.2_Intron|NACA_uc010squ.1_Intron	NM_001113201	NP_001106672	Q13765	NACA_HUMAN	nascent polypeptide-associated complex alpha						interspecies interaction between organisms|protein transport|transcription, DNA-dependent|translation	nascent polypeptide-associated complex|nucleus	DNA binding			ovary(1)	1						GGTGTGGGGGCCCATTTCGGG	0.662			T	BCL6	NHL								11	24	---	---	---	---	PASS
MON2	23041	broad.mit.edu	37	12	62954653	62954653	+	Silent	SNP	A	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:62954653A>T	uc001sre.2	+	26	4183	c.3792A>T	c.(3790-3792)CTA>CTT	p.L1264L	MON2_uc009zqj.2_Silent_p.L1264L|MON2_uc010ssl.1_Silent_p.L1192L|MON2_uc010ssm.1_Silent_p.L1241L|MON2_uc010ssn.1_Silent_p.L1264L|MON2_uc001srf.2_Silent_p.L1027L|MON2_uc001srg.2_Silent_p.L139L	NM_015026	NP_055841	Q7Z3U7	MON2_HUMAN	MON2 homolog	1265					Golgi to endosome transport|protein transport	cytoplasm	ARF guanyl-nucleotide exchange factor activity|binding			central_nervous_system(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.218)	GBM - Glioblastoma multiforme(28;0.128)		TTGATAAACTAACTTTTATTC	0.368													31	46	---	---	---	---	PASS
TSPAN8	7103	broad.mit.edu	37	12	71519129	71519129	+	Missense_Mutation	SNP	C	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:71519129C>A	uc009zrt.1	-	8	861	c.699G>T	c.(697-699)CAG>CAT	p.Q233H	TSPAN8_uc001swk.1_Missense_Mutation_p.Q233H|TSPAN8_uc001swj.1_Missense_Mutation_p.Q233H	NM_004616	NP_004607	P19075	TSN8_HUMAN	transmembrane 4 superfamily member 3	233	Cytoplasmic (Potential).				protein glycosylation	integral to membrane|lysosome	signal transducer activity			skin(2)|lung(1)|central_nervous_system(1)	4			LUSC - Lung squamous cell carcinoma(43;0.24)|OV - Ovarian serous cystadenocarcinoma(12;0.244)			TGTTCCCGATCTGGCAATACA	0.353													24	36	---	---	---	---	PASS
NAV3	89795	broad.mit.edu	37	12	78400211	78400211	+	Missense_Mutation	SNP	G	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:78400211G>T	uc001syp.2	+	8	1066	c.893G>T	c.(892-894)GGA>GTA	p.G298V	NAV3_uc001syo.2_Missense_Mutation_p.G298V	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	298						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						TCCTCCAAAGGACCTCAATCG	0.438										HNSCC(70;0.22)			14	33	---	---	---	---	PASS
ANKS1B	56899	broad.mit.edu	37	12	99548271	99548271	+	Intron	SNP	G	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:99548271G>A	uc001tge.1	-						ANKS1B_uc001tgf.1_Intron|ANKS1B_uc001tgk.2_Intron|ANKS1B_uc001tgd.1_5'UTR|ANKS1B_uc001tgi.2_5'UTR|ANKS1B_uc009ztr.2_5'UTR|ANKS1B_uc001tgj.2_5'UTR|ANKS1B_uc001tgg.3_Intron|ANKS1B_uc010svg.1_Intron|ANKS1B_uc009zts.1_5'UTR|ANKS1B_uc001tgm.1_5'UTR	NM_152788	NP_690001	Q7Z6G8	ANS1B_HUMAN	cajalin 2 isoform a							Cajal body|cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane					0		all_cancers(3;0.0197)|all_epithelial(3;0.0101)|Esophageal squamous(3;0.0559)|Breast(359;0.209)		OV - Ovarian serous cystadenocarcinoma(2;2.89e-08)|Epithelial(2;6.12e-08)|all cancers(2;4.07e-06)		GCCACATCATGCCCCTGGGAA	0.522													5	17	---	---	---	---	PASS
C12orf48	55010	broad.mit.edu	37	12	102569288	102569288	+	Silent	SNP	G	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:102569288G>T	uc001tjf.2	+	7	961	c.849G>T	c.(847-849)GTG>GTT	p.V283V	C12orf48_uc001tjg.2_Silent_p.V202V|C12orf48_uc010swa.1_Silent_p.V360V|C12orf48_uc001tjh.2_Silent_p.V202V|C12orf48_uc010swb.1_Intron|C12orf48_uc009zuc.2_Intron|C12orf48_uc001tjj.2_5'UTR|C12orf48_uc001tjk.2_Intron|C12orf48_uc009zud.2_Intron	NM_017915	NP_060385	Q9NWS1	PR1BP_HUMAN	hypothetical protein LOC55010	283					response to DNA damage stimulus	cytoplasm|nucleus	DNA binding				0						TACTGTCAGTGATAAAGATGC	0.333													27	41	---	---	---	---	PASS
SKA3	221150	broad.mit.edu	37	13	21742230	21742230	+	Missense_Mutation	SNP	C	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:21742230C>T	uc001unt.2	-	4	734	c.640G>A	c.(640-642)GAG>AAG	p.E214K	SKA3_uc001unv.2_Missense_Mutation_p.E132K|SKA3_uc001unu.2_Missense_Mutation_p.E214K	NM_145061	NP_659498	Q8IX90	SKA3_HUMAN	SKA3	214					cell division|chromosome segregation|mitosis|regulation of microtubule polymerization or depolymerization	condensed chromosome outer kinetochore|cytoplasm|spindle microtubule	protein binding				0						GTTACACACTCAAAATCATCC	0.328													43	41	---	---	---	---	PASS
PDS5B	23047	broad.mit.edu	37	13	33233343	33233343	+	Missense_Mutation	SNP	A	G	G			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:33233343A>G	uc010abf.2	+	6	708	c.550A>G	c.(550-552)ATT>GTT	p.I184V	PDS5B_uc001uuo.2_Missense_Mutation_p.I184V|PDS5B_uc010abg.2_RNA	NM_015032	NP_055847	Q9NTI5	PDS5B_HUMAN	PDS5, regulator of cohesion maintenance, homolog	184					cell division|cell proliferation|mitotic sister chromatid cohesion|negative regulation of cell proliferation	chromatin|nucleus	ATP binding|DNA binding|identical protein binding			ovary(2)|lung(1)|pancreas(1)	4		Lung SC(185;0.0367)		all cancers(112;5.55e-06)|Epithelial(112;2.7e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00303)|BRCA - Breast invasive adenocarcinoma(63;0.0204)		TATGAGCTCTATTATTTGTGA	0.378													40	36	---	---	---	---	PASS
MAB21L1	4081	broad.mit.edu	37	13	36049443	36049443	+	Missense_Mutation	SNP	A	G	G			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:36049443A>G	uc001uvc.2	-	1	1390	c.833T>C	c.(832-834)GTT>GCT	p.V278A	NBEA_uc001uvb.2_Intron|NBEA_uc010abi.2_Intron|NBEA_uc010tee.1_Intron|NBEA_uc010tef.1_5'Flank|NBEA_uc010teg.1_5'Flank	NM_005584	NP_005575	Q13394	MB211_HUMAN	mab-21-like protein 1	278					anatomical structure morphogenesis	nucleus				ovary(2)	2		Breast(139;0.014)|Lung SC(185;0.051)|Prostate(109;0.202)		all cancers(112;9.63e-08)|Epithelial(112;1.37e-06)|BRCA - Breast invasive adenocarcinoma(63;0.000659)|OV - Ovarian serous cystadenocarcinoma(117;0.00372)|GBM - Glioblastoma multiforme(144;0.115)		CTCGTAGGAAACCAGAGTCTT	0.527													22	17	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	14	22600958	22600958	+	Intron	SNP	T	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:22600958T>A	uc001wbw.2	+						uc010aiv.1_Intron|uc010tmi.1_Intron|uc010tmj.1_Intron|uc010aja.1_Intron|uc010tmk.1_Intron|uc010tmo.1_Intron|uc001wco.2_Intron|uc010aje.1_Intron|uc001wcp.2_Intron|uc001wcr.1_Intron|uc001wcs.1_Intron|uc010ajf.1_Intron|uc010ajg.1_Intron|uc001wcx.3_Intron|uc001wdd.2_Intron|uc010ajj.1_Intron|uc001wde.1_Intron|uc010tmq.1_RNA					SubName: Full=Alpha-chain C region; Flags: Fragment;																		CCCATGTGAGTGATGCTGCTG	0.502													13	19	---	---	---	---	PASS
MYH6	4624	broad.mit.edu	37	14	23862179	23862179	+	Missense_Mutation	SNP	G	C	C			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:23862179G>C	uc001wjv.2	-	24	3260	c.3193C>G	c.(3193-3195)CAG>GAG	p.Q1065E		NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	1065	Potential.		Q -> H (in CMH14).		adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		ATGCTCTCCTGGGTCAGCTTC	0.542													17	60	---	---	---	---	PASS
CBLN3	643866	broad.mit.edu	37	14	24897140	24897140	+	Missense_Mutation	SNP	G	C	C			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:24897140G>C	uc001wpg.3	-	3	944	c.473C>G	c.(472-474)CCT>CGT	p.P158R	KHNYN_uc010tpc.1_5'Flank|KHNYN_uc001wph.3_5'Flank|KHNYN_uc010alw.2_5'Flank	NM_001039771	NP_001034860	Q6UW01	CBLN3_HUMAN	cerebellin 3 precursor	158	Necessary for interaction with CBLN3, and homotrimerization (By similarity).|C1q.					cell junction|extracellular region|synapse				central_nervous_system(1)	1				GBM - Glioblastoma multiforme(265;0.00159)		GGTCACGTCAGGATCATTGGC	0.632													15	21	---	---	---	---	PASS
AKAP6	9472	broad.mit.edu	37	14	33015113	33015113	+	Missense_Mutation	SNP	G	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:33015113G>T	uc001wrq.2	+	4	1424	c.1254G>T	c.(1252-1254)AAG>AAT	p.K418N	AKAP6_uc010aml.2_Missense_Mutation_p.K415N	NM_004274	NP_004265	Q13023	AKAP6_HUMAN	A-kinase anchor protein 6	418					protein targeting	calcium channel complex|nuclear membrane|sarcoplasmic reticulum	protein kinase A binding|receptor binding			breast(6)|ovary(5)|lung(4)|skin(3)|large_intestine(2)|pancreas(1)	21	Breast(36;0.0388)|Prostate(35;0.15)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00677)|STAD - Stomach adenocarcinoma(7;0.116)	GBM - Glioblastoma multiforme(265;0.019)		TTGATCTAAAGCCTGAGATGA	0.453													64	103	---	---	---	---	PASS
LRFN5	145581	broad.mit.edu	37	14	42357212	42357212	+	Missense_Mutation	SNP	A	G	G			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:42357212A>G	uc001wvm.2	+	3	2582	c.1384A>G	c.(1384-1386)AGA>GGA	p.R462G	LRFN5_uc010ana.2_Missense_Mutation_p.R462G	NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III	462	Extracellular (Potential).|Fibronectin type-III.					integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		CCTTGTTTACAGGTAAGAAAA	0.318										HNSCC(30;0.082)			6	25	---	---	---	---	PASS
FSCB	84075	broad.mit.edu	37	14	44975317	44975317	+	Missense_Mutation	SNP	G	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:44975317G>T	uc001wvn.2	-	1	1183	c.874C>A	c.(874-876)CAA>AAA	p.Q292K		NM_032135	NP_115511	Q5H9T9	FSCB_HUMAN	fibrous sheath CABYR binding protein	292						cilium				lung(3)|breast(3)|ovary(2)|central_nervous_system(1)	9				GBM - Glioblastoma multiforme(112;0.128)		GGCTGTACTTGGACATGGGTC	0.517													19	46	---	---	---	---	PASS
NID2	22795	broad.mit.edu	37	14	52493960	52493960	+	Missense_Mutation	SNP	G	T	T	rs147631741		TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:52493960G>T	uc001wzo.2	-	12	2867	c.2633C>A	c.(2632-2634)GCC>GAC	p.A878D	NID2_uc010tqs.1_Intron|NID2_uc010tqt.1_Missense_Mutation_p.A878D|NID2_uc001wzp.2_Missense_Mutation_p.A878D	NM_007361	NP_031387	Q14112	NID2_HUMAN	nidogen 2 precursor	878	EGF-like 4.					basement membrane	calcium ion binding|collagen binding			pancreas(2)|breast(2)|ovary(1)|liver(1)|skin(1)	7	Breast(41;0.0639)|all_epithelial(31;0.123)					AGGCAGGCAGGCACAGCTGAA	0.597													5	14	---	---	---	---	PASS
NID2	22795	broad.mit.edu	37	14	52534714	52534714	+	Silent	SNP	C	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:52534714C>T	uc001wzo.2	-	2	630	c.396G>A	c.(394-396)GTG>GTA	p.V132V	NID2_uc010tqs.1_Silent_p.V132V|NID2_uc010tqt.1_Silent_p.V132V|NID2_uc001wzp.2_Silent_p.V132V	NM_007361	NP_031387	Q14112	NID2_HUMAN	nidogen 2 precursor	132	NIDO.					basement membrane	calcium ion binding|collagen binding			pancreas(2)|breast(2)|ovary(1)|liver(1)|skin(1)	7	Breast(41;0.0639)|all_epithelial(31;0.123)					CCAGGCCCAGCACTGCGGGGG	0.697													24	34	---	---	---	---	PASS
GPHN	10243	broad.mit.edu	37	14	67588971	67588971	+	Splice_Site	SNP	A	G	G			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:67588971A>G	uc001xiy.2	+	16	2649	c.1528_splice	c.e16-2	p.L510_splice	GPHN_uc001xix.2_Splice_Site_p.L543_splice|GPHN_uc010tss.1_Splice_Site_p.L556_splice|GPHN_uc010tst.1_Splice_Site_p.L479_splice|GPHN_uc010tsu.1_Splice_Site_p.L433_splice	NM_001024218	NP_001019389	Q9NQX3	GEPH_HUMAN	gephyrin isoform 2						Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cell junction|cytoplasm|cytoskeleton|postsynaptic membrane	ATP binding|metal ion binding|nucleotidyltransferase activity			ovary(2)	2		all_cancers(7;0.0476)|all_hematologic(31;0.0116)		Epithelial(1;1.73e-08)|all cancers(60;3.15e-07)|OV - Ovarian serous cystadenocarcinoma(108;0.000275)|BRCA - Breast invasive adenocarcinoma(234;0.00323)|Colorectal(3;0.0938)|KIRC - Kidney renal clear cell carcinoma(182;0.184)		TTGGCTTTGTAGCTGCTAAAT	0.373			T	MLL	AL								3	55	---	---	---	---	PASS
C14orf179	112752	broad.mit.edu	37	14	76549569	76549569	+	Splice_Site	SNP	G	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:76549569G>A	uc010asm.1	+	8	479	c.445_splice	c.e8-1	p.D149_splice	C14orf179_uc001xsg.2_Splice_Site_p.D154_splice|C14orf179_uc010tve.1_Splice_Site	NM_001102564	NP_001096034	Q96FT9	IFT43_HUMAN	hypothetical protein LOC112752 isoform 2						cilium morphogenesis|intraflagellar retrograde transport						0				BRCA - Breast invasive adenocarcinoma(234;0.0199)		TGCATTCACAGGATGGGGAGA	0.532													11	16	---	---	---	---	PASS
TRIP11	9321	broad.mit.edu	37	14	92471524	92471524	+	Silent	SNP	A	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:92471524A>T	uc001xzy.2	-	11	3584	c.2796T>A	c.(2794-2796)TCT>TCA	p.S932S	TRIP11_uc010auf.1_Silent_p.S668S	NM_004239	NP_004230	Q15643	TRIPB_HUMAN	thyroid hormone receptor interactor 11	932	Potential.				transcription from RNA polymerase II promoter	cytoskeleton|Golgi apparatus|membrane|nucleus	protein binding|transcription coactivator activity			ovary(6)|skin(2)|kidney(2)|central_nervous_system(1)|lung(1)|breast(1)	13				COAD - Colon adenocarcinoma(157;0.223)		GCTCTTGTAAAGACTGAAGTA	0.373			T	PDGFRB	AML								40	81	---	---	---	---	PASS
ADAM6	8755	broad.mit.edu	37	14	107083459	107083459	+	RNA	SNP	T	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:107083459T>A	uc010tyt.1	-	113		c.5334A>T								Parts of antibodies, mostly variable regions.												0						TAGTAACTACTGATGGAGCCA	0.597													17	29	---	---	---	---	PASS
OTUD7A	161725	broad.mit.edu	37	15	31776570	31776570	+	Missense_Mutation	SNP	C	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:31776570C>A	uc001zfq.2	-	11	1801	c.1708G>T	c.(1708-1710)GGC>TGC	p.G570C	OTUD7A_uc001zfr.2_Missense_Mutation_p.G577C	NM_130901	NP_570971	Q8TE49	OTU7A_HUMAN	OTU domain containing 7A	570						cytoplasm|nucleus	cysteine-type peptidase activity|DNA binding|zinc ion binding			pancreas(1)|skin(1)	2		all_lung(180;1.6e-09)		all cancers(64;2.44e-19)|Epithelial(43;6.82e-14)|GBM - Glioblastoma multiforme(186;1.49e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00189)|Lung(196;0.208)		TCCTTGCTGCCCTTGCGCGAC	0.692													6	18	---	---	---	---	PASS
RYR3	6263	broad.mit.edu	37	15	33941357	33941357	+	Missense_Mutation	SNP	T	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:33941357T>A	uc001zhi.2	+	31	4133	c.4063T>A	c.(4063-4065)TAC>AAC	p.Y1355N	RYR3_uc010bar.2_Missense_Mutation_p.Y1355N	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	1355	4 X approximate repeats.|B30.2/SPRY 3.|Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		CTATCACTTGTACAGTGAAAA	0.532													27	49	---	---	---	---	PASS
COPS2	9318	broad.mit.edu	37	15	49425958	49425958	+	Silent	SNP	T	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:49425958T>A	uc001zxf.2	-	9	1024	c.945A>T	c.(943-945)GTA>GTT	p.V315V	COPS2_uc001zxh.2_Silent_p.V322V|COPS2_uc010ufa.1_Silent_p.V251V	NM_004236	NP_004227	P61201	CSN2_HUMAN	COP9 constitutive photomorphogenic homolog	315	PCI.				cullin deneddylation|transcription from RNA polymerase II promoter	cytoplasm|signalosome	protein binding|signal transducer activity			lung(1)	1		all_lung(180;0.0428)		all cancers(107;1.34e-07)|GBM - Glioblastoma multiforme(94;3.02e-05)		AATCTTACCTTACTAAATTCG	0.279													8	17	---	---	---	---	PASS
UNC13C	440279	broad.mit.edu	37	15	54586235	54586235	+	Nonsense_Mutation	SNP	G	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:54586235G>T	uc002ack.2	+	9	3961	c.3961G>T	c.(3961-3963)GGA>TGA	p.G1321*	UNC13C_uc002acl.2_Nonsense_Mutation_p.G151*	NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	1321					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		GACCTTGAGTGGAGAAATGGA	0.353													31	60	---	---	---	---	PASS
CCNB2	9133	broad.mit.edu	37	15	59408904	59408904	+	Missense_Mutation	SNP	C	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:59408904C>T	uc002afz.2	+	6	761	c.613C>T	c.(613-615)CGG>TGG	p.R205W	CCNB2_uc010bge.2_Missense_Mutation_p.R124W	NM_004701	NP_004692	O95067	CCNB2_HUMAN	cyclin B2	205					cell cycle checkpoint|cell division|G2/M transition of mitotic cell cycle|mitosis|regulation of cyclin-dependent protein kinase activity|regulation of G2/M transition of mitotic cell cycle	centrosome|cytosol|nucleus	protein kinase binding				0						GCCAGTTTCCCGGAAGAAGCT	0.408													9	59	---	---	---	---	PASS
TNFRSF17	608	broad.mit.edu	37	16	12059317	12059317	+	Intron	SNP	T	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:12059317T>A	uc002dbv.2	+						TNFRSF17_uc010buy.2_Intron|TNFRSF17_uc010buz.2_Intron	NM_001192	NP_001183	Q02223	TNR17_HUMAN	tumor necrosis factor receptor superfamily,						cell proliferation|multicellular organismal development	endomembrane system|integral to membrane|plasma membrane					0						TGCAAGTAAGTAATATTGCTT	0.358			T	IL2	intestinal T-cell lymphoma								44	41	---	---	---	---	PASS
MVP	9961	broad.mit.edu	37	16	29845346	29845346	+	Missense_Mutation	SNP	G	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:29845346G>A	uc002dui.2	+	5	620	c.536G>A	c.(535-537)CGC>CAC	p.R179H	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|MVP_uc010bzh.1_RNA|MVP_uc010vdz.1_Intron|MVP_uc002duj.2_Missense_Mutation_p.R179H|MVP_uc010vea.1_5'UTR	NM_005115	NP_005106	Q14764	MVP_HUMAN	major vault protein	179	MVP 4.				mRNA transport|protein transport|response to drug|transmembrane transport	cytoplasm|nuclear pore|ribonucleoprotein complex	protein binding			skin(2)|ovary(1)|central_nervous_system(1)	4						CTCAGGGCCCGCAAGGAGTGC	0.662													12	13	---	---	---	---	PASS
ZNF48	197407	broad.mit.edu	37	16	30409275	30409275	+	Missense_Mutation	SNP	G	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:30409275G>A	uc002dya.1	+	2	763	c.704G>A	c.(703-705)CGC>CAC	p.R235H	ZNF48_uc002dxz.1_Missense_Mutation_p.R112H	NM_152652	NP_689865	Q96MX3	ZNF48_HUMAN	zinc finger protein 48	235	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AGTTCCGCCCGCATCAAGCAC	0.657													3	26	---	---	---	---	PASS
RNF40	9810	broad.mit.edu	37	16	30780504	30780504	+	Intron	SNP	C	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:30780504C>T	uc002dzq.2	+						RNF40_uc010caa.2_Intron|RNF40_uc010cab.2_Intron|RNF40_uc010vfa.1_Intron|RNF40_uc002dzr.2_Intron|RNF40_uc010vfb.1_Intron|RNF40_uc010vfc.1_Intron	NM_014771	NP_055586	O75150	BRE1B_HUMAN	ring finger protein 40						histone H2B ubiquitination|histone monoubiquitination|ubiquitin-dependent protein catabolic process	nucleus|synaptosome|ubiquitin ligase complex	protein homodimerization activity|ubiquitin protein ligase binding|zinc ion binding			central_nervous_system(1)	1			Colorectal(24;0.198)			CCACTTGCTGCAGGAGGAGGA	0.562													27	54	---	---	---	---	PASS
FBXL19	54620	broad.mit.edu	37	16	30939884	30939884	+	Missense_Mutation	SNP	A	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:30939884A>T	uc002eab.2	+	6	942	c.784A>T	c.(784-786)AGG>TGG	p.R262W	FBXL19_uc002dzz.1_5'UTR|FBXL19_uc002eaa.1_Intron	NM_001099784	NP_001093254	Q6PCT2	FXL19_HUMAN	F-box and leucine-rich repeat protein 19	262	Pro-rich.						DNA binding|zinc ion binding			ovary(2)|lung(1)|breast(1)	4						GCTGCCCCCCAGGGTTCTGAA	0.677													4	8	---	---	---	---	PASS
PYDC1	260434	broad.mit.edu	37	16	31228292	31228292	+	Missense_Mutation	SNP	G	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:31228292G>A	uc002ebo.2	-	1	107	c.58C>T	c.(58-60)CTC>TTC	p.L20F	TRIM72_uc002ebn.1_Intron	NM_152901	NP_690865	Q8WXC3	PYDC1_HUMAN	pyrin domain containing 1	20	DAPIN.				innate immune response|negative regulation of NF-kappaB transcription factor activity|negative regulation of protein kinase activity|positive regulation of interleukin-1 beta secretion|proteolysis|tumor necrosis factor-mediated signaling pathway	IkappaB kinase complex|nucleus	cysteine-type endopeptidase activity|protein binding				0						AACTTCTTGAGCTCCTCCGGT	0.652													14	19	---	---	---	---	PASS
FTO	79068	broad.mit.edu	37	16	53907755	53907755	+	Missense_Mutation	SNP	G	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:53907755G>T	uc002ehr.2	+	5	1175	c.953G>T	c.(952-954)AGT>ATT	p.S318I	FTO_uc010vha.1_Missense_Mutation_p.S22I	NM_001080432	NP_001073901	Q9C0B1	FTO_HUMAN	fat mass and obesity associated	318	Alpha-ketoglutarate binding.|Fe2OG dioxygenase domain.				DNA dealkylation involved in DNA repair|oxidative single-stranded DNA demethylation|oxidative single-stranded RNA demethylation|RNA repair	nucleus	DNA-N1-methyladenine dioxygenase activity|ferrous iron binding|oxidative DNA demethylase activity|oxidative RNA demethylase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						CCTCGGTTTAGTTCCACCCAC	0.403													17	46	---	---	---	---	PASS
GPR97	222487	broad.mit.edu	37	16	57713122	57713122	+	Missense_Mutation	SNP	G	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:57713122G>T	uc002emh.2	+	5	629	c.526G>T	c.(526-528)GTG>TTG	p.V176L	GPR97_uc010vhv.1_Missense_Mutation_p.V56L|GPR97_uc010cdd.2_RNA|GPR97_uc010cde.2_5'Flank	NM_170776	NP_740746	Q86Y34	GPR97_HUMAN	G protein-coupled receptor 97 precursor	176	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)	1						TGGCAGCGGCGTGTTGAACAA	0.642													27	60	---	---	---	---	PASS
CCDC113	29070	broad.mit.edu	37	16	58287931	58287931	+	Silent	SNP	G	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:58287931G>T	uc002ene.2	+	3	337	c.258G>T	c.(256-258)CGG>CGT	p.R86R	CCDC113_uc010vid.1_Intron	NM_014157	NP_054876	Q9H0I3	CC113_HUMAN	coiled-coil domain containing 113 isoform 1	86						protein complex					0						CCAAATCCCGGACAGGTATGG	0.502													14	43	---	---	---	---	PASS
PKD1L2	114780	broad.mit.edu	37	16	81214831	81214831	+	Silent	SNP	C	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:81214831C>A	uc002fgh.1	-	12	2043	c.2043G>T	c.(2041-2043)CTG>CTT	p.L681L	PKD1L2_uc002fgg.1_RNA|PKD1L2_uc002fgi.2_5'UTR|PKD1L2_uc002fgj.2_Silent_p.L681L|PKD1L2_uc002fgl.1_5'UTR	NM_052892	NP_443124	Q7Z442	PK1L2_HUMAN	polycystin 1-like 2 isoform a	681	REJ.|Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity|sugar binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						TGACCCTGAGCAGAATGTCTT	0.517													13	40	---	---	---	---	PASS
MYH1	4619	broad.mit.edu	37	17	10415213	10415213	+	Missense_Mutation	SNP	C	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:10415213C>A	uc002gmo.2	-	14	1453	c.1359G>T	c.(1357-1359)AAG>AAT	p.K453N	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	453	Myosin head-like.					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						GCCTGGGCTGCTTGGTGTCCA	0.478													131	44	---	---	---	---	PASS
FLCN	201163	broad.mit.edu	37	17	17131272	17131272	+	Silent	SNP	C	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:17131272C>A	uc002gra.3	-	4	684	c.180G>T	c.(178-180)GCG>GCT	p.A60A	PLD6_uc010cpn.2_Intron|FLCN_uc002grb.3_Silent_p.A60A|FLCN_uc002grc.2_Silent_p.A60A	NM_144997	NP_659434	Q8NFG4	FLCN_HUMAN	folliculin isoform 1	60					regulation of protein phosphorylation	cytoplasm|nucleus|plasma membrane	protein binding			thyroid(1)|haematopoietic_and_lymphoid_tissue(1)|lung(1)	3						CGGGGCTGTGCGCACGCATCC	0.607									Birt-Hogg-Dub__syndrome|Familial_Non-VHL_Clear_Cell_Renal_Cancer				27	14	---	---	---	---	PASS
COPS3	8533	broad.mit.edu	37	17	17179477	17179477	+	Silent	SNP	C	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:17179477C>T	uc002grd.2	-	2	148	c.57G>A	c.(55-57)GGG>GGA	p.G19G	COPS3_uc010vwv.1_5'UTR|COPS3_uc010vww.1_5'UTR	NM_003653	NP_003644	Q9UNS2	CSN3_HUMAN	COP9 constitutive photomorphogenic homolog	19					cullin deneddylation|response to light stimulus|signal transduction	cytoplasm|signalosome	protein binding			skin(1)	1						GTGTCATTTGCCCTGGAAAAC	0.463													3	62	---	---	---	---	PASS
PRR11	55771	broad.mit.edu	37	17	57272786	57272786	+	Missense_Mutation	SNP	G	T	T	rs563868	byFrequency	TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:57272786G>T	uc002ixf.1	+	7	918	c.839G>T	c.(838-840)CGA>CTA	p.R280L	PRR11_uc002ixg.1_RNA	NM_018304	NP_060774	Q96HE9	PRR11_HUMAN	proline rich 11	280										ovary(2)	2	Medulloblastoma(34;0.0922)|all_neural(34;0.101)					TTATCGACTCGAGTTACAAAC	0.388													32	19	---	---	---	---	PASS
HEATR6	63897	broad.mit.edu	37	17	58126990	58126990	+	Missense_Mutation	SNP	G	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:58126990G>T	uc002iyk.1	-	16	2515	c.2498C>A	c.(2497-2499)GCA>GAA	p.A833E	HEATR6_uc010ddk.1_Missense_Mutation_p.A372E|HEATR6_uc010wos.1_Missense_Mutation_p.A553E	NM_022070	NP_071353	Q6AI08	HEAT6_HUMAN	HEAT repeat containing 6	833							binding			ovary(1)|skin(1)	2	all_cancers(5;2.25e-13)|Breast(5;4.84e-25)|all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		BRCA - Breast invasive adenocarcinoma(1;5.93e-19)|Epithelial(12;7.59e-12)|all cancers(12;1.26e-10)			CCGTGAAGTTGCAGCTTTCAC	0.498													3	47	---	---	---	---	PASS
APOH	350	broad.mit.edu	37	17	64210612	64210612	+	Missense_Mutation	SNP	T	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:64210612T>A	uc002jfn.3	-	7	1000	c.941A>T	c.(940-942)CAG>CTG	p.Q314L		NM_000042	NP_000033	P02749	APOH_HUMAN	apolipoprotein H precursor	314	Sushi-like.				blood coagulation, intrinsic pathway|negative regulation of angiogenesis|negative regulation of blood coagulation|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|negative regulation of fibrinolysis|negative regulation of myeloid cell apoptosis|negative regulation of smooth muscle cell apoptosis|plasminogen activation|positive regulation of lipoprotein lipase activity|triglyceride metabolic process|triglyceride transport	cell surface|chylomicron|high-density lipoprotein particle|very-low-density lipoprotein particle	eukaryotic cell surface binding|glycoprotein binding|heparin binding|lipoprotein lipase activator activity|phospholipid binding				0			BRCA - Breast invasive adenocarcinoma(6;9.74e-08)			ATCTATACACTGAGCATCCTC	0.398													54	24	---	---	---	---	PASS
COLEC12	81035	broad.mit.edu	37	18	335123	335123	+	Missense_Mutation	SNP	C	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:335123C>T	uc002kkm.2	-	6	1650	c.1435G>A	c.(1435-1437)GGC>AGC	p.G479S		NM_130386	NP_569057	Q5KU26	COL12_HUMAN	collectin sub-family member 12	479	Collagen-like 2.|Extracellular (Potential).				carbohydrate mediated signaling|innate immune response|phagocytosis, recognition|protein homooligomerization	collagen|integral to membrane	galactose binding|low-density lipoprotein particle binding|metal ion binding|pattern recognition receptor activity|scavenger receptor activity			ovary(1)|pancreas(1)	2		all_cancers(4;0.0442)|Myeloproliferative disorder(11;0.0426)				CCCGCAGGGCCAGGTGGTCCA	0.667													33	45	---	---	---	---	PASS
LAMA1	284217	broad.mit.edu	37	18	7049209	7049209	+	Silent	SNP	T	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:7049209T>A	uc002knm.2	-	5	730	c.636A>T	c.(634-636)TCA>TCT	p.S212S	LAMA1_uc010wzj.1_5'UTR	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	212	Laminin N-terminal.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	ACAACTTGGGTGAAAGATCGT	0.413													23	45	---	---	---	---	PASS
PPP4R1	9989	broad.mit.edu	37	18	9570624	9570624	+	Silent	SNP	T	C	C			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:9570624T>C	uc002koe.1	-	11	1222	c.1104A>G	c.(1102-1104)TCA>TCG	p.S368S	PPP4R1_uc002kof.2_5'UTR|PPP4R1_uc010wzo.1_Silent_p.S214S|PPP4R1_uc002kod.1_Silent_p.S351S|PPP4R1_uc010wzp.1_RNA	NM_001042388	NP_001035847	Q8TF05	PP4R1_HUMAN	protein phosphatase 4, regulatory subunit 1	368					protein phosphorylation|signal transduction	protein phosphatase 4 complex	protein binding|protein phosphatase type 4 regulator activity			skin(1)	1						CACTGAGATCTGAAGGAGTAT	0.438													36	45	---	---	---	---	PASS
CABYR	26256	broad.mit.edu	37	18	21736470	21736470	+	Missense_Mutation	SNP	A	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:21736470A>T	uc002kux.2	+	4	1157	c.1005A>T	c.(1003-1005)GAA>GAT	p.E335D	CABYR_uc010xbb.1_Missense_Mutation_p.E237D|CABYR_uc002kuy.2_Intron|CABYR_uc002kuz.2_Intron|CABYR_uc002kva.2_Missense_Mutation_p.E317D|CABYR_uc002kvb.2_Intron|CABYR_uc002kvc.2_Intron|CABYR_uc010dlw.2_RNA	NM_012189	NP_036321	O75952	CABYR_HUMAN	calcium-binding tyrosine	335					ciliary or flagellar motility|signal transduction|sperm capacitation	cytoplasm|cytoskeleton|flagellum|motile cilium|nucleus	calcium ion binding|cAMP-dependent protein kinase regulator activity|enzyme binding|protein heterodimerization activity|SH3 domain binding				0	all_cancers(21;9.13e-05)|all_epithelial(16;5.49e-07)|Lung NSC(20;0.00171)|all_lung(20;0.0055)|Colorectal(14;0.0305)|Ovarian(20;0.17)					AGTCAAAAGAAAATGAGCAGT	0.388													21	42	---	---	---	---	PASS
SHC2	25759	broad.mit.edu	37	19	440857	440857	+	Intron	SNP	C	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:440857C>A	uc002loq.3	-						SHC2_uc002lop.3_5'Flank	NM_012435	NP_036567	P98077	SHC2_HUMAN	SHC (Src homology 2 domain containing)						insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol					0		all_cancers(10;1.13e-36)|all_epithelial(18;1.46e-23)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.1e-06)|all_lung(49;1.55e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GGGTTGGAGGCTCACCTGGTC	0.657													6	52	---	---	---	---	PASS
ATP8B3	148229	broad.mit.edu	37	19	1800301	1800301	+	Missense_Mutation	SNP	G	C	C			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:1800301G>C	uc002ltw.2	-	13	1534	c.1300C>G	c.(1300-1302)CTC>GTC	p.L434V	ATP8B3_uc002ltv.2_Missense_Mutation_p.L387V|ATP8B3_uc002ltx.2_RNA|ATP8B3_uc002lty.1_Missense_Mutation_p.L182V|ATP8B3_uc002ltz.1_Missense_Mutation_p.L381V	NM_138813	NP_620168	O60423	AT8B3_HUMAN	ATPase, class I, type 8B, member 3	434	Helical; (Potential).				ATP biosynthetic process		ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AGCAGGATGAGGAAGCTCCAG	0.592													9	32	---	---	---	---	PASS
CD209	30835	broad.mit.edu	37	19	7810680	7810680	+	Missense_Mutation	SNP	C	G	G			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:7810680C>G	uc002mht.2	-	4	539	c.472G>C	c.(472-474)GGT>CGT	p.G158R	CD209_uc010xju.1_Intron|CD209_uc010dvp.2_Missense_Mutation_p.G134R|CD209_uc002mhr.2_Missense_Mutation_p.G134R|CD209_uc002mhs.2_Missense_Mutation_p.G134R|CD209_uc002mhu.2_Missense_Mutation_p.E158Q|CD209_uc010dvq.2_Missense_Mutation_p.G158R|CD209_uc002mhq.2_Missense_Mutation_p.G158R|CD209_uc002mhv.2_Missense_Mutation_p.G134R|CD209_uc002mhx.2_Missense_Mutation_p.G114R|CD209_uc002mhw.2_Missense_Mutation_p.E114Q|CD209_uc010dvr.2_Intron	NM_021155	NP_066978	Q9NNX6	CD209_HUMAN	CD209 molecule isoform 1	158	Extracellular (Probable).|7 X approximate tandem repeats.|3.				cell-cell recognition|endocytosis|heterophilic cell-cell adhesion|innate immune response|intracellular signal transduction|intracellular virion transport|leukocyte cell-cell adhesion|peptide antigen transport|viral genome replication|virion attachment to host cell surface receptor	cytoplasm|extracellular region|integral to membrane|plasma membrane	mannose binding|metal ion binding|peptide antigen binding|receptor activity|virion binding			skin(1)	1						GGAAGCTCACCCACTGCAGCC	0.557													101	116	---	---	---	---	PASS
LASS4	79603	broad.mit.edu	37	19	8319436	8319436	+	Missense_Mutation	SNP	G	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:8319436G>T	uc002mjg.2	+	4	547	c.227G>T	c.(226-228)AGG>ATG	p.R76M	LASS4_uc002mjh.2_Missense_Mutation_p.R25M|LASS4_uc002mji.2_Translation_Start_Site|LASS4_uc010dvz.2_Missense_Mutation_p.R76M	NM_024552	NP_078828	Q9HA82	CERS4_HUMAN	LAG1 homolog, ceramide synthase 4	76	Homeobox.					endoplasmic reticulum membrane|integral to membrane|nuclear membrane	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sphingosine N-acyltransferase activity			ovary(1)	1						CAGACCAGGAGGCAAGTGAAG	0.622													9	20	---	---	---	---	PASS
ZNF560	147741	broad.mit.edu	37	19	9578620	9578620	+	Missense_Mutation	SNP	G	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:9578620G>A	uc002mlp.1	-	10	1213	c.1003C>T	c.(1003-1005)CAT>TAT	p.H335Y	ZNF560_uc010dwr.1_Missense_Mutation_p.H229Y	NM_152476	NP_689689	Q96MR9	ZN560_HUMAN	zinc finger protein 560	335					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)|large_intestine(1)|pancreas(1)|liver(1)	6						TTTACAGCATGGCTTGTGGAG	0.378													66	23	---	---	---	---	PASS
MED26	9441	broad.mit.edu	37	19	16687644	16687644	+	Missense_Mutation	SNP	G	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:16687644G>A	uc002nen.1	-	3	1258	c.997C>T	c.(997-999)CCC>TCC	p.P333S	MED26_uc002nee.2_RNA	NM_004831	NP_004822	O95402	MED26_HUMAN	mediator complex subunit 26	333					regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	DNA binding|RNA polymerase II transcription cofactor activity|transcription coactivator activity			ovary(2)	2						TCCGCACTGGGCAGCAGCTCG	0.721													15	1	---	---	---	---	PASS
ZNF676	163223	broad.mit.edu	37	19	22363549	22363549	+	Missense_Mutation	SNP	G	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:22363549G>A	uc002nqs.1	-	3	1288	c.970C>T	c.(970-972)CTT>TTT	p.L324F		NM_001001411	NP_001001411	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	324	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)				TGTTCAGTAAGGCTTGAGGAC	0.418													11	75	---	---	---	---	PASS
ZNF91	7644	broad.mit.edu	37	19	23542727	23542727	+	Silent	SNP	T	C	C			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:23542727T>C	uc002nre.2	-	4	3167	c.3054A>G	c.(3052-3054)GGA>GGG	p.G1018G	ZNF91_uc002nrd.2_5'Flank|ZNF91_uc010xrj.1_Silent_p.G986G	NM_003430	NP_003421	Q05481	ZNF91_HUMAN	zinc finger protein 91	1018						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_lung(12;0.0349)|Lung NSC(12;0.0538)|all_epithelial(12;0.0611)				ATGGTTTCTCTCCAGTGTGCA	0.383													29	21	---	---	---	---	PASS
LSM14A	26065	broad.mit.edu	37	19	34699941	34699941	+	Missense_Mutation	SNP	A	G	G			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:34699941A>G	uc002nvb.3	+	4	719	c.523A>G	c.(523-525)ACA>GCA	p.T175A	LSM14A_uc002nva.3_Missense_Mutation_p.T175A|LSM14A_uc010xru.1_Intron|LSM14A_uc002nvc.3_5'UTR	NM_001114093	NP_001107565	Q8ND56	LS14A_HUMAN	LSM14 homolog A isoform a	175					cytoplasmic mRNA processing body assembly|multicellular organismal development|regulation of translation	cytoplasmic mRNA processing body|intracellular membrane-bounded organelle|stress granule				skin(1)	1	Esophageal squamous(110;0.162)					ATCTCTAAAAACACAGTTATC	0.373													18	68	---	---	---	---	PASS
C19orf55	148137	broad.mit.edu	37	19	36259086	36259086	+	Missense_Mutation	SNP	C	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:36259086C>T	uc002obq.1	+	10	1323	c.1250C>T	c.(1249-1251)TCC>TTC	p.S417F		NM_001039887	NP_001034976	Q2NL68	CS055_HUMAN	hypothetical protein LOC148137	Error:Variant_position_missing_in_Q2NL68_after_alignment										ovary(1)	1	all_lung(56;2.87e-07)|Lung NSC(56;4.32e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CCAGGACGATCCCGTGCTGCA	0.632													4	23	---	---	---	---	PASS
ZNF382	84911	broad.mit.edu	37	19	37117851	37117851	+	Missense_Mutation	SNP	C	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:37117851C>A	uc002oek.2	+	5	1165	c.1052C>A	c.(1051-1053)CCC>CAC	p.P351H	ZNF382_uc010efa.2_Missense_Mutation_p.P302H|ZNF382_uc010efb.2_Missense_Mutation_p.P350H|ZNF382_uc002oel.2_Missense_Mutation_p.P350H	NM_032825	NP_116214	Q96SR6	ZN382_HUMAN	zinc finger protein 382	351	Required for transcriptional repression activity; probably mediates sequence- specific DNA-binding (By similarity).				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.198)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			GAGGGGAAACCCTTTATTTGT	0.468													19	97	---	---	---	---	PASS
RYR1	6261	broad.mit.edu	37	19	38959614	38959614	+	Silent	SNP	C	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:38959614C>A	uc002oit.2	+	26	3520	c.3390C>A	c.(3388-3390)CGC>CGA	p.R1130R	RYR1_uc002oiu.2_Silent_p.R1130R	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	1130	6 X approximate repeats.|Cytoplasmic.|B30.2/SPRY 2.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	AGGGCCAGCGCTGGCACTTGG	0.552													37	23	---	---	---	---	PASS
ACTN4	81	broad.mit.edu	37	19	39207810	39207810	+	Nonsense_Mutation	SNP	G	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:39207810G>T	uc002oja.1	+	10	1056	c.997G>T	c.(997-999)GAG>TAG	p.E333*	ACTN4_uc010egc.1_Nonsense_Mutation_p.E333*	NM_004924	NP_004915	O43707	ACTN4_HUMAN	actinin, alpha 4	333	Spectrin 1.				platelet activation|platelet degranulation|positive regulation of cellular component movement|positive regulation of sodium:hydrogen antiporter activity|protein transport|regulation of apoptosis	extracellular region|nucleolus|perinuclear region of cytoplasm|platelet alpha granule lumen|protein complex|pseudopodium|ribonucleoprotein complex	actin filament binding|calcium ion binding|integrin binding|nucleoside binding|protein homodimerization activity				0	all_cancers(60;1.57e-05)|Ovarian(47;0.103)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			GCAGAAGCTGGAGGACTTCCG	0.617													11	15	---	---	---	---	PASS
ARHGEF1	9138	broad.mit.edu	37	19	42399546	42399546	+	Silent	SNP	A	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:42399546A>T	uc002orx.2	+	12	1111	c.1002A>T	c.(1000-1002)CCA>CCT	p.P334P	ARHGEF1_uc002orw.1_Silent_p.P334P|ARHGEF1_uc002ory.2_Silent_p.P301P|ARHGEF1_uc002orz.2_Silent_p.P172P|ARHGEF1_uc002osa.2_Silent_p.P349P|ARHGEF1_uc002osb.2_Silent_p.P316P|ARHGEF1_uc002osc.2_Silent_p.P28P|ARHGEF1_uc002osd.2_5'Flank	NM_004706	NP_004697	Q92888	ARHG1_HUMAN	Rho guanine nucleotide exchange factor 1 isoform	334					cell proliferation|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway|positive regulation of axonogenesis|regulation of Rho protein signal transduction|Rho protein signal transduction	cytosol|plasma membrane	GTPase activator activity|protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(3)|large_intestine(1)	4		Renal(1328;0.000518)|Hepatocellular(1079;0.0046)|Medulloblastoma(540;0.0425)		Epithelial(262;5.89e-46)|GBM - Glioblastoma multiforme(1328;2.49e-12)|STAD - Stomach adenocarcinoma(1328;0.00644)		TGGACAGCCCAGACCGGGAAC	0.677													18	81	---	---	---	---	PASS
BCAM	4059	broad.mit.edu	37	19	45322052	45322052	+	Missense_Mutation	SNP	G	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:45322052G>T	uc002ozu.2	+	10	1293	c.1249G>T	c.(1249-1251)GAT>TAT	p.D417Y	BCAM_uc002ozt.1_Missense_Mutation_p.D417Y	NM_005581	NP_005572	P50895	BCAM_HUMAN	basal cell adhesion molecule isoform 1	417	Extracellular (Potential).|Ig-like C2-type 2.				cell-matrix adhesion	integral to plasma membrane	laminin binding|laminin receptor activity			skin(1)	1	Lung NSC(12;0.000789)|all_lung(12;0.00218)	Ovarian(192;0.0728)|all_neural(266;0.112)				TATCACCTTCGATTCCAATGG	0.632													10	123	---	---	---	---	PASS
HIF3A	64344	broad.mit.edu	37	19	46838156	46838156	+	Intron	SNP	C	G	G			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:46838156C>G	uc002peh.2	+						HIF3A_uc002pej.1_Intron|HIF3A_uc002pek.2_Intron|HIF3A_uc010xxy.1_Intron|HIF3A_uc002pel.2_Intron|HIF3A_uc010xxz.1_Intron	NM_152795	NP_690008	Q9Y2N7	HIF3A_HUMAN	hypoxia inducible factor 3, alpha subunit						regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3		Ovarian(192;0.00965)|all_neural(266;0.0887)		OV - Ovarian serous cystadenocarcinoma(262;0.00204)|all cancers(93;0.0107)|GBM - Glioblastoma multiforme(486;0.0489)|Epithelial(262;0.136)		TGTCTCTCTCCCACAGAGTTT	0.423													51	25	---	---	---	---	PASS
GPR77	27202	broad.mit.edu	37	19	47844851	47844851	+	Silent	SNP	C	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:47844851C>A	uc010ela.1	+	2	1013	c.795C>A	c.(793-795)CTC>CTA	p.L265L	GPR77_uc002pgk.1_Silent_p.L265L	NM_018485	NP_060955	Q9P296	C5ARL_HUMAN	G protein-coupled receptor 77	265	Extracellular (Potential).				chemotaxis	integral to membrane|plasma membrane	C5a anaphylatoxin receptor activity			ovary(1)	1		all_cancers(25;1.72e-06)|all_lung(116;2.15e-05)|all_epithelial(76;3.44e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.0652)|Ovarian(192;0.086)		all cancers(93;0.000129)|OV - Ovarian serous cystadenocarcinoma(262;0.000415)|Epithelial(262;0.0109)|GBM - Glioblastoma multiforme(486;0.0138)		ACTCCGCACTCCTGGCCAGGG	0.647													23	108	---	---	---	---	PASS
CD37	951	broad.mit.edu	37	19	49840422	49840422	+	Missense_Mutation	SNP	C	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:49840422C>T	uc002pnd.2	+	4	407	c.286C>T	c.(286-288)CTC>TTC	p.L96F	uc002pnb.1_Intron|CD37_uc002pnc.2_RNA|CD37_uc010yam.1_Missense_Mutation_p.L96F|CD37_uc010yan.1_Missense_Mutation_p.L28F|CD37_uc002pnf.3_Missense_Mutation_p.L68F|CD37_uc002pne.2_Missense_Mutation_p.L28F	NM_001774	NP_001765	P11049	CD37_HUMAN	CD37 antigen isoform A	96	Helical; (Potential).					integral to membrane					0		all_lung(116;2.81e-06)|Lung NSC(112;5.89e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		OV - Ovarian serous cystadenocarcinoma(262;0.00088)|GBM - Glioblastoma multiforme(486;0.0443)		GATGCTGCTGCTCCTGTTTGC	0.612													60	42	---	---	---	---	PASS
ZNF610	162963	broad.mit.edu	37	19	52857617	52857617	+	Missense_Mutation	SNP	A	G	G			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:52857617A>G	uc002pyx.3	+	5	710	c.304A>G	c.(304-306)AGA>GGA	p.R102G	ZNF610_uc002pyy.3_Missense_Mutation_p.R102G|ZNF610_uc002pyz.3_Intron|ZNF610_uc002pza.2_Missense_Mutation_p.R102G	NM_001161426	NP_001154898	Q8N9Z0	ZN610_HUMAN	zinc finger protein 610 isoform a	102					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)	3				OV - Ovarian serous cystadenocarcinoma(262;0.00396)|GBM - Glioblastoma multiforme(134;0.00434)		GGAATGTGTCAGAAGCGTGAA	0.313													20	57	---	---	---	---	PASS
NLRP5	126206	broad.mit.edu	37	19	56538872	56538872	+	Missense_Mutation	SNP	C	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:56538872C>A	uc002qmj.2	+	7	1273	c.1273C>A	c.(1273-1275)CGT>AGT	p.R425S	NLRP5_uc002qmi.2_Missense_Mutation_p.R406S	NM_153447	NP_703148	P59047	NALP5_HUMAN	NACHT, LRR and PYD containing protein 5	425	NACHT.					mitochondrion|nucleolus	ATP binding			ovary(3)|skin(2)|kidney(1)|central_nervous_system(1)	7		Colorectal(82;3.46e-05)|Ovarian(87;0.0481)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0326)		CGTGTCTCCCCGTTACCTGTT	0.552													7	29	---	---	---	---	PASS
C20orf141	128653	broad.mit.edu	37	20	2796209	2796209	+	Missense_Mutation	SNP	C	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:2796209C>A	uc010gat.2	+	3	369	c.286C>A	c.(286-288)CGC>AGC	p.R96S	C20orf141_uc002wgv.1_Intron|C20orf141_uc002wgw.2_Missense_Mutation_p.R96S|uc002wgx.1_5'Flank|uc002wgy.1_5'Flank	NM_080739	NP_542777	Q9NUB4	CT141_HUMAN	hypothetical protein LOC128653	96	Leu-rich.					integral to membrane					0						TCTGCCACAGCGCAAACTTCT	0.617													16	35	---	---	---	---	PASS
FAM113A	64773	broad.mit.edu	37	20	2819336	2819336	+	Missense_Mutation	SNP	C	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:2819336C>T	uc002wgz.1	-	5	997	c.500G>A	c.(499-501)CGC>CAC	p.R167H	FAM113A_uc002whb.1_Missense_Mutation_p.A19T|FAM113A_uc002wha.1_Missense_Mutation_p.A19T|FAM113A_uc010zqa.1_Missense_Mutation_p.R14H|FAM113A_uc002whc.1_Missense_Mutation_p.R116H|VPS16_uc002whe.2_5'Flank|VPS16_uc002whf.2_5'Flank|VPS16_uc002whd.2_5'Flank	NM_022760	NP_073597	Q9H1Q7	F113A_HUMAN	hypothetical protein LOC64773	167							hydrolase activity|protein binding			ovary(2)	2						TTGGTCCATGCGCACAAACAC	0.577													4	156	---	---	---	---	PASS
BFSP1	631	broad.mit.edu	37	20	17489538	17489538	+	Missense_Mutation	SNP	G	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:17489538G>T	uc002wpo.2	-	5	770	c.731C>A	c.(730-732)GCA>GAA	p.A244E	BFSP1_uc002wpp.2_Missense_Mutation_p.A119E|BFSP1_uc010zrn.1_Missense_Mutation_p.A105E|BFSP1_uc010zro.1_Missense_Mutation_p.A105E	NM_001195	NP_001186	Q12934	BFSP1_HUMAN	filensin isoform 1	244	Rod.|Coil 2.					cytoplasm|intermediate filament|membrane	structural constituent of cytoskeleton|structural constituent of eye lens			central_nervous_system(1)	1						GCGTACCTGTGCCTGCAGCTC	0.652													3	4	---	---	---	---	PASS
ZMYND8	23613	broad.mit.edu	37	20	45865220	45865220	+	Silent	SNP	G	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:45865220G>T	uc002xta.1	-	16	2900	c.2646C>A	c.(2644-2646)TCC>TCA	p.S882S	ZMYND8_uc010ghq.1_Silent_p.S513S|ZMYND8_uc010ghr.1_Silent_p.S811S|ZMYND8_uc002xst.1_Silent_p.S764S|ZMYND8_uc002xsu.1_Silent_p.S755S|ZMYND8_uc002xsv.1_Silent_p.S810S|ZMYND8_uc002xsw.1_Silent_p.S588S|ZMYND8_uc002xsx.1_Silent_p.S588S|ZMYND8_uc002xsy.1_Silent_p.S811S|ZMYND8_uc002xsz.1_Silent_p.S773S|ZMYND8_uc010zxy.1_Silent_p.S909S|ZMYND8_uc002xtb.1_Silent_p.S856S|ZMYND8_uc002xss.2_Silent_p.S882S|ZMYND8_uc010zxz.1_Silent_p.S750S|ZMYND8_uc002xtc.1_Silent_p.S856S|ZMYND8_uc002xtd.1_Silent_p.S831S|ZMYND8_uc002xte.1_Silent_p.S836S|ZMYND8_uc010zya.1_Silent_p.S882S|ZMYND8_uc002xtf.1_Silent_p.S902S|ZMYND8_uc002xsr.1_5'UTR	NM_012408	NP_036540	Q9ULU4	PKCB1_HUMAN	zinc finger, MYND-type containing 8 isoform b	882							protein binding|zinc ion binding			central_nervous_system(2)|urinary_tract(1)|ovary(1)|skin(1)	5			Epithelial(1;0.0289)|all cancers(1;0.0962)|OV - Ovarian serous cystadenocarcinoma(1;0.154)			GGGTGATGGTGGACGTGGATG	0.592													20	43	---	---	---	---	PASS
ZMYND8	23613	broad.mit.edu	37	20	45905064	45905064	+	Missense_Mutation	SNP	T	C	C			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:45905064T>C	uc002xta.1	-	11	1668	c.1414A>G	c.(1414-1416)AGC>GGC	p.S472G	ZMYND8_uc010ghq.1_Missense_Mutation_p.S149G|ZMYND8_uc010ghr.1_Missense_Mutation_p.S447G|ZMYND8_uc002xst.1_Missense_Mutation_p.S447G|ZMYND8_uc002xsu.1_Missense_Mutation_p.S472G|ZMYND8_uc002xsv.1_Missense_Mutation_p.S447G|ZMYND8_uc002xsw.1_Missense_Mutation_p.S224G|ZMYND8_uc002xsx.1_Missense_Mutation_p.S224G|ZMYND8_uc002xsy.1_Missense_Mutation_p.S447G|ZMYND8_uc002xsz.1_Missense_Mutation_p.S409G|ZMYND8_uc010zxy.1_Missense_Mutation_p.S499G|ZMYND8_uc002xtb.1_Missense_Mutation_p.S492G|ZMYND8_uc002xss.2_Missense_Mutation_p.S472G|ZMYND8_uc010zxz.1_Missense_Mutation_p.S467G|ZMYND8_uc002xtc.1_Missense_Mutation_p.S492G|ZMYND8_uc002xtd.1_Missense_Mutation_p.S467G|ZMYND8_uc002xte.1_Missense_Mutation_p.S472G|ZMYND8_uc010zya.1_Missense_Mutation_p.S472G|ZMYND8_uc002xtf.1_Missense_Mutation_p.S492G|ZMYND8_uc002xtg.2_Missense_Mutation_p.S466G|ZMYND8_uc010ghs.1_Missense_Mutation_p.S466G	NM_012408	NP_036540	Q9ULU4	PKCB1_HUMAN	zinc finger, MYND-type containing 8 isoform b	472							protein binding|zinc ion binding			central_nervous_system(2)|urinary_tract(1)|ovary(1)|skin(1)	5			Epithelial(1;0.0289)|all cancers(1;0.0962)|OV - Ovarian serous cystadenocarcinoma(1;0.154)			TGACCTGTGCTCTTATCCAGG	0.627													18	12	---	---	---	---	PASS
NFATC2	4773	broad.mit.edu	37	20	50049292	50049292	+	Silent	SNP	G	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:50049292G>A	uc002xwd.2	-	9	2254	c.2034C>T	c.(2032-2034)GTC>GTT	p.V678V	NFATC2_uc002xwc.2_Silent_p.V678V|NFATC2_uc010zyv.1_Silent_p.V459V|NFATC2_uc010zyw.1_Silent_p.V459V|NFATC2_uc010zyx.1_Silent_p.V658V|NFATC2_uc010zyy.1_Silent_p.V459V|NFATC2_uc010zyz.1_Silent_p.V459V|NFATC2_uc002xwe.2_Silent_p.V658V	NM_173091	NP_775114	Q13469	NFAC2_HUMAN	nuclear factor of activated T-cells,	678					B cell receptor signaling pathway|positive regulation of B cell proliferation|response to DNA damage stimulus|response to drug	actin cytoskeleton|nucleus|plasma membrane	protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2	Hepatocellular(150;0.248)					TGATGGCTGGGACTGGGAGGA	0.607													8	41	---	---	---	---	PASS
SLCO4A1	28231	broad.mit.edu	37	20	61288044	61288044	+	Missense_Mutation	SNP	G	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:61288044G>A	uc002ydb.1	+	2	443	c.238G>A	c.(238-240)GCC>ACC	p.A80T	SLCO4A1_uc002ydc.1_RNA	NM_016354	NP_057438	Q96BD0	SO4A1_HUMAN	solute carrier organic anion transporter family	80	Cytoplasmic (Potential).				sodium-independent organic anion transport	integral to membrane|plasma membrane	thyroid hormone transmembrane transporter activity			ovary(1)	1	Breast(26;3.65e-08)		BRCA - Breast invasive adenocarcinoma(19;2.33e-06)			GTACGTCTCGGCCGGGCAGAG	0.706													5	7	---	---	---	---	PASS
EEF1A2	1917	broad.mit.edu	37	20	62120282	62120282	+	Missense_Mutation	SNP	T	G	G			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:62120282T>G	uc002yfd.1	-	6	1354	c.1253A>C	c.(1252-1254)TAC>TCC	p.Y418S	EEF1A2_uc002yfe.1_Missense_Mutation_p.Y418S|EEF1A2_uc010gkg.1_Intron	NM_001958	NP_001949	Q05639	EF1A2_HUMAN	eukaryotic translation elongation factor 1 alpha	418						nucleus	GTP binding|GTPase activity|protein binding|translation elongation factor activity				0	all_cancers(38;9.45e-12)		BRCA - Breast invasive adenocarcinoma(10;1.22e-05)			GAGAGGCGGGTACTGGGAGAA	0.667													5	18	---	---	---	---	PASS
PRIC285	85441	broad.mit.edu	37	20	62200693	62200693	+	Missense_Mutation	SNP	C	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:62200693C>A	uc002yfm.2	-	5	1788	c.896G>T	c.(895-897)CGC>CTC	p.R299L	PRIC285_uc002yfl.1_5'Flank	NM_001037335	NP_001032412	Q9BYK8	PR285_HUMAN	PPAR-alpha interacting complex protein 285	299					cellular lipid metabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|helicase activity|ribonuclease activity|RNA binding|transcription coactivator activity|zinc ion binding			central_nervous_system(2)	2	all_cancers(38;2.51e-11)|all_epithelial(29;8.27e-13)		Epithelial(9;1.27e-08)|all cancers(9;7.32e-08)|BRCA - Breast invasive adenocarcinoma(10;5.15e-06)			CACCACGTGGCGGTTGCCAGT	0.701													7	12	---	---	---	---	PASS
TIAM1	7074	broad.mit.edu	37	21	32496948	32496948	+	Missense_Mutation	SNP	T	C	C			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:32496948T>C	uc002yow.1	-	28	4670	c.4198A>G	c.(4198-4200)AGA>GGA	p.R1400G	TIAM1_uc011adk.1_Missense_Mutation_p.R1400G|TIAM1_uc011adl.1_Missense_Mutation_p.R1340G	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	1400					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						AGGAGCTGTCTTCTGTGCTTA	0.498													10	32	---	---	---	---	PASS
NDUFV3	4731	broad.mit.edu	37	21	44323435	44323435	+	Intron	SNP	G	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:44323435G>A	uc002zcn.2	+						NDUFV3_uc002zcm.2_Missense_Mutation_p.V105M	NM_001001503	NP_001001503	P56181	NDUV3_HUMAN	NADH-ubiquinone oxidoreductase flavoprotein 3						mitochondrial electron transport, NADH to ubiquinone|transport	mitochondrial respiratory chain complex I|nucleus	NADH dehydrogenase (ubiquinone) activity			ovary(2)	2				STAD - Stomach adenocarcinoma(101;0.0606)	NADH(DB00157)	CAGTGGCAGCGTGCTATTCAC	0.463													40	79	---	---	---	---	PASS
PI4KA	5297	broad.mit.edu	37	22	21119100	21119100	+	Intron	SNP	T	G	G			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:21119100T>G	uc002zsz.3	-							NM_058004	NP_477352	P42356	PI4KA_HUMAN	phosphatidylinositol 4-kinase type 3 alpha						phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling|synaptic transmission	Golgi-associated vesicle	1-phosphatidylinositol 4-kinase activity|ATP binding|protein binding			lung(2)|upper_aerodigestive_tract(1)|salivary_gland(1)	4	all_cancers(11;7.59e-25)|all_epithelial(7;1.34e-22)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000536)|Lung(15;0.0108)|Epithelial(17;0.196)			TGAAGGCACGTGTACCTCATG	0.527													17	24	---	---	---	---	PASS
ADORA2A	135	broad.mit.edu	37	22	24837043	24837043	+	Silent	SNP	C	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:24837043C>A	uc002zzx.2	+	5	1588	c.825C>A	c.(823-825)GTC>GTA	p.V275V	ADORA2A_uc002zzy.3_Silent_p.V275V|ADORA2A_uc011ajs.1_Silent_p.V136V|ADORA2A_uc010gup.2_Silent_p.V275V|ADORA2A_uc010guq.2_Silent_p.V275V|ADORA2A_uc003aab.2_Silent_p.V275V|ADORA2A_uc003aac.2_Silent_p.V136V|C22orf45_uc003aad.1_Intron	NM_000675	NP_000666	P29274	AA2AR_HUMAN	adenosine A2a receptor	275	Helical; Name=7.				apoptosis|blood coagulation|cAMP biosynthetic process|cellular defense response|inflammatory response|nerve growth factor receptor signaling pathway|phagocytosis|sensory perception	integral to plasma membrane|membrane fraction	enzyme binding				0	Colorectal(2;0.196)				Caffeine(DB00201)|Defibrotide(DB04932)|Pegademase bovine(DB00061)|Theophylline(DB00277)	TGGCCATCGTCCTCTCCCACA	0.577													18	39	---	---	---	---	PASS
EFCAB6	64800	broad.mit.edu	37	22	43926757	43926757	+	Missense_Mutation	SNP	G	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:43926757G>T	uc003bdy.1	-	31	4536	c.4321C>A	c.(4321-4323)CGC>AGC	p.R1441S	EFCAB6_uc003bdz.1_Missense_Mutation_p.R1289S|EFCAB6_uc010gzi.1_Missense_Mutation_p.R1289S	NM_022785	NP_073622	Q5THR3	EFCB6_HUMAN	CAP-binding protein complex interacting protein	1441	Interaction with AR.|EF-hand 16.|Interaction with PARK7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	calcium ion binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	7		Ovarian(80;0.0247)|all_neural(38;0.025)				TTGAACGTGCGCCGCATTGGC	0.567													20	31	---	---	---	---	PASS
CELSR1	9620	broad.mit.edu	37	22	46932037	46932037	+	Missense_Mutation	SNP	T	G	G			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:46932037T>G	uc003bhw.1	-	1	1031	c.1031A>C	c.(1030-1032)AAA>ACA	p.K344T		NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	344	Extracellular (Potential).|Cadherin 1.				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		GTTGGTGTCTTTGACCAAGAC	0.647													11	37	---	---	---	---	PASS
NLGN4X	57502	broad.mit.edu	37	X	5811526	5811526	+	Missense_Mutation	SNP	G	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:5811526G>A	uc010ndh.2	-	6	2284	c.1783C>T	c.(1783-1785)CCT>TCT	p.P595S	NLGN4X_uc004crp.2_Missense_Mutation_p.P615S|NLGN4X_uc004crq.2_Missense_Mutation_p.P595S|NLGN4X_uc010ndi.2_Missense_Mutation_p.P632S|NLGN4X_uc004crr.2_Missense_Mutation_p.P595S|NLGN4X_uc010ndj.2_Missense_Mutation_p.P595S	NM_181332	NP_851849	Q8N0W4	NLGNX_HUMAN	X-linked neuroligin 4 precursor	595	Extracellular (Potential).				brainstem development|cell adhesion|cell-cell junction organization|cerebellum development|male courtship behavior|positive regulation of organ growth|regulation of excitatory postsynaptic membrane potential|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|dendrite|integral to plasma membrane|synapse	chloride ion binding|neurexin binding|protein homodimerization activity|receptor activity			skin(2)|large_intestine(1)|ovary(1)	4						TGCAAATGAGGAACGAGTTCC	0.468													44	72	---	---	---	---	PASS
NHS	4810	broad.mit.edu	37	X	17750482	17750482	+	Silent	SNP	C	G	G			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:17750482C>G	uc004cxx.2	+	8	5129	c.4791C>G	c.(4789-4791)CGC>CGG	p.R1597R	NHS_uc011mix.1_Silent_p.R1618R|NHS_uc004cxy.2_Silent_p.R1441R|NHS_uc004cxz.2_Silent_p.R1420R|NHS_uc004cya.2_Silent_p.R1320R	NM_198270	NP_938011	Q6T4R5	NHS_HUMAN	Nance-Horan syndrome protein isoform 1	1597						nucleus				skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	Hepatocellular(33;0.183)					ACAGTGTCCGCTGCCGGCTGT	0.587													29	54	---	---	---	---	PASS
SYTL5	94122	broad.mit.edu	37	X	37961665	37961665	+	Missense_Mutation	SNP	G	A	A	rs148783666		TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:37961665G>A	uc004ddu.2	+	11	1667	c.1133G>A	c.(1132-1134)CGT>CAT	p.R378H	SYTL5_uc004ddv.2_Missense_Mutation_p.R378H|SYTL5_uc004ddx.2_Missense_Mutation_p.R378H	NM_001163335	NP_001156807	Q8TDW5	SYTL5_HUMAN	synaptotagmin-like 5 isoform 1	378					intracellular protein transport	membrane	metal ion binding|Rab GTPase binding			skin(1)	1						AACACTCACCGTCTGGCAAGT	0.413													24	47	---	---	---	---	PASS
OTC	5009	broad.mit.edu	37	X	38226644	38226644	+	Missense_Mutation	SNP	T	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:38226644T>A	uc004def.3	+	2	392	c.178T>A	c.(178-180)TCA>ACA	p.S60T		NM_000531	NP_000522	P00480	OTC_HUMAN	ornithine carbamoyltransferase precursor	60			S -> L (in OTCD).		arginine biosynthetic process|urea cycle	mitochondrial matrix|ornithine carbamoyltransferase complex	ornithine carbamoyltransferase activity			ovary(1)|breast(1)	2					L-Citrulline(DB00155)|L-Ornithine(DB00129)	GCTATGGCTATCAGCAGATCT	0.378													33	66	---	---	---	---	PASS
OTC	5009	broad.mit.edu	37	X	38268031	38268031	+	Missense_Mutation	SNP	G	A	A	rs72558430		TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:38268031G>A	uc004def.3	+	7	914	c.700G>A	c.(700-702)GAG>AAG	p.E234K		NM_000531	NP_000522	P00480	OTC_HUMAN	ornithine carbamoyltransferase precursor	234					arginine biosynthetic process|urea cycle	mitochondrial matrix|ornithine carbamoyltransferase complex	ornithine carbamoyltransferase activity			ovary(1)|breast(1)	2					L-Citrulline(DB00155)|L-Ornithine(DB00129)	CAAGTTGGCAGAGCAGTATGC	0.333													17	33	---	---	---	---	PASS
USP11	8237	broad.mit.edu	37	X	47104082	47104082	+	Silent	SNP	A	G	G			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:47104082A>G	uc004dhp.2	+	15	1974	c.1974A>G	c.(1972-1974)GAA>GAG	p.E658E	USP11_uc004dhq.2_Splice_Site_p.D385_splice	NM_004651	NP_004642	P51784	UBP11_HUMAN	ubiquitin specific peptidase 11	658					protein deubiquitination|ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(1)|lung(1)|central_nervous_system(1)	3						CTGTCCTAGAAGATGACGAGG	0.587													6	11	---	---	---	---	PASS
KDM5C	8242	broad.mit.edu	37	X	53228048	53228048	+	Missense_Mutation	SNP	G	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:53228048G>T	uc004drz.2	-	16	2799	c.2266C>A	c.(2266-2268)CTT>ATT	p.L756I	KDM5C_uc011moc.1_RNA|KDM5C_uc011mod.1_Missense_Mutation_p.L689I|KDM5C_uc004dsa.2_Missense_Mutation_p.L755I	NM_004187	NP_004178	P41229	KDM5C_HUMAN	jumonji, AT rich interactive domain 1C isoform	756					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			kidney(9)|ovary(5)|salivary_gland(1)|autonomic_ganglia(1)|haematopoietic_and_lymphoid_tissue(1)|oesophagus(1)	18						ATGGCAGGAAGCTCATCCAAG	0.587			N|F|S		clear cell renal carcinoma								6	52	---	---	---	---	PASS
TRO	7216	broad.mit.edu	37	X	54952922	54952922	+	Missense_Mutation	SNP	G	C	C			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:54952922G>C	uc004dtq.2	+	8	1764	c.1657G>C	c.(1657-1659)GCT>CCT	p.A553P	TRO_uc004dts.2_Missense_Mutation_p.A553P|TRO_uc004dtr.2_Missense_Mutation_p.A553P|TRO_uc004dtt.2_RNA|TRO_uc004dtu.2_RNA|TRO_uc004dtv.2_Missense_Mutation_p.A156P|TRO_uc011mok.1_Missense_Mutation_p.A84P|TRO_uc004dtw.2_Missense_Mutation_p.A156P|TRO_uc004dtx.2_5'UTR	NM_001039705	NP_001034794	Q12816	TROP_HUMAN	trophinin isoform 5	553	MAGE.				embryo implantation|homophilic cell adhesion	integral to plasma membrane				ovary(1)	1						GGCCAGTGAGGGTGAGTGGCT	0.522													20	38	---	---	---	---	PASS
LAS1L	81887	broad.mit.edu	37	X	64749617	64749617	+	Missense_Mutation	SNP	A	C	C			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:64749617A>C	uc004dwa.1	-	5	728	c.656T>G	c.(655-657)GTT>GGT	p.V219G	LAS1L_uc004dwc.1_Missense_Mutation_p.V219G|LAS1L_uc004dwd.1_Missense_Mutation_p.V177G	NM_031206	NP_112483	Q9Y4W2	LAS1L_HUMAN	LAS1-like	219						MLL1 complex|nucleolus	protein binding			ovary(3)|large_intestine(1)	4						GATGTCATCAACAACAATGTT	0.502													48	129	---	---	---	---	PASS
MED12	9968	broad.mit.edu	37	X	70347886	70347886	+	Missense_Mutation	SNP	G	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:70347886G>T	uc004dyy.2	+	22	3324	c.3125G>T	c.(3124-3126)AGT>ATT	p.S1042I	MED12_uc011mpq.1_Missense_Mutation_p.S1042I|MED12_uc004dyz.2_Missense_Mutation_p.S1042I|MED12_uc004dza.2_Missense_Mutation_p.S889I|MED12_uc010nla.2_5'Flank	NM_005120	NP_005111	Q93074	MED12_HUMAN	mediator complex subunit 12	1042					androgen receptor signaling pathway|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|protein C-terminus binding|protein domain specific binding|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4	Renal(35;0.156)					CTAGGCAAGAGTCTTAGTGAG	0.532													15	39	---	---	---	---	PASS
CYLC1	1538	broad.mit.edu	37	X	83128311	83128311	+	Missense_Mutation	SNP	G	C	C			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:83128311G>C	uc004eei.1	+	4	616	c.595G>C	c.(595-597)GAT>CAT	p.D199H	CYLC1_uc004eeh.1_Missense_Mutation_p.D198H	NM_021118	NP_066941	P35663	CYLC1_HUMAN	cylicin, basic protein of sperm head	199					cell differentiation|multicellular organismal development|spermatogenesis	acrosomal matrix|cytoskeletal calyx	structural molecule activity			ovary(4)|skin(1)	5						TTCACAAAAAGATAAGAAAGA	0.313													17	21	---	---	---	---	PASS
DIAPH2	1730	broad.mit.edu	37	X	96203955	96203955	+	Silent	SNP	C	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:96203955C>A	uc004efu.3	+	15	1927	c.1531C>A	c.(1531-1533)CGA>AGA	p.R511R	DIAPH2_uc004eft.3_Silent_p.R511R	NM_006729	NP_006720	O60879	DIAP2_HUMAN	diaphanous 2 isoform 156	511	Potential.				cell differentiation|cytokinesis|multicellular organismal development|oogenesis	cytosol|early endosome|Golgi apparatus|mitochondrion|nucleolus	receptor binding|Rho GTPase binding			ovary(3)|lung(1)	4						ATTCACAGCTCGACAGGAAGC	0.348													7	25	---	---	---	---	PASS
TNMD	64102	broad.mit.edu	37	X	99854654	99854654	+	Silent	SNP	C	G	G			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:99854654C>G	uc004efy.3	+	7	1120	c.894C>G	c.(892-894)GTC>GTG	p.V298V	TNMD_uc004efz.2_3'UTR	NM_022144	NP_071427	Q9H2S6	TNMD_HUMAN	tenomodulin	298	Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1						GAGGACGAGTCATCTGTCGTG	0.517													14	17	---	---	---	---	PASS
CXorf57	55086	broad.mit.edu	37	X	105865895	105865895	+	Missense_Mutation	SNP	T	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:105865895T>A	uc004emi.3	+	2	809	c.658T>A	c.(658-660)TCC>ACC	p.S220T	CXorf57_uc004emj.3_Missense_Mutation_p.S220T|CXorf57_uc004emh.2_Missense_Mutation_p.S220T	NM_018015	NP_060485	Q6NSI4	CX057_HUMAN	hypothetical protein LOC55086	220										ovary(1)|lung(1)|breast(1)	3						CAAAATAATTTCCCTTTCTCA	0.308													13	31	---	---	---	---	PASS
MORC4	79710	broad.mit.edu	37	X	106205335	106205335	+	Missense_Mutation	SNP	G	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:106205335G>T	uc004emu.3	-	10	1406	c.1163C>A	c.(1162-1164)ACA>AAA	p.T388K	MORC4_uc004emp.3_Intron|MORC4_uc004emv.3_Missense_Mutation_p.T388K|MORC4_uc004emw.3_Missense_Mutation_p.T136K	NM_024657	NP_078933	Q8TE76	MORC4_HUMAN	zinc finger, CW type with coiled-coil domain 2	388							ATP binding|zinc ion binding			ovary(1)	1						GGCATTTATTGTTAGCCTGAA	0.373													49	109	---	---	---	---	PASS
TMEM164	84187	broad.mit.edu	37	X	109414655	109414655	+	Nonsense_Mutation	SNP	C	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:109414655C>A	uc004eom.2	+	6	913	c.594C>A	c.(592-594)TAC>TAA	p.Y198*	TMEM164_uc004eol.2_Nonsense_Mutation_p.Y49*|TMEM164_uc010npq.2_Nonsense_Mutation_p.Y159*	NM_032227	NP_115603	Q5U3C3	TM164_HUMAN	transmembrane protein 164 isoform b	198						integral to membrane				large_intestine(1)|lung(1)|skin(1)	3						CAGGTGCTTACACTCCAGAGC	0.537													97	260	---	---	---	---	PASS
RGAG1	57529	broad.mit.edu	37	X	109696915	109696915	+	Missense_Mutation	SNP	T	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:109696915T>A	uc004eor.1	+	3	3316	c.3070T>A	c.(3070-3072)TCT>ACT	p.S1024T	RGAG1_uc011msr.1_Missense_Mutation_p.S1024T	NM_020769	NP_065820	Q8NET4	RGAG1_HUMAN	retrotransposon gag domain containing 1	1024										lung(2)|upper_aerodigestive_tract(1)|ovary(1)	4						AGCCTCTGCTTCTGGAGCAAG	0.498													68	131	---	---	---	---	PASS
THOC2	57187	broad.mit.edu	37	X	122759797	122759797	+	Missense_Mutation	SNP	G	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:122759797G>A	uc004etu.2	-	25	3055	c.3023C>T	c.(3022-3024)ACT>ATT	p.T1008I	THOC2_uc004etw.1_5'Flank	NM_001081550	NP_001075019	Q8NI27	THOC2_HUMAN	THO complex 2	1008					intronless viral mRNA export from host nucleus|mRNA processing|RNA splicing	THO complex part of transcription export complex	protein binding|RNA binding			ovary(3)	3						AAAATTTGGAGTTTTCTGTTG	0.313													27	39	---	---	---	---	PASS
ARHGAP36	158763	broad.mit.edu	37	X	130218915	130218915	+	Missense_Mutation	SNP	G	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:130218915G>T	uc004evz.2	+	7	1177	c.832G>T	c.(832-834)GAT>TAT	p.D278Y	ARHGAP36_uc004ewa.2_Missense_Mutation_p.D266Y|ARHGAP36_uc004ewb.2_Missense_Mutation_p.D247Y|ARHGAP36_uc004ewc.2_Missense_Mutation_p.D142Y	NM_144967	NP_659404	Q6ZRI8	RHG36_HUMAN	hypothetical protein LOC158763 precursor	278	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(3)	3						TCAAGGTCTGGATGTAGTGCT	0.488													37	76	---	---	---	---	PASS
MAP7D3	79649	broad.mit.edu	37	X	135309466	135309466	+	Nonsense_Mutation	SNP	C	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:135309466C>A	uc004ezt.2	-	12	2102	c.2011G>T	c.(2011-2013)GAA>TAA	p.E671*	MAP7D3_uc004ezs.2_Nonsense_Mutation_p.E635*|MAP7D3_uc011mwc.1_Nonsense_Mutation_p.E653*|MAP7D3_uc010nsa.1_Nonsense_Mutation_p.E629*	NM_024597	NP_078873	Q8IWC1	MA7D3_HUMAN	MAP7 domain containing 3	671						cytoplasm|spindle				ovary(2)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;0.000127)					TCCTGGTCTTCCTGATCCAGC	0.453													28	58	---	---	---	---	PASS
RBMX	27316	broad.mit.edu	37	X	135958790	135958790	+	Missense_Mutation	SNP	A	G	G			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:135958790A>G	uc004fae.1	-	5	623	c.413T>C	c.(412-414)TTT>TCT	p.F138S	RBMX_uc004fac.1_5'Flank|RBMX_uc011mwf.1_Intron|RBMX_uc004fad.1_Missense_Mutation_p.F138S|RBMX_uc011mwg.1_Missense_Mutation_p.F99S|RBMX_uc004faf.1_5'UTR|RBMX_uc010nsf.1_Missense_Mutation_p.F99S|RBMX_uc004fag.1_Missense_Mutation_p.F10S	NM_002139	NP_002130	P38159	HNRPG_HUMAN	RNA binding motif protein, X-linked isoform 1	138						catalytic step 2 spliceosome|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|RNA binding			ovary(1)	1	Acute lymphoblastic leukemia(192;0.000127)					ACTCATGTTAAAATTCATGGA	0.378													36	74	---	---	---	---	PASS
L1CAM	3897	broad.mit.edu	37	X	153137710	153137710	+	Silent	SNP	G	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:153137710G>T	uc004fjb.2	-	4	405	c.297C>A	c.(295-297)GGC>GGA	p.G99G	L1CAM_uc004fjc.2_Silent_p.G99G|L1CAM_uc010nuo.2_Silent_p.G94G|L1CAM_uc004fjd.1_5'Flank|L1CAM_uc004fje.1_Silent_p.G94G	NM_000425	NP_000416	P32004	L1CAM_HUMAN	L1 cell adhesion molecule isoform 1 precursor	99	Extracellular (Potential).|Ig-like C2-type 1.				axon guidance|blood coagulation|cell death|leukocyte migration	integral to membrane				ovary(8)|central_nervous_system(1)	9	all_cancers(53;6.72e-15)|all_epithelial(53;3.19e-09)|all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					TGCTGTTGTTGCCCGTGATGG	0.592													25	36	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	1	208870615	208870616	+	IGR	INS	-	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:208870615_208870616insT								PLXNA2 (452950 upstream) : LOC642587 (731552 downstream)																							tgaaccacctcttTTTTTTTTT	0.173													4	2	---	---	---	---	
RYR2	6262	broad.mit.edu	37	1	237955699	237955700	+	Intron	DEL	GT	-	-	rs112375793		TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:237955699_237955700delGT	uc001hyl.1	+						RYR2_uc010pyb.1_Intron	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor						cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			gtgtgtgtgcgtgtgtgtgtgt	0.104													5	5	---	---	---	---	
AHCTF1	25909	broad.mit.edu	37	1	247063196	247063197	+	Intron	DEL	AT	-	-	rs148637144		TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:247063196_247063197delAT	uc001ibu.1	-						AHCTF1_uc001ibv.1_Intron|AHCTF1_uc009xgs.1_5'Flank	NM_015446	NP_056261	Q8WYP5	ELYS_HUMAN	transcription factor ELYS						cytokinesis|mitotic prometaphase|mRNA transport|nuclear pore complex assembly|protein transport|transmembrane transport	condensed chromosome kinetochore|cytosol|nuclear matrix|nuclear membrane|nuclear pore|nucleoplasm	DNA binding			ovary(5)|skin(2)	7	all_cancers(71;3.05e-05)|all_epithelial(71;6.72e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0458)|Lung NSC(105;0.0518)	all_cancers(173;0.0266)	OV - Ovarian serous cystadenocarcinoma(106;0.00271)			TTTATAAAACATATAAATACTA	0.233													3	4	---	---	---	---	
LTBP1	4052	broad.mit.edu	37	2	33590512	33590512	+	Frame_Shift_Del	DEL	C	-	-			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:33590512delC	uc002ros.2	+	31	4656	c.4656delC	c.(4654-4656)TGCfs	p.C1552fs	LTBP1_uc002rot.2_Frame_Shift_Del_p.C1226fs|LTBP1_uc002rou.2_Frame_Shift_Del_p.C1225fs|LTBP1_uc002rov.2_Frame_Shift_Del_p.C1172fs|LTBP1_uc010ymz.1_Frame_Shift_Del_p.C1183fs|LTBP1_uc010yna.1_Frame_Shift_Del_p.C1130fs|LTBP1_uc010ynb.1_Frame_Shift_Del_p.C449fs	NM_206943	NP_996826	Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding	1551	TB 4.				negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)	8	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)				CTGAGTGCTGCTGTCTGTATG	0.537													53	30	---	---	---	---	
PLEKHH2	130271	broad.mit.edu	37	2	43934336	43934337	+	Intron	DEL	AA	-	-	rs148315076		TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:43934336_43934337delAA	uc010yny.1	+						PLEKHH2_uc002rte.3_Intron|PLEKHH2_uc002rtf.3_Intron	NM_172069	NP_742066	Q8IVE3	PKHH2_HUMAN	pleckstrin homology domain containing, family H							cytoplasm|cytoskeleton|integral to membrane	binding			skin(2)|central_nervous_system(1)	3		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)				actccacctcaaaaaaaaaaaa	0.153													4	2	---	---	---	---	
TNFAIP6	7130	broad.mit.edu	37	2	152214427	152214427	+	Intron	DEL	T	-	-			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:152214427delT	uc002txk.2	+							NM_007115	NP_009046	P98066	TSG6_HUMAN	tumor necrosis factor, alpha-induced protein 6						cell adhesion|cell-cell signaling|inflammatory response|signal transduction		hyaluronic acid binding				0				BRCA - Breast invasive adenocarcinoma(221;0.131)		ATACATACGCTTTTTTTTTTT	0.279													4	3	---	---	---	---	
NOSTRIN	115677	broad.mit.edu	37	2	169688080	169688080	+	Intron	DEL	T	-	-			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:169688080delT	uc002ueg.2	+						NOSTRIN_uc002uef.2_Intron|NOSTRIN_uc002uei.2_Intron|NOSTRIN_uc010fpu.2_Intron|NOSTRIN_uc002ueh.2_Intron|NOSTRIN_uc002uej.2_Intron	NM_001039724	NP_001034813	Q8IVI9	NOSTN_HUMAN	nitric oxide synthase trafficker isoform 2						endocytosis|nitric oxide metabolic process|regulation of nitric-oxide synthase activity	cytoplasmic membrane-bounded vesicle|cytoskeleton|plasma membrane	protein binding				0						GTAAACTCAGTTTTTAGAATT	0.343													42	19	---	---	---	---	
COL4A4	1286	broad.mit.edu	37	2	227916907	227916908	+	Intron	INS	-	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:227916907_227916908insA	uc010zlt.1	-							NM_000092	NP_000083	P53420	CO4A4_HUMAN	alpha 4 type IV collagen precursor						axon guidance|glomerular basement membrane development	basal lamina|collagen type IV	extracellular matrix structural constituent|protein binding			ovary(5)|central_nervous_system(3)|pancreas(1)|breast(1)|skin(1)	11		Renal(207;0.00844)|all_lung(227;0.0187)|Lung NSC(271;0.0879)|all_hematologic(139;0.21)|Esophageal squamous(248;0.242)		Epithelial(121;6.7e-11)|all cancers(144;5.39e-08)|Lung(261;0.0132)|LUSC - Lung squamous cell carcinoma(224;0.0181)		aactccatctcaaaaaaaaaaa	0.139													5	3	---	---	---	---	
DGKD	8527	broad.mit.edu	37	2	234359866	234359873	+	Intron	DEL	TAAAAACA	-	-	rs13389393	by1000genomes	TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:234359866_234359873delTAAAAACA	uc002vui.1	+						DGKD_uc002vuj.1_Intron|DGKD_uc010fyh.1_Intron|DGKD_uc010fyi.1_Intron	NM_152879	NP_690618	Q16760	DGKD_HUMAN	diacylglycerol kinase, delta 130kDa isoform 2						activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|cell growth|diacylglycerol metabolic process|endocytosis|epidermal growth factor receptor signaling pathway|multicellular organismal development|platelet activation|protein homooligomerization|protein transport|response to organic substance|second-messenger-mediated signaling	cytoplasm|cytoplasmic membrane-bounded vesicle|plasma membrane|plasma membrane	ATP binding|diacylglycerol binding|diacylglycerol kinase activity|metal ion binding|protein heterodimerization activity|protein homodimerization activity			central_nervous_system(2)|pancreas(1)|lung(1)|skin(1)	5		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0179)|Acute lymphoblastic leukemia(138;0.0326)|Lung NSC(271;0.0538)		Epithelial(121;1.31e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000416)|Lung(119;0.00285)|LUSC - Lung squamous cell carcinoma(224;0.00655)	Phosphatidylserine(DB00144)	TTTTTTTTTTTAAAAACAAAAAACAAAA	0.433													6	3	---	---	---	---	
ZNF502	91392	broad.mit.edu	37	3	44751430	44751430	+	5'Flank	DEL	T	-	-			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:44751430delT	uc011baa.1	+						ZNF502_uc003cns.2_5'Flank|ZNF502_uc011bab.1_5'Flank|ZNF502_uc003cnt.2_5'Flank	NM_001134440	NP_001127912	Q8TBZ5	ZN502_HUMAN	zinc finger protein 502						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00855)|KIRC - Kidney renal clear cell carcinoma(197;0.0471)|Kidney(197;0.0589)		ACTTGTGGAATTGCAGAACTG	0.443													27	12	---	---	---	---	
SHQ1	55164	broad.mit.edu	37	3	72841935	72841936	+	Intron	INS	-	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:72841935_72841936insA	uc003dpf.2	-						SHQ1_uc010hod.2_Intron	NM_018130	NP_060600	Q6PI26	SHQ1_HUMAN	SHQ1 homolog						ribonucleoprotein complex assembly	cytosol|nucleoplasm	protein binding			ovary(2)|large_intestine(1)	3		Prostate(10;0.00482)|Lung NSC(201;0.0339)|Myeloproliferative disorder(1037;0.204)		BRCA - Breast invasive adenocarcinoma(55;9.68e-05)|Epithelial(33;0.000563)|LUSC - Lung squamous cell carcinoma(21;0.00229)|Lung(16;0.00688)|KIRC - Kidney renal clear cell carcinoma(39;0.018)|Kidney(39;0.0213)		acctccatctcaaaaaaaaaaa	0.139													5	3	---	---	---	---	
GCET2	257144	broad.mit.edu	37	3	111851881	111851882	+	Intron	INS	-	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:111851881_111851882insT	uc003dys.1	-						GCET2_uc003dyt.1_Intron	NM_152785	NP_689998	Q8N6F7	GCET2_HUMAN	germinal center expressed transcript 2 isoform							mitochondrion					0						TTTTTCTCTTCCTTGCTGTATT	0.475													66	37	---	---	---	---	
SLC2A2	6514	broad.mit.edu	37	3	170736135	170736136	+	Intron	INS	-	T	T	rs138469833	by1000genomes	TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:170736135_170736136insT	uc003fhe.1	-						SLC2A2_uc003fhf.1_Intron|SLC2A2_uc011bpu.1_Intron	NM_000340	NP_000331	P11168	GTR2_HUMAN	solute carrier family 2 (facilitated glucose						carbohydrate metabolic process|cellular lipid metabolic process|endocrine pancreas development|energy reserve metabolic process|regulation of insulin secretion	integral to plasma membrane|membrane fraction	D-glucose transmembrane transporter activity			ovary(1)|central_nervous_system(1)	2	all_cancers(22;1.41e-19)|all_lung(20;1.59e-15)|Lung NSC(18;7.08e-15)|Ovarian(172;0.00197)|Breast(254;0.122)		LUSC - Lung squamous cell carcinoma(14;1.1e-14)|Lung(28;2.99e-14)			TTTTTTCCCCCGTGATTGTTAA	0.460													2	12	---	---	---	---	
YEATS2	55689	broad.mit.edu	37	3	183476487	183476488	+	Intron	INS	-	AG	AG	rs138766151	by1000genomes	TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:183476487_183476488insAG	uc003fly.2	+							NM_018023	NP_060493	Q9ULM3	YETS2_HUMAN	YEATS domain containing 2						histone H3 acetylation|negative regulation of transcription from RNA polymerase II promoter	Ada2/Gcn5/Ada3 transcription activator complex	TBP-class protein binding			ovary(3)|large_intestine(1)	4	all_cancers(143;6.55e-10)|Ovarian(172;0.0303)		all cancers(12;2.38e-42)|Epithelial(37;1.9e-36)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)			GGATGGGTCCTTAAGGGTTTTT	0.391													8	10	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	193504631	193504631	+	IGR	DEL	G	-	-			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:193504631delG								OPA1 (89032 upstream) : LOC100128023 (206253 downstream)																							aaggaaggaaggaaggaaAAG	0.154													4	4	---	---	---	---	
MUC4	4585	broad.mit.edu	37	3	195538502	195538503	+	Intron	DEL	TC	-	-			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:195538502_195538503delTC	uc011bto.1	-						MUC4_uc003fvo.2_Intron|MUC4_uc003fvp.2_Intron|MUC4_uc010hzv.2_Intron	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a						cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		tttcccctattctctctctctc	0.317													9	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	195664074	195664075	+	IGR	INS	-	G	G			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:195664074_195664075insG								TNK2 (25258 upstream) : SDHAP1 (22717 downstream)																							CCAAGAGACCCGCGGAGGGAGG	0.658													4	7	---	---	---	---	
KIAA1211	57482	broad.mit.edu	37	4	57181591	57181591	+	Frame_Shift_Del	DEL	C	-	-			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:57181591delC	uc003hbk.2	+	8	2314	c.1923delC	c.(1921-1923)GGCfs	p.G641fs	KIAA1211_uc010iha.2_Frame_Shift_Del_p.G634fs|KIAA1211_uc011bzz.1_Frame_Shift_Del_p.G551fs|KIAA1211_uc003hbm.1_Frame_Shift_Del_p.G527fs	NM_020722	NP_065773	Q6ZU35	K1211_HUMAN	hypothetical protein LOC57482	641										ovary(1)|skin(1)	2	Glioma(25;0.08)|all_neural(26;0.101)					CTCCCCGAGGCCCCGGCGACG	0.672													10	17	---	---	---	---	
FRG1	2483	broad.mit.edu	37	4	190874371	190874372	+	Intron	DEL	AG	-	-			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:190874371_190874372delAG	uc003izs.2	+							NM_004477	NP_004468	Q14331	FRG1_HUMAN	FSHD region gene 1						rRNA processing	Cajal body|catalytic step 2 spliceosome|nuclear speck|nucleolus					0		all_cancers(14;1.44e-58)|all_epithelial(14;6.32e-41)|all_lung(41;8.13e-17)|Lung NSC(41;2.13e-16)|Breast(6;2.54e-06)|Melanoma(20;0.000263)|Hepatocellular(41;0.00213)|Renal(120;0.0183)|all_hematologic(60;0.0358)|Prostate(90;0.0421)|all_neural(102;0.147)		all cancers(3;1.73e-30)|Epithelial(3;5.85e-30)|OV - Ovarian serous cystadenocarcinoma(60;5.56e-15)|BRCA - Breast invasive adenocarcinoma(30;9.14e-06)|Lung(3;3.54e-05)|STAD - Stomach adenocarcinoma(60;8.83e-05)|LUSC - Lung squamous cell carcinoma(40;0.000198)|GBM - Glioblastoma multiforme(59;0.00892)|READ - Rectum adenocarcinoma(43;0.161)		TTAAGCCCACAGGGTAATTTTG	0.252													4	2	---	---	---	---	
GCM1	8521	broad.mit.edu	37	6	52992826	52992827	+	3'UTR	INS	-	AAAAAAAA	AAAAAAAA	rs71726666		TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:52992826_52992827insAAAAAAAA	uc003pbp.2	-	6						NM_003643	NP_003634	Q9NP62	GCM1_HUMAN	glial cells missing homolog a							transcription factor complex	DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			central_nervous_system(1)	1	Lung NSC(77;0.0755)					gactctgtctcaaaaaaaaaaa	0.084													4	2	---	---	---	---	
CDC40	51362	broad.mit.edu	37	6	110536283	110536284	+	Intron	DEL	TG	-	-			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:110536283_110536284delTG	uc003pua.2	+							NM_015891	NP_056975	O60508	PRP17_HUMAN	cell division cycle 40 homolog						mRNA 3'-end processing|mRNA export from nucleus|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|nucleoplasm					0		all_cancers(87;6.23e-06)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.00159)|Colorectal(196;0.0488)		Epithelial(106;0.0221)|all cancers(137;0.0314)|OV - Ovarian serous cystadenocarcinoma(136;0.034)		TGTGTGACTCTGTGTGTGTGTG	0.307													4	2	---	---	---	---	
C7orf28A	51622	broad.mit.edu	37	7	5941132	5941132	+	Intron	DEL	G	-	-	rs72091546		TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:5941132delG	uc003spf.2	+							NM_015622	NP_056437	P86791	CCZ1_HUMAN	hypothetical protein LOC51622							lysosomal membrane					0		Ovarian(82;0.0694)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0974)|OV - Ovarian serous cystadenocarcinoma(56;7.91e-15)		aaaaaaaaaagaaCGCAAACA	0.184													4	2	---	---	---	---	
DNAH11	8701	broad.mit.edu	37	7	21611299	21611308	+	Intron	DEL	ATTTTCTGTC	-	-			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:21611299_21611308delATTTTCTGTC	uc003svc.2	+							NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11						microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						GAAAATATTTATTTTCTGTCATTTTCTGTC	0.243									Kartagener_syndrome				2	7	---	---	---	---	
FAM126A	84668	broad.mit.edu	37	7	23023501	23023502	+	Intron	INS	-	C	C			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:23023501_23023502insC	uc003svm.3	-						FAM126A_uc003svn.3_Intron|FAM126A_uc011jyr.1_Intron	NM_032581	NP_115970	Q9BYI3	HYCCI_HUMAN	family with sequence similarity 126, member A							cytoplasm|membrane	signal transducer activity			central_nervous_system(1)	1						ctatttcacaataaaaaattaa	0.149													20	20	---	---	---	---	
AP4M1	9179	broad.mit.edu	37	7	99701530	99701530	+	Intron	DEL	G	-	-	rs13221278		TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:99701530delG	uc003utb.3	+						MCM7_uc003usw.1_5'Flank|MCM7_uc003usx.1_5'Flank|AP4M1_uc011kjg.1_Intron|AP4M1_uc010lgl.1_Intron|AP4M1_uc003utc.3_Intron|AP4M1_uc010lgm.2_Intron|AP4M1_uc003utd.2_Intron|AP4M1_uc011kjh.1_Intron|AP4M1_uc003ute.3_Intron|AP4M1_uc003utf.3_Intron	NM_004722	NP_004713	O00189	AP4M1_HUMAN	adaptor-related protein complex 4, mu 1 subunit						intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|coated pit|Golgi trans cisterna	transporter activity				0	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					AAAAAAAAAAGAAAAAGATCT	0.274													3	3	---	---	---	---	
TTC26	79989	broad.mit.edu	37	7	138857969	138857969	+	Intron	DEL	A	-	-			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:138857969delA	uc003vus.2	+						TTC26_uc011kqn.1_Intron|TTC26_uc011kqo.1_Intron|TTC26_uc011kqp.1_Intron|TTC26_uc003vut.2_Intron|TTC26_uc011kqq.1_Intron	NM_024926	NP_079202	A0AVF1	TTC26_HUMAN	tetratricopeptide repeat domain 26 isoform 1								binding			ovary(1)	1						GTACAAAGTCACCtttttttt	0.214													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	80796047	80796050	+	IGR	DEL	TCTC	-	-	rs67217941	by1000genomes	TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:80796047_80796050delTCTC								HEY1 (115949 upstream) : MRPS28 (35046 downstream)																							tttctgtctttctctctctctctc	0.000													3	3	---	---	---	---	
TRIM14	9830	broad.mit.edu	37	9	100854066	100854067	+	Intron	INS	-	AAAT	AAAT	rs145057289	by1000genomes	TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:100854066_100854067insAAAT	uc004ayd.2	-						TRIM14_uc004ayf.1_Intron|TRIM14_uc011luz.1_Intron|TRIM14_uc011lva.1_Intron|TRIM14_uc004ayg.1_Intron|TRIM14_uc004ayh.1_Intron|TRIM14_uc004ayi.1_Intron|TRIM14_uc004ayj.1_Intron	NM_033220	NP_150089	Q14142	TRI14_HUMAN	tripartite motif protein TRIM14 isoform alpha							cytoplasm|intracellular	zinc ion binding			central_nervous_system(1)	1		Acute lymphoblastic leukemia(62;0.0559)				ACAAGTTCTTAaaataaataaa	0.238													2	4	---	---	---	---	
C9orf119	375757	broad.mit.edu	37	9	131046568	131046569	+	Intron	DEL	AA	-	-			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:131046568_131046569delAA	uc004bup.2	+						C9orf119_uc010mxx.1_Intron	NM_001040011	NP_001035100	Q1ZZU3	SWI5_HUMAN	hypothetical protein LOC375757						double-strand break repair via homologous recombination	Swi5-Sfr1 complex	protein binding				0						actccgtctcaaaaaaaaaaaa	0.000													4	2	---	---	---	---	
CWF19L2	143884	broad.mit.edu	37	11	107299315	107299316	+	Intron	INS	-	AATT	AATT	rs144602276	by1000genomes	TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:107299315_107299316insAATT	uc010rvp.1	-						CWF19L2_uc001pjh.3_Intron|CWF19L2_uc009yxo.2_Intron	NM_152434	NP_689647	Q2TBE0	C19L2_HUMAN	CWF19-like 2, cell cycle control								catalytic activity				0		Melanoma(852;1.75e-05)|all_epithelial(67;6.27e-05)|Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Breast(348;0.0258)		Epithelial(105;7.18e-06)|BRCA - Breast invasive adenocarcinoma(274;1.65e-05)|all cancers(92;1.76e-05)		TATAGCTACTGCTTTCAGCTCT	0.297													6	3	---	---	---	---	
IL18	3606	broad.mit.edu	37	11	112024223	112024223	+	Intron	DEL	T	-	-	rs78854082		TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:112024223delT	uc001pnb.1	-						IL18_uc001pna.1_5'Flank|IL18_uc009yym.1_Intron	NM_001562	NP_001553	Q14116	IL18_HUMAN	interleukin 18 proprotein						angiogenesis|cell-cell signaling|chemokine biosynthetic process|granulocyte macrophage colony-stimulating factor biosynthetic process|interferon-gamma biosynthetic process|interleukin-13 biosynthetic process|interleukin-2 biosynthetic process|positive regulation of activated T cell proliferation|positive regulation of granulocyte macrophage colony-stimulating factor production|positive regulation of interferon-gamma production|positive regulation of interleukin-17 production|positive regulation of natural killer cell proliferation|positive regulation of NK T cell proliferation|regulation of cell adhesion|sleep|T-helper 1 type immune response|type 2 immune response	cytosol|extracellular space	cytokine activity|signal transducer activity				0		all_cancers(61;5.7e-14)|all_epithelial(67;3.4e-08)|Melanoma(852;8.81e-06)|all_hematologic(158;0.000405)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0112)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;6.72e-07)|Epithelial(105;8.15e-07)|all cancers(92;1.43e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.055)		ATGAGAACCATTTTTTTTTTT	0.358													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	9555195	9555196	+	IGR	INS	-	C	C	rs140281398	by1000genomes	TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:9555195_9555196insC								LOC642846 (88511 upstream) : DDX12 (15092 downstream)																							AAGCCCCTCTTCCCCCCCTGGC	0.584													5	4	---	---	---	---	
KCNH3	23416	broad.mit.edu	37	12	49935400	49935400	+	Intron	DEL	T	-	-			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:49935400delT	uc001ruh.1	+						KCNH3_uc010smj.1_Intron	NM_012284	NP_036416	Q9ULD8	KCNH3_HUMAN	potassium voltage-gated channel, subfamily H						regulation of transcription, DNA-dependent	integral to membrane	two-component sensor activity|voltage-gated potassium channel activity				0						GCTGAGTTTGTTTTTGTGCCC	0.547													102	61	---	---	---	---	
FMNL3	91010	broad.mit.edu	37	12	50045327	50045327	+	Intron	DEL	A	-	-			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:50045327delA	uc001ruv.1	-						FMNL3_uc001ruw.1_Intron|FMNL3_uc001rut.1_Intron|FMNL3_uc001ruu.1_Intron	NM_175736	NP_783863	Q8IVF7	FMNL3_HUMAN	formin-like 3 isoform 1						actin cytoskeleton organization		actin binding|Rho GTPase binding			breast(2)|pancreas(2)	4						TCTGAGAGTTAAAAAAAAAaa	0.269													4	2	---	---	---	---	
LETMD1	25875	broad.mit.edu	37	12	51449473	51449476	+	Intron	DEL	ACTG	-	-	rs71089737		TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:51449473_51449476delACTG	uc001rxm.2	+						LETMD1_uc010smz.1_Intron|LETMD1_uc010sna.1_Intron|LETMD1_uc001rxl.2_Intron|LETMD1_uc009zlv.2_Intron|LETMD1_uc001rxs.2_Intron|LETMD1_uc009zlw.2_Intron|LETMD1_uc001rxn.2_Intron|LETMD1_uc001rxo.2_Intron|LETMD1_uc001rxp.2_Intron|LETMD1_uc001rxq.2_Intron|LETMD1_uc001rxr.2_Intron|LETMD1_uc001rxt.2_Intron	NM_015416	NP_056231	Q6P1Q0	LTMD1_HUMAN	LETM1 domain containing 1 isoform 1							integral to membrane|mitochondrial outer membrane	protein binding			central_nervous_system(2)	2						aaaaaaaaaaaCTGAAAAAGAAAA	0.196													5	3	---	---	---	---	
USP15	9958	broad.mit.edu	37	12	62785710	62785710	+	Intron	DEL	T	-	-			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:62785710delT	uc001src.1	+						USP15_uc001srb.1_Intron	NM_006313	NP_006304	Q9Y4E8	UBP15_HUMAN	ubiquitin specific peptidase 15						protein deubiquitination|ubiquitin-dependent protein catabolic process		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(2)|lung(1)	3			GBM - Glioblastoma multiforme(1;0.000276)	GBM - Glioblastoma multiforme(28;0.0622)		CTTGATTTACTTTATGTGATT	0.328													16	7	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	80650276	80650277	+	IGR	INS	-	CAAA	CAAA	rs147846753	by1000genomes	TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:80650276_80650277insCAAA								PPP1R12A (321041 upstream) : PTPRQ (187849 downstream)																							TTTCTTTACATcaaacaaacaa	0.322													2	7	---	---	---	---	
C12orf51	283450	broad.mit.edu	37	12	112685782	112685783	+	Intron	DEL	AC	-	-			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:112685782_112685783delAC	uc009zwc.2	-							NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						TATTTTACCTacacacacacac	0.277													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	116030326	116030327	+	IGR	INS	-	T	T	rs113877692		TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:116030326_116030327insT								TBX3 (908357 upstream) : MED13L (366056 downstream)																							cctccattttcTTTTTTTTTTT	0.228													4	2	---	---	---	---	
CRYL1	51084	broad.mit.edu	37	13	21013654	21013654	+	Intron	DEL	A	-	-	rs67005224		TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:21013654delA	uc001une.2	-						CRYL1_uc001unf.2_Intron|CRYL1_uc001ung.2_Intron|CRYL1_uc010tcp.1_Intron	NM_015974	NP_057058	Q9Y2S2	CRYL1_HUMAN	lambda-crystallin						fatty acid metabolic process	cytosol	3-hydroxyacyl-CoA dehydrogenase activity|L-gulonate 3-dehydrogenase activity|NAD+ binding|protein homodimerization activity				0		all_cancers(29;2.27e-23)|all_epithelial(30;1.69e-19)|all_lung(29;8.29e-18)|Lung SC(185;0.0262)|Ovarian(182;0.0827)|Hepatocellular(188;0.244)		all cancers(112;6.6e-05)|Epithelial(112;0.00178)|OV - Ovarian serous cystadenocarcinoma(117;0.0169)|Lung(94;0.0215)|GBM - Glioblastoma multiforme(144;0.0402)|LUSC - Lung squamous cell carcinoma(192;0.061)		CCTCCCCCGCaaaaaaaaaaa	0.254													4	2	---	---	---	---	
UFM1	51569	broad.mit.edu	37	13	38932175	38932176	+	Intron	DEL	TG	-	-	rs72454711		TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:38932175_38932176delTG	uc001uwu.2	+						UFM1_uc010abz.2_Intron|UFM1_uc010aca.2_Intron	NM_016617	NP_057701	P61960	UFM1_HUMAN	ubiquitin-fold modifier 1 precursor						protein ufmylation	cytoplasm|nucleus	protein binding				0		Lung NSC(96;3.18e-06)|Prostate(109;0.00314)|Breast(139;0.0199)|Lung SC(185;0.0743)		all cancers(112;1.05e-08)|Epithelial(112;1.44e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000855)|BRCA - Breast invasive adenocarcinoma(63;0.00342)|GBM - Glioblastoma multiforme(144;0.0132)		CTTATAGTTTtgtgtgtgtgtg	0.228													2	4	---	---	---	---	
ELF1	1997	broad.mit.edu	37	13	41567356	41567357	+	Intron	INS	-	AGCT	AGCT			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:41567356_41567357insAGCT	uc001uxs.2	-							NM_172373	NP_758961	P32519	ELF1_HUMAN	E74-like factor 1 (ets domain transcription						positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Lung NSC(96;8.3e-05)|Prostate(109;0.0233)|Breast(139;0.0296)|Lung SC(185;0.0367)		all cancers(112;1.87e-08)|Epithelial(112;8.45e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000202)|GBM - Glioblastoma multiforme(144;0.00266)|BRCA - Breast invasive adenocarcinoma(63;0.072)		GAGGCAGGAGCAGCTGCAACAA	0.485													44	29	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	57292956	57292957	+	Intron	INS	-	AAGG	AAGG	rs11271907		TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:57292956_57292957insAAGG	uc001xcr.1	+											Homo sapiens cDNA clone IMAGE:5492202, partial cds.																		AAAGAAaaggaaaggaaggaag	0.287													4	3	---	---	---	---	
ADAM6	8755	broad.mit.edu	37	14	107210900	107210900	+	Intron	DEL	C	-	-			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:107210900delC	uc010tyt.1	-											Parts of antibodies, mostly variable regions.												0						AGGTTTGTGTCCGGGCTCACA	0.607													44	30	---	---	---	---	
GTF2A2	2958	broad.mit.edu	37	15	59934165	59934166	+	Intron	INS	-	TGTT	TGTT			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:59934165_59934166insTGTT	uc002agg.2	-							NM_004492	NP_004483	P52657	T2AG_HUMAN	general transcription factor IIA, 2, 12kDa						interspecies interaction between organisms|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|RNA polymerase II transcriptional preinitiation complex assembly|transcription elongation from RNA polymerase II promoter|viral reproduction	transcription factor TFIIA complex	protein heterodimerization activity|protein homodimerization activity|TBP-class protein binding|transcription coactivator activity			central_nervous_system(2)	2						AGTAAGAGCACTGTTTGAGATA	0.361													3	5	---	---	---	---	
GOLGA6B	55889	broad.mit.edu	37	15	72957311	72957313	+	In_Frame_Del	DEL	GAG	-	-			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:72957311_72957313delGAG	uc010uks.1	+	14	1569_1571	c.1528_1530delGAG	c.(1528-1530)GAGdel	p.E513del	uc002aux.1_5'Flank|uc002auy.1_5'Flank	NM_018652	NP_061122	A6NDN3	GOG6B_HUMAN	golgi autoantigen, golgin subfamily a, 6B	513	Potential.										0						TCTGGACAGTGAGGAGGAGGAGG	0.635													4	2	---	---	---	---	
SLCO3A1	28232	broad.mit.edu	37	15	92638333	92638333	+	Intron	DEL	T	-	-	rs67561474		TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:92638333delT	uc002bqx.2	+						SLCO3A1_uc002bqy.2_Intron|SLCO3A1_uc010boc.1_Intron|SLCO3A1_uc002bqz.1_Intron	NM_013272	NP_037404	Q9UIG8	SO3A1_HUMAN	solute carrier organic anion transporter family,						sodium-independent organic anion transport	integral to membrane|plasma membrane	sodium-independent organic anion transmembrane transporter activity			skin(1)	1	Lung NSC(78;0.0158)|all_lung(78;0.0255)		BRCA - Breast invasive adenocarcinoma(143;0.0841)			CCTGCCTCTGTAGCTGGGGCT	0.328													9	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	102299886	102299887	+	5'Flank	INS	-	G	G			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:102299886_102299887insG	uc002bzh.1	-						uc002bzk.2_5'Flank|uc002bzn.2_5'Flank|uc010uso.1_5'Flank|uc002bzs.2_5'Flank|uc010usv.1_5'Flank|uc002cal.2_5'Flank|uc002cam.2_5'Flank|uc010usx.1_5'Flank|uc002cao.2_5'Flank|uc002cap.2_5'Flank|uc002caq.2_5'Flank|uc010usz.1_5'Flank|uc010uta.1_5'Flank|uc002cas.2_5'Flank|uc002cat.1_5'Flank|uc002cau.2_5'Flank|uc010utb.1_5'Flank|uc002cav.2_5'Flank|uc002caw.2_5'Flank|uc002cax.2_5'Flank|uc010utc.1_5'Flank|uc002cay.2_5'Flank|uc002cbb.2_5'Flank|uc002cbc.1_5'Flank|uc002cbd.2_5'Flank|uc002cbe.2_5'Flank|uc002cbg.2_5'Flank|uc002cbh.2_5'Flank|uc002cbi.2_5'Flank|uc002cbk.2_5'Flank|uc002cbl.2_5'Flank|uc010utd.1_5'Flank					DQ575740																		AACCTGTACTCGCGTCGGAACC	0.589													5	4	---	---	---	---	
PDXDC1	23042	broad.mit.edu	37	16	15083569	15083570	+	Intron	INS	-	GCA	GCA	rs66497434		TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:15083569_15083570insGCA	uc010uzl.1	+						PDXDC1_uc010uzm.1_Intron|PDXDC1_uc010bvc.1_Intron|PDXDC1_uc002dcz.2_Intron|PDXDC1_uc002dda.3_Intron|PDXDC1_uc002ddb.3_Intron|PDXDC1_uc010uzn.1_Intron|PDXDC1_uc002ddc.2_Intron|uc010bvd.1_5'UTR	NM_015027	NP_055842	Q6P996	PDXD1_HUMAN	pyridoxal-dependent decarboxylase domain						carboxylic acid metabolic process		carboxy-lyase activity|protein binding|pyridoxal phosphate binding			skin(1)	1					Pyridoxal Phosphate(DB00114)	ACGCACGCGGCGCAGCAGCCCC	0.634													4	3	---	---	---	---	
DNAH3	55567	broad.mit.edu	37	16	21071848	21071848	+	Intron	DEL	T	-	-			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:21071848delT	uc010vbe.1	-							NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3						ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		tttttttttcttttttttttt	0.209													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	32616270	32616270	+	IGR	DEL	C	-	-			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:32616270delC								HERC2P4 (452396 upstream) : TP53TG3B (68571 downstream)																							CTGAGGATGTCCCAGCCGTTC	0.388													26	14	---	---	---	---	
TP53	7157	broad.mit.edu	37	17	7578443	7578444	+	In_Frame_Ins	INS	-	GAT	GAT			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:7578443_7578444insGAT	uc002gim.2	-	5	680_681	c.486_487insATC	c.(484-489)insATC	p.162_163insI	TP53_uc002gig.1_In_Frame_Ins_p.162_163insI|TP53_uc002gih.2_In_Frame_Ins_p.162_163insI|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_In_Frame_Ins_p.30_31insI|TP53_uc010cng.1_In_Frame_Ins_p.30_31insI|TP53_uc002gii.1_In_Frame_Ins_p.30_31insI|TP53_uc010cnh.1_In_Frame_Ins_p.162_163insI|TP53_uc010cni.1_In_Frame_Ins_p.162_163insI|TP53_uc002gij.2_In_Frame_Ins_p.162_163insI|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_In_Frame_Ins_p.69_70insI|TP53_uc002gio.2_In_Frame_Ins_p.30_31insI|TP53_uc010vug.1_In_Frame_Ins_p.123_124insI	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	162_163	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		Y -> F (in a sporadic cancer; somatic mutation).|Y -> H (in sporadic cancers; somatic mutation).|Y -> C (in LFS; germline mutation and in sporadic cancers; somatic mutation).|Y -> S (in sporadic cancers; somatic mutation).|Y -> N (in sporadic cancers; somatic mutation).|Y -> D (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.Y163N(17)|p.Y163H(17)|p.I162F(8)|p.0?(7)|p.I162V(5)|p.I162I(4)|p.I162S(4)|p.I162N(3)|p.I162M(3)|p.Y163fs*7(2)|p.R156_I162delRVRAMAI(2)|p.Y163D(2)|p.I162fs*19(2)|p.V157_C176del20(1)|p.Y163fs*1(1)|p.Y163_Q165delYKQ(1)|p.P151_V173del23(1)|p.S149fs*72(1)|p.I162_Y163delIY(1)|p.I162fs*8(1)|p.A161fs*7(1)|p.V157_I162delVRAMAI(1)|p.Y163fs*14(1)|p.A159_Q167delAMAIYKQSQ(1)|p.Y163fs*18(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		GACTGCTTGTAGATGGCCATGG	0.624		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			26	29	---	---	---	---	
FBXO47	494188	broad.mit.edu	37	17	37101101	37101102	+	Intron	INS	-	TGTGTGTGTG	TGTGTGTGTG	rs150367922	by1000genomes	TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:37101101_37101102insTGTGTGTGTG	uc002hrc.2	-							NM_001008777	NP_001008777	Q5MNV8	FBX47_HUMAN	F-box protein 47												0						gcgtgcatgcatgtgtgtgtgt	0.099													5	3	---	---	---	---	
ABCA5	23461	broad.mit.edu	37	17	67246495	67246496	+	Intron	INS	-	AT	AT	rs147076066	by1000genomes	TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:67246495_67246496insAT	uc002jif.2	-						ABCA5_uc002jib.2_Intron|ABCA5_uc002jic.2_Intron|ABCA5_uc002jid.2_Intron|ABCA5_uc002jie.2_Intron|ABCA5_uc002jig.2_Intron	NM_018672	NP_061142	Q8WWZ7	ABCA5_HUMAN	ATP-binding cassette, sub-family A , member 5						cholesterol efflux|high-density lipoprotein particle remodeling|negative regulation of macrophage derived foam cell differentiation	Golgi membrane|integral to membrane|late endosome membrane|lysosomal membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;3.72e-11)					cacacacagagatatatatata	0.149													4	7	---	---	---	---	
SNRPD1	6632	broad.mit.edu	37	18	19202891	19202892	+	Intron	DEL	TT	-	-	rs111943199		TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:19202891_19202892delTT	uc002ktj.1	+							NM_006938	NP_008869	P62314	SMD1_HUMAN	small nuclear ribonucleoprotein D1 polypeptide						ncRNA metabolic process|spliceosomal snRNP assembly|spliceosome assembly	catalytic step 2 spliceosome|cytosol|nucleoplasm|small nuclear ribonucleoprotein complex|U12-type spliceosomal complex	protein binding|RNA binding				0						AATTATGTAAtttttttttttt	0.114													4	2	---	---	---	---	
OR7A10	390892	broad.mit.edu	37	19	14951778	14951778	+	Frame_Shift_Del	DEL	G	-	-			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:14951778delG	uc002mzx.1	-	1	912	c.912delC	c.(910-912)TTCfs	p.F304fs		NM_001005190	NP_001005190	O76100	OR7AA_HUMAN	olfactory receptor, family 7, subfamily A,	304	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Ovarian(108;0.203)					TTCCTCTGAAGAATGTTTTCA	0.443													18	34	---	---	---	---	
CYP2A7	1549	broad.mit.edu	37	19	41531452	41531452	+	Intron	DEL	G	-	-			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:41531452delG	uc002opo.2	-						uc002ops.1_Intron	NM_000764	NP_000755	P20853	CP2A7_HUMAN	cytochrome P450, family 2, subfamily A,							endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	3			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)			TCCCCATGTAGGGGAGCAGTT	0.602													16	13	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	42107428	42107429	+	IGR	DEL	CA	-	-	rs71902951		TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:42107428_42107429delCA								CEACAM21 (14232 upstream) : CEACAM4 (17915 downstream)																							cgcgcgcgcgcacacacacaca	0.213													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	43844528	43844529	+	IGR	INS	-	CTTC	CTTC	rs113899308	by1000genomes	TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:43844528_43844529insCTTC								PSG9 (70846 upstream) : PRG1 (8679 downstream)																							ttccttcctttcttccttcctt	0.025													13	6	---	---	---	---	
KLK4	9622	broad.mit.edu	37	19	51411603	51411603	+	Intron	DEL	C	-	-			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:51411603delC	uc002pua.1	-						KLK4_uc002pty.1_Intron|KLK4_uc002ptz.1_Intron|KLK4_uc002pub.1_Intron|KLK4_uc002puc.1_Intron|KLK4_uc010eoi.1_3'UTR	NM_004917	NP_004908	Q9Y5K2	KLK4_HUMAN	kallikrein-related peptidase 4 preproprotein						proteolysis	extracellular region	metal ion binding|serine-type endopeptidase activity				0		all_neural(266;0.026)		OV - Ovarian serous cystadenocarcinoma(262;0.00624)|GBM - Glioblastoma multiforme(134;0.00878)		CCTCCCCTTTCCCCTCTCTCA	0.557													26	27	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	4617273	4617273	+	IGR	DEL	G	-	-	rs33962070		TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:4617273delG								ADRA1D (387614 upstream) : PRNP (49524 downstream)																							agagaaagaagagaagagaag	0.149													4	2	---	---	---	---	
XRN2	22803	broad.mit.edu	37	20	21370058	21370058	+	3'UTR	DEL	G	-	-			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:21370058delG	uc002wsf.1	+	30					XRN2_uc002wsg.1_3'UTR|XRN2_uc010zsk.1_3'UTR|XRN2_uc002wsh.1_3'UTR	NM_012255	NP_036387	Q9H0D6	XRN2_HUMAN	5'-3' exoribonuclease 2						cell growth|DNA catabolic process, exonucleolytic|mRNA processing|regulation of transcription, DNA-dependent|RNA catabolic process|spermatogenesis|transcription termination, DNA-dependent	nucleolus	5'-3' exoribonuclease activity|nucleic acid binding|protein binding|zinc ion binding			skin(1)	1						TCAAGTAGTAGTTTTTAATAA	0.294													9	8	---	---	---	---	
Unknown	0	broad.mit.edu	37	22	21052399	21052399	+	IGR	DEL	G	-	-			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:21052399delG								POM121L4P (6390 upstream) : TMEM191A (3003 downstream)																							AGCTGCTGGTGGGGAGGTCTT	0.647													7	4	---	---	---	---	
LZTR1	8216	broad.mit.edu	37	22	21341677	21341678	+	Intron	INS	-	A	A	rs149184314		TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:21341677_21341678insA	uc002zto.2	+						LZTR1_uc002ztn.2_Intron|LZTR1_uc011ahy.1_Intron|LZTR1_uc010gsr.1_5'Flank	NM_006767	NP_006758	Q8N653	LZTR1_HUMAN	leucine-zipper-like transcription regulator 1						anatomical structure morphogenesis		sequence-specific DNA binding transcription factor activity			ovary(2)|lung(2)	4	all_cancers(11;1.83e-25)|all_epithelial(7;9.19e-23)|Lung NSC(8;3.06e-15)|all_lung(8;5.05e-14)|Melanoma(16;0.000465)|Ovarian(15;0.0028)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.195)			gactccgtctcaaaaaaaaaaa	0.257													4	4	---	---	---	---	
XG	7499	broad.mit.edu	37	X	2683418	2683425	+	Intron	DEL	GGAAGGAA	-	-			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:2683418_2683425delGGAAGGAA	uc011mhg.1	+						XG_uc010ndb.2_Intron|XG_uc004cqp.2_Intron	NM_175569	NP_780778	P55808	XG_HUMAN	XG glycoprotein isoform 1 precursor							integral to membrane|plasma membrane				ovary(1)	1		all_cancers(21;9e-05)|all_epithelial(21;6.22e-06)|all_lung(23;0.000597)|Lung NSC(23;0.00901)|Lung SC(21;0.186)				agggagggagggaaggaaggaaggaagg	0.135													3	3	---	---	---	---	
MID1	4281	broad.mit.edu	37	X	10463457	10463457	+	Intron	DEL	A	-	-			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:10463457delA	uc004cte.3	-						MID1_uc004ctd.3_Intron|MID1_uc004ctg.3_Intron|MID1_uc004cth.3_Intron|MID1_uc004ctk.3_Intron|MID1_uc004cti.3_Intron|MID1_uc004ctj.3_Intron|MID1_uc011mie.1_Intron|MID1_uc004ctm.1_Intron|MID1_uc004ctn.1_Intron|MID1_uc004cto.1_Intron|MID1_uc010ndw.1_Intron|MID1_uc004cts.1_Intron|MID1_uc004ctt.2_Intron|MID1_uc004ctu.2_Intron|MID1_uc004ctv.2_Intron|MID1_uc004ctw.2_Intron|MID1_uc010ndy.1_Intron|MID1_uc004ctc.3_Intron|MID1_uc004ctp.1_Intron|MID1_uc004ctq.1_Intron|MID1_uc004ctr.1_Intron|MID1_uc010ndu.1_Intron|MID1_uc010ndv.1_Intron|MID1_uc010ndx.1_Intron	NM_033290	NP_150632	O15344	TRI18_HUMAN	midline 1						microtubule cytoskeleton organization|pattern specification process|positive regulation of stress-activated MAPK cascade	cytoplasm|microtubule|microtubule associated complex|spindle	ligase activity|ubiquitin protein ligase binding|zinc ion binding			ovary(2)|pancreas(1)	3						AAGGATGGAGAAAAAACTGCC	0.418													4	2	---	---	---	---	
ASB9	140462	broad.mit.edu	37	X	15273107	15273107	+	Intron	DEL	A	-	-			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:15273107delA	uc004cwl.2	-						ASB9_uc004cwk.2_Intron|ASB9_uc004cwm.2_Intron|ASB9_uc010ner.2_Intron|ASB9_uc004cwn.2_Intron	NM_001031739	NP_001026909	Q96DX5	ASB9_HUMAN	ankyrin repeat and SOCS box-containing 9 isoform						intracellular signal transduction						0	Hepatocellular(33;0.183)					TATTGACTTTAAaaaaaaaaa	0.224													7	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	57703707	57703707	+	IGR	DEL	C	-	-			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:57703707delC								ZXDB (79801 upstream) : ZXDA (230491 downstream)																							CTCCACTAGACCCCAAGGGAT	0.493													35	22	---	---	---	---	
ATP7A	538	broad.mit.edu	37	X	77270359	77270360	+	Intron	INS	-	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:77270359_77270360insA	uc004ecx.3	+							NM_000052	NP_000043	Q04656	ATP7A_HUMAN	ATPase, Cu++ transporting, alpha polypeptide						ATP biosynthetic process|blood vessel development|blood vessel remodeling|cartilage development|cellular copper ion homeostasis|cerebellar Purkinje cell differentiation|collagen fibril organization|copper ion import|detoxification of copper ion|dopamine metabolic process|elastic fiber assembly|elastin biosynthetic process|epinephrine metabolic process|hair follicle morphogenesis|locomotory behavior|lung alveolus development|negative regulation of metalloenzyme activity|neuroprotection|peptidyl-lysine modification|pigmentation|positive regulation of metalloenzyme activity|positive regulation of oxidoreductase activity|pyramidal neuron development|regulation of oxidative phosphorylation|removal of superoxide radicals|serotonin metabolic process|skin development|T-helper cell differentiation|tryptophan metabolic process	basolateral plasma membrane|cytosol|endoplasmic reticulum|endoplasmic reticulum|integral to membrane|late endosome|neuron projection|neuronal cell body|perinuclear region of cytoplasm|trans-Golgi network|trans-Golgi network transport vesicle	ATP binding|copper-dependent protein binding|copper-exporting ATPase activity|superoxide dismutase copper chaperone activity				0						aatctgtctcccagatataaaa	0.059													16	7	---	---	---	---	
BRWD3	254065	broad.mit.edu	37	X	79942251	79942252	+	Intron	INS	-	A	A			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:79942251_79942252insA	uc004edt.2	-						BRWD3_uc010nmi.1_Intron|BRWD3_uc004edo.2_Intron|BRWD3_uc004edp.2_Intron|BRWD3_uc004edq.2_Intron|BRWD3_uc010nmj.1_Intron|BRWD3_uc004edr.2_Intron|BRWD3_uc004eds.2_Intron|BRWD3_uc004edu.2_Intron|BRWD3_uc004edv.2_Intron|BRWD3_uc004edw.2_Intron|BRWD3_uc004edx.2_Intron|BRWD3_uc004edy.2_Intron|BRWD3_uc004edz.2_Intron|BRWD3_uc004eea.2_Intron|BRWD3_uc004eeb.2_Intron	NM_153252	NP_694984	Q6RI45	BRWD3_HUMAN	bromodomain and WD repeat domain containing 3											ovary(4)	4						CAAAAGACTGGAAAAAAAGAAA	0.282													11	5	---	---	---	---	
ATP1B4	23439	broad.mit.edu	37	X	119496146	119496147	+	Intron	INS	-	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:119496146_119496147insT	uc004esr.2	+						ATP1B4_uc004esq.2_Intron|ATP1B4_uc011mtx.1_Intron|ATP1B4_uc011mty.1_Intron	NM_001142447	NP_001135919	Q9UN42	AT1B4_HUMAN	ATPase, (Na+)/K+ transporting, beta 4						ATP biosynthetic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to plasma membrane|nuclear inner membrane	sodium:potassium-exchanging ATPase activity			ovary(1)|skin(1)	2						AATGGGGTGGGTTGGGGGCTGT	0.515													30	20	---	---	---	---	
FHL1	2273	broad.mit.edu	37	X	135291228	135291229	+	Intron	INS	-	T	T			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:135291228_135291229insT	uc004ezo.2	+						FHL1_uc010nrz.2_Intron|FHL1_uc004ezm.2_Intron|FHL1_uc004ezl.2_Intron|FHL1_uc004ezq.2_Intron|FHL1_uc011mvy.1_Intron|FHL1_uc011mvz.1_Intron|FHL1_uc004ezn.2_Intron|FHL1_uc011mwa.1_Intron|FHL1_uc011mwb.1_Intron|FHL1_uc004ezp.2_Intron|FHL1_uc004ezr.2_Intron	NM_001159702	NP_001153174	Q13642	FHL1_HUMAN	four and a half LIM domains 1 isoform 1						cell differentiation|cell growth|muscle organ development|organ morphogenesis	cytosol|nucleus|plasma membrane	protein binding|zinc ion binding				0	Acute lymphoblastic leukemia(192;0.000127)					GGCAGGGTTTCTTTTTTTTTTG	0.421													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	150395856	150395856	+	IGR	DEL	C	-	-			TCGA-22-5485-01A-01D-1632-08	TCGA-22-5485-11A-01D-1632-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:150395856delC								GPR50 (45926 upstream) : VMA21 (169849 downstream)																							ATAACTACTGCAGGATATTTC	0.383													15	8	---	---	---	---	
