Hugo_Symbol	Entrez_Gene_Id	Center	NCBI_Build	Chromosome	Start_position	End_position	Strand	Variant_Classification	Variant_Type	Reference_Allele	Tumor_Seq_Allele1	Tumor_Seq_Allele2	dbSNP_RS	dbSNP_Val_Status	Tumor_Sample_Barcode	Matched_Norm_Sample_Barcode	Match_Norm_Seq_Allele1	Match_Norm_Seq_Allele2	Tumor_Validation_Allele1	Tumor_Validation_Allele2	Match_Norm_Validation_Allele1	Match_Norm_Validation_Allele2	Verification_Status	Validation_Status	Mutation_Status	Sequencing_Phase	Sequence_Source	Validation_Method	Score	BAM_file	Sequencer	Tumor_Sample_UUID	Matched_Norm_Sample_UUID	Genome_Change	Annotation_Transcript	Transcript_Strand	Transcript_Exon	Transcript_Position	cDNA_Change	Codon_Change	Protein_Change	Other_Transcripts	Refseq_mRNA_Id	Refseq_prot_Id	SwissProt_acc_Id	SwissProt_entry_Id	Description	UniProt_AApos	UniProt_Region	UniProt_Site	UniProt_Natural_Variations	UniProt_Experimental_Info	GO_Biological_Process	GO_Cellular_Component	GO_Molecular_Function	COSMIC_overlapping_mutations	COSMIC_fusion_genes	COSMIC_tissue_types_affected	COSMIC_total_alterations_in_gene	Tumorscape_Amplification_Peaks	Tumorscape_Deletion_Peaks	TCGAscape_Amplification_Peaks	TCGAscape_Deletion_Peaks	DrugBank	ref_context	gc_content	CCLE_ONCOMAP_overlapping_mutations	CCLE_ONCOMAP_total_mutations_in_gene	CGC_Mutation_Type	CGC_Translocation_Partner	CGC_Tumor_Types_Somatic	CGC_Tumor_Types_Germline	CGC_Other_Diseases	DNARepairGenes_Role	FamilialCancerDatabase_Syndromes	MUTSIG_Published_Results	OREGANNO_ID	OREGANNO_Values	t_alt_count	t_ref_count	validation_status	validation_method	validation_tumor_sample	validation_alt_allele	filter
PLA2G2F	64600	broad.mit.edu	37	1	20474835	20474835	+	Missense_Mutation	SNP	C	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:20474835C>G	uc009vpp.1	+	5	675	c.577C>G	c.(577-579)CCG>GCG	p.P193A		NM_022819	NP_073730	Q9BZM2	PA2GF_HUMAN	phospholipase A2, group IIF	150					lipid catabolic process|phospholipid metabolic process	extracellular region	calcium ion binding|phospholipase A2 activity			ovary(1)	1		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000247)|Lung NSC(340;0.000285)|Breast(348;0.000812)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.018)|COAD - Colon adenocarcinoma(152;1.13e-05)|BRCA - Breast invasive adenocarcinoma(304;8.01e-05)|Kidney(64;0.00017)|GBM - Glioblastoma multiforme(114;0.000524)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.198)		CATCTATGAACCGCCCCCTGA	0.622													31	41	---	---	---	---	PASS
BAI2	576	broad.mit.edu	37	1	32201435	32201435	+	Missense_Mutation	SNP	A	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:32201435A>G	uc001btn.2	-	23	3614	c.3260T>C	c.(3259-3261)ATT>ACT	p.I1087T	BAI2_uc001btm.2_5'Flank|BAI2_uc001btp.1_5'UTR|BAI2_uc010ogn.1_Missense_Mutation_p.I90T|BAI2_uc010ogo.1_Missense_Mutation_p.I729T|BAI2_uc010ogp.1_Missense_Mutation_p.I1020T|BAI2_uc010ogq.1_Missense_Mutation_p.I1087T|BAI2_uc001bto.2_Missense_Mutation_p.I1087T	NM_001703	NP_001694	O60241	BAI2_HUMAN	brain-specific angiogenesis inhibitor 2	1087	Helical; Name=5; (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(5)|breast(4)|ovary(2)|central_nervous_system(1)|skin(1)	13		Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0606)|all_neural(195;0.0837)|Breast(348;0.174)		STAD - Stomach adenocarcinoma(196;0.0557)		TACCAGGACAATGACGGCTGC	0.637													6	5	---	---	---	---	PASS
ZSWIM5	57643	broad.mit.edu	37	1	45501739	45501739	+	Silent	SNP	C	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:45501739C>T	uc001cnd.2	-	9	2355	c.2127G>A	c.(2125-2127)CTG>CTA	p.L709L		NM_020883	NP_065934	Q9P217	ZSWM5_HUMAN	zinc finger, SWIM domain containing 5	709							zinc ion binding				0	Acute lymphoblastic leukemia(166;0.155)					ATTGTTTTTGCAGTGTTTGCA	0.512													39	49	---	---	---	---	PASS
LEPR	3953	broad.mit.edu	37	1	66102055	66102055	+	Missense_Mutation	SNP	C	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:66102055C>G	uc001dci.2	+	20	3057	c.2855C>G	c.(2854-2856)TCT>TGT	p.S952C	LEPR_uc009waq.2_3'UTR	NM_002303	NP_002294	P48357	LEPR_HUMAN	leptin receptor isoform 1	952	Cytoplasmic (Potential).				energy reserve metabolic process|multicellular organismal development	extracellular region|integral to membrane|plasma membrane	cytokine receptor activity			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(397;0.00722)|KIRC - Kidney renal clear cell carcinoma(1967;0.094)		GAAAAGGGTTCTGTTTGTATT	0.398													53	71	---	---	---	---	PASS
MCOLN3	55283	broad.mit.edu	37	1	85510898	85510898	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:85510898G>T	uc001dkp.2	-	2	239	c.146C>A	c.(145-147)CCC>CAC	p.P49H	MCOLN3_uc001dkq.2_Missense_Mutation_p.P49H|MCOLN3_uc001dkr.2_Missense_Mutation_p.P49H|MCOLN3_uc001dks.3_5'UTR	NM_018298	NP_060768	Q8TDD5	MCLN3_HUMAN	mucolipin 3	49						integral to membrane	ion channel activity			skin(1)	1				all cancers(265;0.00957)|Epithelial(280;0.0254)		CTTCTCACAGGGATTCATGAA	0.398													30	46	---	---	---	---	PASS
COL11A1	1301	broad.mit.edu	37	1	103364528	103364528	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:103364528G>T	uc001dul.2	-	55	4427	c.4109C>A	c.(4108-4110)GCA>GAA	p.A1370E	COL11A1_uc001duk.2_Missense_Mutation_p.A566E|COL11A1_uc001dum.2_Missense_Mutation_p.A1382E|COL11A1_uc001dun.2_Missense_Mutation_p.A1331E|COL11A1_uc009weh.2_Missense_Mutation_p.A1254E	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	1370	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		TCTTCCCTCTGCACCTGCAGC	0.264													34	65	---	---	---	---	PASS
AKNAD1	254268	broad.mit.edu	37	1	109380322	109380322	+	Silent	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:109380322C>A	uc001dwa.2	-	7	1655	c.1386G>T	c.(1384-1386)GTG>GTT	p.V462V	AKNAD1_uc010ovb.1_Silent_p.V169V|AKNAD1_uc001dwb.2_RNA	NM_152763	NP_689976	Q5T1N1	AKND1_HUMAN	hypothetical protein LOC254268	462	Potential.									ovary(3)	3						TTTCACCTTCCACTTTTCTAA	0.358													50	65	---	---	---	---	PASS
PEX11B	8799	broad.mit.edu	37	1	145522773	145522773	+	Missense_Mutation	SNP	G	C	C			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:145522773G>C	uc001eny.1	+	4	652	c.634G>C	c.(634-636)GTC>CTC	p.V212L	NBPF10_uc001emp.3_Intron|PEX11B_uc010oyu.1_Missense_Mutation_p.V198L|ITGA10_uc001enz.1_5'Flank|ITGA10_uc001eoa.2_5'Flank|ITGA10_uc010oyv.1_5'Flank|ITGA10_uc009wiw.2_5'Flank	NM_003846	NP_003837	O96011	PX11B_HUMAN	peroxisomal biogenesis factor 11 beta	212	Interaction with PEX19 and peroxisome targeting.				peroxisome fission|signal transduction	integral to peroxisomal membrane	protein binding				0	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					GCTAGACGTGGTCAGAAATGC	0.577													46	140	---	---	---	---	PASS
NBPF14	25832	broad.mit.edu	37	1	148004764	148004764	+	Silent	SNP	T	C	C			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:148004764T>C	uc001eqq.2	-	22	2567	c.2550A>G	c.(2548-2550)GAA>GAG	p.E850E	LOC200030_uc010ozz.1_Intron|LOC200030_uc001eqe.2_Intron|LOC200030_uc001eqf.2_Intron|LOC200030_uc001eqg.2_Intron|FLJ39739_uc001eqo.1_Intron|NBPF14_uc010pab.1_Silent_p.E198E|NBPF14_uc010pac.1_Silent_p.E423E	NM_015383	NP_056198	Q5TI25	NBPFE_HUMAN	hypothetical protein LOC25832	850	NBPF 10.					cytoplasm				ovary(1)	1	all_hematologic(923;0.032)					CTTCAGGCTCTTCCACTTCCA	0.453													78	71	---	---	---	---	PASS
FLG	2312	broad.mit.edu	37	1	152284056	152284056	+	Silent	SNP	G	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:152284056G>A	uc001ezu.1	-	3	3342	c.3306C>T	c.(3304-3306)TCC>TCT	p.S1102S	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	1102	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			AGTCACGTGCGGACTCTTGGT	0.577									Ichthyosis				275	395	---	---	---	---	PASS
NUP210L	91181	broad.mit.edu	37	1	154090312	154090312	+	Missense_Mutation	SNP	T	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:154090312T>A	uc001fdw.2	-	12	1581	c.1509A>T	c.(1507-1509)GAA>GAT	p.E503D	NUP210L_uc009woq.2_5'UTR|NUP210L_uc010peh.1_Missense_Mutation_p.E503D	NM_207308	NP_997191	Q5VU65	P210L_HUMAN	nucleoporin 210kDa-like isoform 1	503						integral to membrane				skin(5)|ovary(4)|large_intestine(1)|central_nervous_system(1)	11	all_lung(78;9.35e-31)|Lung NSC(65;1.33e-28)|Hepatocellular(266;0.0877)|Melanoma(130;0.128)		LUSC - Lung squamous cell carcinoma(543;0.151)|Colorectal(543;0.198)			TGACCACTGTTTCATTAGAAG	0.413													47	139	---	---	---	---	PASS
AQP10	89872	broad.mit.edu	37	1	154295502	154295502	+	Nonsense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:154295502G>T	uc001feu.2	+	3	317	c.277G>T	c.(277-279)GGA>TGA	p.G93*	AQP10_uc001fev.2_Nonsense_Mutation_p.G93*|ATP8B2_uc001few.2_5'Flank	NM_080429	NP_536354	Q96PS8	AQP10_HUMAN	aquaporin 10	93	Cytoplasmic (Potential).				response to toxin|transmembrane transport|water transport	integral to membrane|plasma membrane	transporter activity			central_nervous_system(1)	1	all_lung(78;2.62e-30)|Lung NSC(65;3.94e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			GTGCATCGTTGGACGCCTCCC	0.458													109	152	---	---	---	---	PASS
DCST2	127579	broad.mit.edu	37	1	154999173	154999173	+	Missense_Mutation	SNP	A	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:154999173A>T	uc001fgm.2	-	9	1441	c.1361T>A	c.(1360-1362)CTA>CAA	p.L454Q	DCST2_uc009wpb.2_RNA	NM_144622	NP_653223	Q5T1A1	DCST2_HUMAN	DC-STAMP domain containing 2	454	Extracellular (Potential).					integral to membrane				ovary(2)|central_nervous_system(1)	3	all_epithelial(22;2.77e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			TTCCACGGTTAGAGACACCAA	0.502													30	44	---	---	---	---	PASS
OR10R2	343406	broad.mit.edu	37	1	158450135	158450135	+	Missense_Mutation	SNP	G	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:158450135G>A	uc010pik.1	+	1	468	c.468G>A	c.(466-468)ATG>ATA	p.M156I	uc001fso.1_RNA	NM_001004472	NP_001004472	Q8NGX6	O10R2_HUMAN	olfactory receptor, family 10, subfamily R,	156	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(2)|skin(1)	3	all_hematologic(112;0.0378)					CCACTCTTATGAGCTGGCAGG	0.473													8	261	---	---	---	---	PASS
FCRL6	343413	broad.mit.edu	37	1	159785346	159785346	+	Silent	SNP	G	A	A	rs146819836		TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:159785346G>A	uc001fud.3	+	10	1242	c.1200G>A	c.(1198-1200)GCG>GCA	p.A400A	FCRL6_uc001fuc.2_Missense_Mutation_p.G406R|FCRL6_uc009wsz.1_Missense_Mutation_p.G304R|FCRL6_uc009wta.2_Missense_Mutation_p.G390R	NM_001004310	NP_001004310	Q6DN72	FCRL6_HUMAN	Fc receptor-like 6 precursor	400	Cytoplasmic (Potential).					integral to membrane				ovary(2)|skin(1)	3	all_hematologic(112;0.0597)					TCATCTGTGCGGAGGTGAGAT	0.522													78	97	---	---	---	---	PASS
ATP1A2	477	broad.mit.edu	37	1	160093036	160093036	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:160093036G>T	uc001fvc.2	+	4	343	c.211G>T	c.(211-213)GCT>TCT	p.A71S	ATP1A2_uc001fvb.2_Missense_Mutation_p.A71S|ATP1A2_uc010piz.1_5'Flank	NM_000702	NP_000693	P50993	AT1A2_HUMAN	Na+/K+ -ATPase alpha 2 subunit proprotein	71	Cytoplasmic (Potential).				ATP biosynthetic process		ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			central_nervous_system(3)|ovary(2)|skin(2)	7	all_cancers(52;1.11e-16)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)|LUSC - Lung squamous cell carcinoma(543;0.246)			GGACGTTCTGGCTCGAGATGG	0.637													101	105	---	---	---	---	PASS
C1orf111	284680	broad.mit.edu	37	1	162344289	162344289	+	Missense_Mutation	SNP	T	G	G	rs151080283		TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:162344289T>G	uc001gbx.2	-	3	399	c.335A>C	c.(334-336)GAG>GCG	p.E112A		NM_182581	NP_872387	Q5T0L3	CA111_HUMAN	hypothetical protein LOC284680	112										ovary(1)	1	all_hematologic(112;0.15)		BRCA - Breast invasive adenocarcinoma(70;0.0938)			GTCATAGGCCTCCAGCTGGCT	0.572													179	218	---	---	---	---	PASS
F5	2153	broad.mit.edu	37	1	169511813	169511813	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:169511813G>T	uc001ggg.1	-	13	2660	c.2515C>A	c.(2515-2517)CCT>ACT	p.P839T		NM_000130	NP_000121	P12259	FA5_HUMAN	coagulation factor V precursor	839	B.				cell adhesion|platelet activation|platelet degranulation	plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	all_hematologic(923;0.208)				Drotrecogin alfa(DB00055)	GGCTGTAGAGGATCCTCTATA	0.468													143	211	---	---	---	---	PASS
TNR	7143	broad.mit.edu	37	1	175348687	175348687	+	Splice_Site	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:175348687C>A	uc001gkp.1	-	7	2044	c.1963_splice	c.e7+1	p.D655_splice	TNR_uc009wwu.1_Splice_Site_p.D655_splice	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor						axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					GTCTTACTCACCTGTCAGGGT	0.537													51	62	---	---	---	---	PASS
PAPPA2	60676	broad.mit.edu	37	1	176640161	176640161	+	Missense_Mutation	SNP	T	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:176640161T>A	uc001gkz.2	+	4	3211	c.2047T>A	c.(2047-2049)TTC>ATC	p.F683I	PAPPA2_uc001gky.1_Missense_Mutation_p.F683I|PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	683	Metalloprotease.				cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						CAGTACTCACTTCCTCAACAT	0.512													165	232	---	---	---	---	PASS
ASTN1	460	broad.mit.edu	37	1	176927505	176927505	+	Missense_Mutation	SNP	A	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:176927505A>T	uc001glc.2	-	10	1924	c.1712T>A	c.(1711-1713)GTG>GAG	p.V571E	ASTN1_uc001glb.1_Missense_Mutation_p.V571E|ASTN1_uc001gld.1_Missense_Mutation_p.V571E|ASTN1_uc009wwx.1_Missense_Mutation_p.V571E	NM_004319	NP_004310	O14525	ASTN1_HUMAN	astrotactin isoform 1	579					cell migration|neuron cell-cell adhesion	integral to membrane				ovary(6)|skin(5)|central_nervous_system(2)|large_intestine(1)|lung(1)	15						ATCCTCCATCACAGTCATGTC	0.532													35	51	---	---	---	---	PASS
ASTN1	460	broad.mit.edu	37	1	177001749	177001749	+	Silent	SNP	T	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:177001749T>G	uc001glc.2	-	3	920	c.708A>C	c.(706-708)ACA>ACC	p.T236T	ASTN1_uc001glb.1_Silent_p.T236T|ASTN1_uc001gld.1_Silent_p.T236T|ASTN1_uc009wwx.1_Silent_p.T236T|ASTN1_uc001gle.3_RNA	NM_004319	NP_004310	O14525	ASTN1_HUMAN	astrotactin isoform 1	236					cell migration|neuron cell-cell adhesion	integral to membrane				ovary(6)|skin(5)|central_nervous_system(2)|large_intestine(1)|lung(1)	15						CCAGGATAGGTGTCTCCCGGA	0.617													33	115	---	---	---	---	PASS
FAM5B	57795	broad.mit.edu	37	1	177225213	177225213	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:177225213G>T	uc001glf.2	+	3	740	c.428G>T	c.(427-429)GGC>GTC	p.G143V	FAM5B_uc010pna.1_5'UTR|FAM5B_uc001glg.2_5'Flank	NM_021165	NP_066988	Q9C0B6	FAM5B_HUMAN	family with sequence similarity 5, member B	143						extracellular region				skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6						AAAAAGTACGGCACTCATTTC	0.448											OREG0014006	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	63	71	---	---	---	---	PASS
KCNT2	343450	broad.mit.edu	37	1	196434448	196434448	+	Missense_Mutation	SNP	T	C	C			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:196434448T>C	uc001gtd.1	-	8	673	c.613A>G	c.(613-615)ACA>GCA	p.T205A	KCNT2_uc009wyt.1_RNA|KCNT2_uc001gte.1_Missense_Mutation_p.T205A|KCNT2_uc001gtf.1_Missense_Mutation_p.T205A|KCNT2_uc001gtg.1_RNA|KCNT2_uc009wyu.2_Missense_Mutation_p.T205A|KCNT2_uc009wyv.1_Missense_Mutation_p.T180A	NM_198503	NP_940905	Q6UVM3	KCNT2_HUMAN	potassium channel, subfamily T, member 2	205	Helical; Name=Segment S5; (Potential).					voltage-gated potassium channel complex	ATP binding|calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(5)|breast(1)|skin(1)	7						CATAGTAATGTAGATATTAAA	0.264													43	157	---	---	---	---	PASS
CRB1	23418	broad.mit.edu	37	1	197403908	197403908	+	Missense_Mutation	SNP	A	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:197403908A>G	uc001gtz.2	+	9	3050	c.2915A>G	c.(2914-2916)GAA>GGA	p.E972G	CRB1_uc010poz.1_Missense_Mutation_p.E948G|CRB1_uc010ppa.1_RNA|CRB1_uc009wza.2_Missense_Mutation_p.E860G|CRB1_uc010ppb.1_Intron|CRB1_uc010ppd.1_Missense_Mutation_p.E453G|CRB1_uc001gub.1_Missense_Mutation_p.E621G	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	972	Extracellular (Potential).|Laminin G-like 3.				cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						ATTACCAGAGAACTCACCAAT	0.323													74	131	---	---	---	---	PASS
LHX9	56956	broad.mit.edu	37	1	197898178	197898178	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:197898178G>T	uc001guk.1	+	5	1420	c.983G>T	c.(982-984)CGG>CTG	p.R328L	LHX9_uc001gui.1_Missense_Mutation_p.R319L|LHX9_uc001guj.1_Intron	NM_020204	NP_064589	Q9NQ69	LHX9_HUMAN	LIM homeobox 9 isoform 1	328					motor axon guidance|negative regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)	1						AACCTTTTGCGGCAGGAGAAT	0.507													49	48	---	---	---	---	PASS
USH2A	7399	broad.mit.edu	37	1	216465515	216465515	+	Splice_Site	SNP	A	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:216465515A>T	uc001hku.1	-	10	2227	c.1840_splice	c.e10+1	p.G614_splice	USH2A_uc001hkv.2_Splice_Site_p.G614_splice	NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B						maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TTTGCTACTTACCTGTAGTGT	0.383										HNSCC(13;0.011)			53	182	---	---	---	---	PASS
ESRRG	2104	broad.mit.edu	37	1	216850647	216850647	+	Silent	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:216850647C>A	uc001hkw.1	-	2	409	c.243G>T	c.(241-243)TCG>TCT	p.S81S	ESRRG_uc001hky.1_Silent_p.S58S|ESRRG_uc009xdp.1_Silent_p.S58S|ESRRG_uc001hkz.1_Silent_p.S58S|ESRRG_uc010puc.1_Silent_p.S58S|ESRRG_uc001hla.1_Silent_p.S58S|ESRRG_uc001hlb.1_Silent_p.S58S|ESRRG_uc010pud.1_Intron|ESRRG_uc001hlc.1_Silent_p.S58S|ESRRG_uc001hld.1_Silent_p.S58S|ESRRG_uc001hkx.1_Silent_p.S86S|ESRRG_uc009xdo.1_Silent_p.S58S|ESRRG_uc001hle.1_Silent_p.S58S	NM_001438	NP_001429	P62508	ERR3_HUMAN	estrogen-related receptor gamma isoform 1	81					positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	AF-2 domain binding|retinoic acid receptor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding	p.S81L(1)		ovary(1)|kidney(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0358)|all cancers(67;0.0693)|GBM - Glioblastoma multiforme(131;0.0713)	Diethylstilbestrol(DB00255)	AGAGAGGTGGCGAGTCAAGTC	0.562													66	105	---	---	---	---	PASS
TARBP1	6894	broad.mit.edu	37	1	234563324	234563324	+	Silent	SNP	T	C	C			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:234563324T>C	uc001hwd.2	-	18	3249	c.3249A>G	c.(3247-3249)CAA>CAG	p.Q1083Q		NM_005646	NP_005637	Q13395	TARB1_HUMAN	TAR RNA binding protein 1	1083					regulation of transcription from RNA polymerase II promoter|RNA processing	nucleus	RNA binding|RNA methyltransferase activity			ovary(2)|skin(1)	3	Ovarian(103;0.0339)	all_cancers(173;0.00995)|Prostate(94;0.0115)|all_epithelial(177;0.172)	OV - Ovarian serous cystadenocarcinoma(106;0.000263)			TCTTTTACCTTTGATCACGCC	0.338													13	54	---	---	---	---	PASS
RYR2	6262	broad.mit.edu	37	1	237617780	237617780	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:237617780G>T	uc001hyl.1	+	15	1502	c.1382G>T	c.(1381-1383)GGC>GTC	p.G461V		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	461	Cytoplasmic (By similarity).				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			GATCTCATTGGCTACTTCCAC	0.483													29	90	---	---	---	---	PASS
RYR2	6262	broad.mit.edu	37	1	237632428	237632428	+	Missense_Mutation	SNP	A	C	C			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:237632428A>C	uc001hyl.1	+	17	1769	c.1649A>C	c.(1648-1650)CAA>CCA	p.Q550P		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	550	Cytoplasmic (By similarity).				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			AACTGTGCTCAATTTTCTGGC	0.383													33	90	---	---	---	---	PASS
RYR2	6262	broad.mit.edu	37	1	237753131	237753131	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:237753131G>T	uc001hyl.1	+	30	3757	c.3637G>T	c.(3637-3639)GGT>TGT	p.G1213C		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1213	Cytoplasmic (By similarity).|4 X approximate repeats.|B30.2/SPRY 2.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			GGCTCAAGTGGGTAGGATGAA	0.393													15	54	---	---	---	---	PASS
CHRM3	1131	broad.mit.edu	37	1	240071955	240071955	+	Nonsense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:240071955G>T	uc001hyp.2	+	5	1983	c.1204G>T	c.(1204-1206)GAG>TAG	p.E402*		NM_000740	NP_000731	P20309	ACM3_HUMAN	cholinergic receptor, muscarinic 3	402	Cytoplasmic (By similarity).				cell proliferation|energy reserve metabolic process|nervous system development|protein modification process|regulation of insulin secretion	basolateral plasma membrane|cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|phosphatidylinositol phospholipase C activity			ovary(4)|skin(1)	5	Ovarian(103;0.127)	all_cancers(173;0.00567)|all_neural(198;0.203)	OV - Ovarian serous cystadenocarcinoma(106;0.00989)		Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Cevimeline(DB00185)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Darifenacin(DB00496)|Diphemanil Methylsulfate(DB00729)|Diphenidol(DB01231)|Homatropine Methylbromide(DB00725)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Solifenacin(DB01591)|Thiethylperazine(DB00372)|Tiotropium(DB01409)|Tolterodine(DB01036)|Tridihexethyl(DB00505)	GGTGGACTTGGAGAGGAAAGC	0.572													11	23	---	---	---	---	PASS
FMN2	56776	broad.mit.edu	37	1	240256749	240256749	+	Missense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:240256749C>A	uc010pyd.1	+	1	1565	c.1340C>A	c.(1339-1341)CCG>CAG	p.P447Q	FMN2_uc010pye.1_Missense_Mutation_p.P447Q	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	447					actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			AAGAGGCGGCCGGAACCCTCC	0.687													38	65	---	---	---	---	PASS
RGS7	6000	broad.mit.edu	37	1	241099906	241099906	+	Silent	SNP	C	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:241099906C>G	uc001hyv.2	-	5	657	c.327G>C	c.(325-327)CGG>CGC	p.R109R	RGS7_uc010pyh.1_Silent_p.R83R|RGS7_uc010pyj.1_Silent_p.R25R|RGS7_uc001hyu.2_Silent_p.R109R|RGS7_uc009xgn.1_Intron|RGS7_uc001hyw.2_Silent_p.R109R	NM_002924	NP_002915	P49802	RGS7_HUMAN	regulator of G-protein signaling 7	109	DEP.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|protein binding|signal transducer activity			ovary(4)|skin(2)|kidney(1)	7		all_cancers(173;0.0131)	OV - Ovarian serous cystadenocarcinoma(106;0.027)			TTACTTGAAACCGGTAAAAGG	0.393													20	129	---	---	---	---	PASS
NLRP3	114548	broad.mit.edu	37	1	247582221	247582221	+	Missense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:247582221C>A	uc001icr.2	+	3	263	c.125C>A	c.(124-126)CCG>CAG	p.P42Q	NLRP3_uc001ics.2_Missense_Mutation_p.P42Q|NLRP3_uc001icu.2_Missense_Mutation_p.P42Q|NLRP3_uc001icw.2_Missense_Mutation_p.P42Q|NLRP3_uc001icv.2_Missense_Mutation_p.P42Q|NLRP3_uc010pyw.1_Missense_Mutation_p.P40Q|NLRP3_uc001ict.1_Missense_Mutation_p.P40Q	NM_001079821	NP_001073289	Q96P20	NALP3_HUMAN	NLR family, pyrin domain containing 3 isoform a	42	DAPIN.				detection of biotic stimulus|induction of apoptosis|inflammatory response|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|positive regulation of interleukin-1 beta secretion|protein oligomerization|signal transduction	cytoplasm	ATP binding|peptidoglycan binding|protein binding			lung(8)|skin(8)|ovary(7)|upper_aerodigestive_tract(1)|breast(1)|pancreas(1)	26	all_cancers(71;9.66e-05)|all_epithelial(71;1.85e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.0172)	OV - Ovarian serous cystadenocarcinoma(106;0.0141)			ATCCCCCTCCCGAGGGGTCAG	0.557													28	29	---	---	---	---	PASS
OR2W5	441932	broad.mit.edu	37	1	247655125	247655125	+	Missense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:247655125C>A	uc001icz.1	+	1	696	c.696C>A	c.(694-696)AGC>AGA	p.S232R		NM_001004698	NP_001004698	A6NFC9	OR2W5_HUMAN	olfactory receptor, family 2, subfamily W,	232					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|skin(1)	3	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.222)	OV - Ovarian serous cystadenocarcinoma(106;0.0188)			AAGTCAGCAGCAGGGCGAAAG	0.582													99	148	---	---	---	---	PASS
OR6F1	343169	broad.mit.edu	37	1	247875325	247875325	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:247875325G>T	uc001idj.1	-	1	733	c.733C>A	c.(733-735)CTC>ATC	p.L245I		NM_001005286	NP_001005286	Q8NGZ6	OR6F1_HUMAN	olfactory receptor, family 6, subfamily F,	245	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.0168)			ACCACGGTGAGATGCGAGGAG	0.532													92	105	---	---	---	---	PASS
OR2AK2	391191	broad.mit.edu	37	1	248129572	248129572	+	Silent	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:248129572G>T	uc010pzd.1	+	1	939	c.939G>T	c.(937-939)ACG>ACT	p.T313T	OR2L13_uc001ids.2_Intron	NM_001004491	NP_001004491	Q8NG84	O2AK2_HUMAN	olfactory receptor, family 2, subfamily AK,	313	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0152)			AGGAAGTGACGGGGGCAGTGA	0.433													53	90	---	---	---	---	PASS
OR2L2	26246	broad.mit.edu	37	1	248202388	248202388	+	Silent	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:248202388G>T	uc001idw.2	+	1	915	c.819G>T	c.(817-819)CTG>CTT	p.L273L	OR2L13_uc001ids.2_Intron	NM_001004686	NP_001004686	Q8NH16	OR2L2_HUMAN	olfactory receptor, family 2, subfamily L,	273	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0278)			ACAAGATTCTGGCTGTTTTCT	0.493													78	99	---	---	---	---	PASS
OR2T4	127074	broad.mit.edu	37	1	248525408	248525408	+	Missense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:248525408C>A	uc001ieh.1	+	1	526	c.526C>A	c.(526-528)CTG>ATG	p.L176M		NM_001004696	NP_001004696	Q8NH00	OR2T4_HUMAN	olfactory receptor, family 2, subfamily T,	176	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			GTGTCTCTTCCTGTCATCAGG	0.532													85	294	---	---	---	---	PASS
OR2T4	127074	broad.mit.edu	37	1	248525824	248525824	+	Silent	SNP	T	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:248525824T>A	uc001ieh.1	+	1	942	c.942T>A	c.(940-942)ACT>ACA	p.T314T		NM_001004696	NP_001004696	Q8NH00	OR2T4_HUMAN	olfactory receptor, family 2, subfamily T,	314	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CCATCCTCACTCCAGTGGTGA	0.468													75	230	---	---	---	---	PASS
OR2T34	127068	broad.mit.edu	37	1	248737519	248737519	+	Silent	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr1:248737519C>A	uc001iep.1	-	1	540	c.540G>T	c.(538-540)CTG>CTT	p.L180L		NM_001001821	NP_001001821	Q8NGX1	O2T34_HUMAN	olfactory receptor, family 2, subfamily T,	180	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			AGAAAAAACTCAGGATTTTCC	0.512													31	160	---	---	---	---	PASS
GREB1	9687	broad.mit.edu	37	2	11767094	11767094	+	Missense_Mutation	SNP	G	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:11767094G>A	uc002rbk.1	+	25	4613	c.4313G>A	c.(4312-4314)GGG>GAG	p.G1438E	GREB1_uc002rbp.1_Missense_Mutation_p.G436E	NM_014668	NP_055483	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	1438						integral to membrane				ovary(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.186)		GCAGACAGAGGGATGTCCCGG	0.517													24	54	---	---	---	---	PASS
LPIN1	23175	broad.mit.edu	37	2	11927241	11927241	+	Missense_Mutation	SNP	G	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:11927241G>A	uc010yjn.1	+	11	1757	c.1483G>A	c.(1483-1485)GAC>AAC	p.D495N	LPIN1_uc010yjm.1_Missense_Mutation_p.D580N|LPIN1_uc002rbt.2_Missense_Mutation_p.D495N|LPIN1_uc010yjo.1_5'UTR	NM_145693	NP_663731	Q14693	LPIN1_HUMAN	lipin 1	495					fatty acid catabolic process|transcription, DNA-dependent|triglyceride biosynthetic process|triglyceride mobilization	cytosol|endoplasmic reticulum membrane	phosphatidate phosphatase activity			ovary(2)|large_intestine(1)|skin(1)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.11)|OV - Ovarian serous cystadenocarcinoma(76;0.173)		ACAGTTTGTGGACAACCCCGC	0.408													47	108	---	---	---	---	PASS
PREB	10113	broad.mit.edu	37	2	27355472	27355472	+	Silent	SNP	T	G	G	rs142871408		TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:27355472T>G	uc002rix.1	-	5	1004	c.751A>C	c.(751-753)AGG>CGG	p.R251R	PREB_uc002riy.1_Silent_p.R179R|PREB_uc002riz.1_RNA|PREB_uc002rja.1_Missense_Mutation_p.S251R	NM_013388	NP_037520	Q9HCU5	PREB_HUMAN	prolactin regulatory element binding protein	251	Cytoplasmic (Potential).				COPII vesicle coating|post-translational protein modification|protein N-linked glycosylation via asparagine|protein transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	endoplasmic reticulum membrane|integral to membrane|nucleus	DNA binding|guanyl-nucleotide exchange factor activity|protein binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TCTTCACACCTGCAGGCCTGG	0.567													8	51	---	---	---	---	PASS
UCN	7349	broad.mit.edu	37	2	27530406	27530406	+	Missense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:27530406C>A	uc002rjp.1	-	2	474	c.358G>T	c.(358-360)GAC>TAC	p.D120Y		NM_003353	NP_003344	P55089	UCN1_HUMAN	urocortin preproprotein	120						extracellular region	neuropeptide hormone activity				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CCCACCGAGTCGAATATGATG	0.647													13	46	---	---	---	---	PASS
STRN	6801	broad.mit.edu	37	2	37121150	37121150	+	Missense_Mutation	SNP	G	C	C			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:37121150G>C	uc002rpn.2	-	7	831	c.822C>G	c.(820-822)GAC>GAG	p.D274E	STRN_uc010ezx.2_Missense_Mutation_p.D274E	NM_003162	NP_003153	O43815	STRN_HUMAN	striatin, calmodulin binding protein	274					dendrite development|locomotory behavior|negative regulation of cell proliferation|tight junction assembly|Wnt receptor signaling pathway	cytoplasm|dendritic spine|neuronal cell body|postsynaptic density|postsynaptic membrane|tight junction	armadillo repeat domain binding|calmodulin binding|estrogen receptor binding|protein complex binding|protein phosphatase 2A binding			skin(1)	1		Ovarian(717;0.0129)|all_hematologic(82;0.21)				CTTCACCGCTGTCAGGCAATG	0.353													30	143	---	---	---	---	PASS
SIX3	6496	broad.mit.edu	37	2	45169617	45169617	+	Missense_Mutation	SNP	T	C	C			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:45169617T>C	uc002run.1	+	1	581	c.374T>C	c.(373-375)ATC>ACC	p.I125T		NM_005413	NP_005404	O95343	SIX3_HUMAN	SIX homeobox 3	125					visual perception	nucleus					0		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				TGCGAGGCCATCAACAAACAC	0.672													8	15	---	---	---	---	PASS
STON1-GTF2A1L	286749	broad.mit.edu	37	2	48873622	48873622	+	Missense_Mutation	SNP	T	C	C			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:48873622T>C	uc010yol.1	+	5	2437	c.2390T>C	c.(2389-2391)ATG>ACG	p.M797T	STON1-GTF2A1L_uc002rwp.1_Missense_Mutation_p.M844T|GTF2A1L_uc002rws.1_Missense_Mutation_p.M140T|GTF2A1L_uc010yom.1_Missense_Mutation_p.M106T|GTF2A1L_uc002rwt.2_Missense_Mutation_p.M140T	NM_006873	NP_006864	B7ZL16	B7ZL16_HUMAN	stonin 1	797					endocytosis|intracellular protein transport|transcription initiation from RNA polymerase II promoter	clathrin adaptor complex|transcription factor TFIIA complex				ovary(3)|pancreas(1)|skin(1)	5		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			GTACCAATTATGGTGACAGAG	0.353													27	90	---	---	---	---	PASS
C2orf86	51057	broad.mit.edu	37	2	63631375	63631375	+	Silent	SNP	G	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:63631375G>A	uc002sch.2	-	10	1689	c.1243C>T	c.(1243-1245)CTG>TTG	p.L415L	C2orf86_uc002sce.2_RNA|C2orf86_uc002scf.2_Silent_p.L256L|C2orf86_uc010ypu.1_RNA|C2orf86_uc002scg.2_Silent_p.L223L|C2orf86_uc002sci.1_Silent_p.L391L|C2orf86_uc010fcr.1_Silent_p.L305L	NM_015910	NP_056994	O95876	FRITZ_HUMAN	hypothetical protein LOC51057 isoform 2	415					cilium morphogenesis|regulation of embryonic cell shape|regulation of protein localization|septin cytoskeleton organization	cilium axoneme|cytoplasm|cytoskeleton|plasma membrane					0						TCAGCCAACAGTTGGATGTTA	0.453													18	99	---	---	---	---	PASS
TACR1	6869	broad.mit.edu	37	2	75276594	75276594	+	Nonsense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:75276594C>A	uc002sng.2	-	5	1774	c.1189G>T	c.(1189-1191)GAG>TAG	p.E397*		NM_001058	NP_001049	P25103	NK1R_HUMAN	tachykinin receptor 1 isoform long	397	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|detection of abiotic stimulus|mechanosensory behavior	integral to plasma membrane	protein binding			ovary(1)	1					Aprepitant(DB00673)|Ketamine(DB01221)|Vapreotide(DB04894)	CTGAAGCTCTCTGTCATGGTC	0.607													10	82	---	---	---	---	PASS
REG3A	5068	broad.mit.edu	37	2	79385494	79385494	+	Missense_Mutation	SNP	G	C	C			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:79385494G>C	uc002sod.1	-	3	546	c.291C>G	c.(289-291)AAC>AAG	p.N97K	REG3A_uc002soe.1_Missense_Mutation_p.N97K|REG3A_uc002sof.1_Missense_Mutation_p.N97K	NM_138938	NP_620355	Q06141	REG3A_HUMAN	pancreatitis-associated protein precursor	97	C-type lectin.				acute-phase response|cell proliferation|heterophilic cell-cell adhesion|multicellular organismal development	cytoplasm|extracellular space|soluble fraction	sugar binding			skin(1)	1						ATGAGTAGCTGTTACCAATGC	0.572													15	62	---	---	---	---	PASS
REG3A	5068	broad.mit.edu	37	2	79385570	79385570	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:79385570G>T	uc002sod.1	-	3	470	c.215C>A	c.(214-216)CCC>CAC	p.P72H	REG3A_uc002soe.1_Missense_Mutation_p.P72H|REG3A_uc002sof.1_Missense_Mutation_p.P72H	NM_138938	NP_620355	Q06141	REG3A_HUMAN	pancreatitis-associated protein precursor	72	C-type lectin.				acute-phase response|cell proliferation|heterophilic cell-cell adhesion|multicellular organismal development	cytoplasm|extracellular space|soluble fraction	sugar binding			skin(1)	1						GTTTCCAGAGGGCCGCTTCTG	0.582													11	64	---	---	---	---	PASS
RMND5A	64795	broad.mit.edu	37	2	86947815	86947815	+	Missense_Mutation	SNP	C	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:86947815C>T	uc010ytm.1	+	1	402	c.25C>T	c.(25-27)CGC>TGC	p.R9C	RMND5A_uc002srs.3_5'UTR|VPS24_uc010ytl.1_Intron|RMND5A_uc002srr.2_Missense_Mutation_p.R9C	NM_022780	NP_073617	Q9H871	RMD5A_HUMAN	required for meiotic nuclear division 5 homolog	9										ovary(1)|skin(1)	2						GACGGTGGAGCGCGAGCTGGA	0.716													4	4	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	2	89266205	89266205	+	RNA	SNP	G	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:89266205G>A	uc010ytr.1	-	94		c.7487C>T			uc002stl.2_Intron					Parts of antibodies, mostly variable regions.																		ATCCTTACCTGGGAGCCAGAG	0.557													35	175	---	---	---	---	PASS
ZNF514	84874	broad.mit.edu	37	2	95815218	95815218	+	Missense_Mutation	SNP	G	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:95815218G>A	uc002sue.1	-	5	1386	c.1012C>T	c.(1012-1014)CAT>TAT	p.H338Y	ZNF514_uc002sud.1_Missense_Mutation_p.H411Y	NM_032788	NP_116177	Q96K75	ZN514_HUMAN	zinc finger protein 514	338	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TCTCCAGTATGAAATCTGTAA	0.438													32	53	---	---	---	---	PASS
LOC285033	285033	broad.mit.edu	37	2	96906157	96906157	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:96906157G>T	uc002svp.1	+	1	181	c.96G>T	c.(94-96)ATG>ATT	p.M32I	LOC285033_uc002svn.2_RNA|LOC285033_uc002svo.2_Intron	NM_001037228	NP_001032305	Q3KRF4	Q3KRF4_HUMAN	hypothetical protein LOC285033	32											0						AACTCCTCATGGAAGCATCTG	0.443													28	65	---	---	---	---	PASS
SNRNP200	23020	broad.mit.edu	37	2	96961333	96961333	+	Missense_Mutation	SNP	C	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:96961333C>T	uc002svu.2	-	14	1821	c.1735G>A	c.(1735-1737)GAG>AAG	p.E579K		NM_014014	NP_054733	O75643	U520_HUMAN	activating signal cointegrator 1 complex subunit	579	Helicase ATP-binding 1.					catalytic step 2 spliceosome|nucleoplasm|U5 snRNP	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			ovary(5)|skin(4)|large_intestine(1)	10						GCACTGATCTCTTCTTTGCAC	0.567													33	52	---	---	---	---	PASS
ZAP70	7535	broad.mit.edu	37	2	98351892	98351892	+	Missense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:98351892C>A	uc002syd.1	+	10	1469	c.1262C>A	c.(1261-1263)CCG>CAG	p.P421Q	ZAP70_uc010yvf.1_3'UTR|ZAP70_uc002sye.1_Missense_Mutation_p.P311Q|ZAP70_uc002syf.1_Missense_Mutation_p.P114Q	NM_001079	NP_001070	P43403	ZAP70_HUMAN	zeta-chain associated protein kinase 70kDa	421	Protein kinase.				immune response|intracellular protein kinase cascade|positive thymic T cell selection|T cell receptor signaling pathway	cytosol|T cell receptor complex	ATP binding|non-membrane spanning protein tyrosine kinase activity			lung(4)|upper_aerodigestive_tract(1)|ovary(1)	6						GGGGGCGGGCCGCTGCACAAG	0.682													35	63	---	---	---	---	PASS
SLC9A4	389015	broad.mit.edu	37	2	103142801	103142801	+	Missense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:103142801C>A	uc002tbz.3	+	11	2491	c.2034C>A	c.(2032-2034)TTC>TTA	p.F678L		NM_001011552	NP_001011552	Q6AI14	SL9A4_HUMAN	solute carrier family 9 (sodium/hydrogen	678	Cytoplasmic (Potential).				regulation of pH	apical plasma membrane|basolateral plasma membrane|integral to membrane	sodium:hydrogen antiporter activity			skin(2)|central_nervous_system(1)	3						CTGCTGGGTTCTCAGGTAAGC	0.388													12	139	---	---	---	---	PASS
POTEE	445582	broad.mit.edu	37	2	132020969	132020969	+	Missense_Mutation	SNP	A	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:132020969A>T	uc002tsn.2	+	15	1993	c.1941A>T	c.(1939-1941)GAA>GAT	p.E647D	PLEKHB2_uc002tsh.2_Intron|POTEE_uc002tsk.2_Missense_Mutation_p.E247D|POTEE_uc002tsl.2_Missense_Mutation_p.E229D|POTEE_uc010fmy.1_Missense_Mutation_p.E111D	NM_001083538	NP_001077007	Q6S8J3	POTEE_HUMAN	protein expressed in prostate, ovary, testis,	647	Potential.						ATP binding				0						TCTTGCATGAAAATAGTACGT	0.353													14	30	---	---	---	---	PASS
ZRANB3	84083	broad.mit.edu	37	2	135988481	135988481	+	Missense_Mutation	SNP	T	C	C			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:135988481T>C	uc002tum.2	-	13	1673	c.1556A>G	c.(1555-1557)CAG>CGG	p.Q519R	ZRANB3_uc002tuk.2_Missense_Mutation_p.Q62R|ZRANB3_uc002tul.2_Missense_Mutation_p.Q519R	NM_032143	NP_115519	Q5FWF4	ZRAB3_HUMAN	zinc finger, RAN-binding domain containing 3	519						intracellular	ATP binding|DNA binding|endonuclease activity|helicase activity|zinc ion binding			lung(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.135)		AATATCATGCTGTTTTTCTTT	0.323													31	33	---	---	---	---	PASS
THSD7B	80731	broad.mit.edu	37	2	138169316	138169316	+	Missense_Mutation	SNP	G	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:138169316G>A	uc002tva.1	+	13	2740	c.2740G>A	c.(2740-2742)GAG>AAG	p.E914K	THSD7B_uc010zbj.1_Intron|THSD7B_uc002tvb.2_Missense_Mutation_p.E804K	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		AGGCAGAAGGGAGCCTCACCG	0.478													23	140	---	---	---	---	PASS
RIF1	55183	broad.mit.edu	37	2	152314451	152314451	+	Missense_Mutation	SNP	G	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:152314451G>A	uc002txm.2	+	24	2959	c.2829G>A	c.(2827-2829)ATG>ATA	p.M943I	RIF1_uc002txl.2_Missense_Mutation_p.M943I|RIF1_uc002txn.2_Missense_Mutation_p.M943I|RIF1_uc002txo.2_Missense_Mutation_p.M943I	NM_018151	NP_060621	Q5UIP0	RIF1_HUMAN	RAP1 interacting factor 1	943					cell cycle|response to DNA damage stimulus	chromosome, telomeric region|cytoplasm|nucleus|spindle	binding			ovary(5)|breast(4)|skin(3)|lung(2)|kidney(1)	15				BRCA - Breast invasive adenocarcinoma(221;0.0429)		CCAAAGTGATGATGTTGGTTT	0.323													18	58	---	---	---	---	PASS
RBMS1	5937	broad.mit.edu	37	2	161223842	161223842	+	Missense_Mutation	SNP	T	C	C			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:161223842T>C	uc002ubo.2	-	2	580	c.136A>G	c.(136-138)AAC>GAC	p.N46D	RBMS1_uc002ubj.2_Missense_Mutation_p.N13D|RBMS1_uc002ubk.2_Missense_Mutation_p.N13D|RBMS1_uc002ubl.2_Missense_Mutation_p.N44D|RBMS1_uc002ubn.2_Missense_Mutation_p.N46D|RBMS1_uc002ubi.3_Missense_Mutation_p.N46D|RBMS1_uc002ubm.2_Missense_Mutation_p.N13D|RBMS1_uc002ubp.2_Missense_Mutation_p.N46D|RBMS1_uc010fox.2_Missense_Mutation_p.N46D	NM_016836	NP_058520	P29558	RBMS1_HUMAN	RNA binding motif, single stranded interacting	46					DNA replication|RNA processing	nucleus	double-stranded DNA binding|nucleotide binding|protein binding|RNA binding|single-stranded DNA binding				0						ctactgttgttattactgctg	0.443													34	48	---	---	---	---	PASS
SCN2A	6326	broad.mit.edu	37	2	166183402	166183402	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:166183402G>T	uc002udc.2	+	13	2347	c.2057G>T	c.(2056-2058)AGT>ATT	p.S686I	SCN2A_uc002udd.2_Missense_Mutation_p.S686I|SCN2A_uc002ude.2_Missense_Mutation_p.S686I	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	686					myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)	AGACGGTCCAGTTCTTATCAT	0.378													24	160	---	---	---	---	PASS
LRP2	4036	broad.mit.edu	37	2	170011089	170011089	+	Missense_Mutation	SNP	G	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:170011089G>A	uc002ues.2	-	66	12389	c.12176C>T	c.(12175-12177)CCT>CTT	p.P4059L		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	4059	Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	GACATTGTCAGGCAGTAGCAA	0.353													38	46	---	---	---	---	PASS
LRP2	4036	broad.mit.edu	37	2	170022552	170022552	+	Missense_Mutation	SNP	C	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:170022552C>T	uc002ues.2	-	62	11861	c.11648G>A	c.(11647-11649)TGT>TAT	p.C3883Y		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	3883	LDL-receptor class A 35.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	TGGTGAATTACAGGGAACATC	0.408													48	60	---	---	---	---	PASS
MYO3B	140469	broad.mit.edu	37	2	171509592	171509592	+	Silent	SNP	T	C	C			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:171509592T>C	uc002ufy.2	+	35	4130	c.3987T>C	c.(3985-3987)TTT>TTC	p.F1329F	MYO3B_uc002ufz.2_Silent_p.F1302F|MYO3B_uc002ufw.2_RNA|MYO3B_uc002ufx.2_RNA|MYO3B_uc002ugb.2_RNA|uc002ugc.1_Intron	NM_138995	NP_620482	Q8WXR4	MYO3B_HUMAN	myosin IIIB isoform 2	1329					response to stimulus|visual perception	cytoplasm|myosin complex	actin binding|ATP binding|motor activity|protein serine/threonine kinase activity			lung(8)|ovary(6)|skin(4)|central_nervous_system(1)	19						CTTCCTTTTTTTCTTCATCCT	0.418													15	163	---	---	---	---	PASS
NFE2L2	4780	broad.mit.edu	37	2	178098960	178098960	+	Missense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:178098960C>A	uc002ulh.3	-	2	640	c.85G>T	c.(85-87)GAT>TAT	p.D29Y	NFE2L2_uc002ulg.3_Missense_Mutation_p.D13Y|NFE2L2_uc010zfa.1_Missense_Mutation_p.D13Y|NFE2L2_uc002uli.3_Missense_Mutation_p.D13Y|NFE2L2_uc010fra.2_Missense_Mutation_p.D13Y|NFE2L2_uc010frb.2_Missense_Mutation_p.D13Y	NM_006164	NP_006155	Q16236	NF2L2_HUMAN	nuclear factor erythroid 2-like 2 isoform 1	29					transcription from RNA polymerase II promoter	centrosome|cytosol|nucleus|plasma membrane	protein dimerization activity|protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1			Epithelial(96;0.00442)|OV - Ovarian serous cystadenocarcinoma(117;0.00739)|all cancers(119;0.0195)|LUSC - Lung squamous cell carcinoma(2;0.036)|Lung(16;0.0935)			ACTCCAAGATCTATATCTTGC	0.363			Mis		NSCLC|HNSCC					HNSCC(56;0.16)			22	44	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179402140	179402140	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:179402140G>T	uc010zfg.1	-	304	92314	c.92090C>A	c.(92089-92091)GCT>GAT	p.A30697D	uc002umo.2_RNA|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.A24392D|TTN_uc010zfi.1_Missense_Mutation_p.A24325D|TTN_uc010zfj.1_Missense_Mutation_p.A24200D	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	31624							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GTATTTCCCAGCATGAGTCTT	0.353													18	31	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179614327	179614327	+	Missense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:179614327C>A	uc002unb.2	-	46	13024	c.12800G>T	c.(12799-12801)GGA>GTA	p.G4267V	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GGAATATTTTCCATAAATTTC	0.388													22	98	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179644883	179644883	+	Silent	SNP	T	C	C			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:179644883T>C	uc010zfg.1	-	22	3797	c.3573A>G	c.(3571-3573)ACA>ACG	p.T1191T	TTN_uc010zfh.1_Silent_p.T1145T|TTN_uc010zfi.1_Silent_p.T1145T|TTN_uc010zfj.1_Silent_p.T1145T|TTN_uc002unb.2_Silent_p.T1191T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	1191							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CAGTCACTTGTGTCTGATAAA	0.303													16	99	---	---	---	---	PASS
CCDC141	285025	broad.mit.edu	37	2	179720202	179720202	+	Missense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:179720202C>A	uc002unf.1	-	9	1264	c.1207G>T	c.(1207-1209)GAT>TAT	p.D403Y		NM_173648	NP_775919	Q6ZP82	CC141_HUMAN	coiled-coil domain containing 141	403							protein binding			ovary(7)|pancreas(2)|skin(1)	10			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.0531)|all cancers(119;0.147)			TTAACTTTATCACTTGGATAA	0.308													34	60	---	---	---	---	PASS
CWC22	57703	broad.mit.edu	37	2	180815461	180815461	+	Splice_Site	SNP	T	C	C			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:180815461T>C	uc010frh.1	-	19	2220	c.1920_splice	c.e19-1	p.T640_splice	CWC22_uc002uno.2_Splice_Site_p.T162_splice|CWC22_uc002unp.2_Splice_Site_p.T640_splice	NM_020943	NP_065994	Q9HCG8	CWC22_HUMAN	CWC22 spliceosome-associated protein homolog							catalytic step 2 spliceosome	protein binding|RNA binding				0						AGTTCATCCCTAATTTAAAAT	0.343													17	76	---	---	---	---	PASS
DNAH7	56171	broad.mit.edu	37	2	196851843	196851843	+	Silent	SNP	A	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:196851843A>G	uc002utj.3	-	14	1802	c.1701T>C	c.(1699-1701)ATT>ATC	p.I567I		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	567	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						GTTTCCCACAAATAATATCTG	0.328													48	72	---	---	---	---	PASS
PLCL1	5334	broad.mit.edu	37	2	198950673	198950673	+	Missense_Mutation	SNP	A	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:198950673A>T	uc010fsp.2	+	2	2723	c.2432A>T	c.(2431-2433)CAA>CTA	p.Q811L	PLCL1_uc002uuv.3_Missense_Mutation_p.Q732L	NM_001114661	NP_001108133	Q15111	PLCL1_HUMAN	RecName: Full=Inactive phospholipase C-like protein 1;          Short=PLC-L1; AltName: Full=Phospholipase C-deleted in lung carcinoma; AltName: Full=Phospholipase C-related but catalytically inactive protein;          Short=PRIP;	811	C2.				intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|skin(1)	2					Quinacrine(DB01103)	TTTATAGGGCAATATACGATA	0.438													60	76	---	---	---	---	PASS
FN1	2335	broad.mit.edu	37	2	216272842	216272842	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:216272842G>T	uc002vfa.2	-	17	2773	c.2507C>A	c.(2506-2508)GCT>GAT	p.A836D	FN1_uc002vfb.2_Missense_Mutation_p.A836D|FN1_uc002vfc.2_Missense_Mutation_p.A836D|FN1_uc002vfd.2_Missense_Mutation_p.A836D|FN1_uc002vfe.2_Missense_Mutation_p.A836D|FN1_uc002vff.2_Missense_Mutation_p.A836D|FN1_uc002vfg.2_Missense_Mutation_p.A836D|FN1_uc002vfh.2_Missense_Mutation_p.A836D|FN1_uc002vfi.2_Missense_Mutation_p.A836D|FN1_uc002vfj.2_Missense_Mutation_p.A836D	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	836	Fibronectin type-III 3.				acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TGTGATGGGAGCCTGGGGTCT	0.532													20	169	---	---	---	---	PASS
FN1	2335	broad.mit.edu	37	2	216293051	216293051	+	Silent	SNP	G	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:216293051G>A	uc002vfa.2	-	6	962	c.696C>T	c.(694-696)AAC>AAT	p.N232N	FN1_uc002vfb.2_Silent_p.N232N|FN1_uc002vfc.2_Silent_p.N232N|FN1_uc002vfd.2_Silent_p.N232N|FN1_uc002vfe.2_Silent_p.N232N|FN1_uc002vff.2_Silent_p.N232N|FN1_uc002vfg.2_Silent_p.N232N|FN1_uc002vfh.2_Silent_p.N232N|FN1_uc002vfi.2_Silent_p.N232N|FN1_uc002vfj.2_Silent_p.N232N|FN1_uc002vfl.2_Silent_p.N232N	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	232	Fibrin- and heparin-binding 1.|Fibronectin type-I 5.				acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TGTCCTGATCGTTGCATCTAT	0.468													41	45	---	---	---	---	PASS
FAM124B	79843	broad.mit.edu	37	2	225266253	225266253	+	Missense_Mutation	SNP	C	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:225266253C>T	uc002vnx.2	-	1	459	c.233G>A	c.(232-234)GGA>GAA	p.G78E	FAM124B_uc002vnw.2_Missense_Mutation_p.G78E	NM_001122779	NP_001116251	Q9H5Z6	F124B_HUMAN	hypothetical protein LOC79843 isoform a	78							protein binding			ovary(2)	2		Renal(207;0.0112)|all_lung(227;0.0126)|Lung NSC(271;0.0161)|all_hematologic(139;0.138)		Epithelial(121;4.4e-10)|all cancers(144;2.02e-07)|Lung(261;0.00766)|LUSC - Lung squamous cell carcinoma(224;0.00825)		CCTATCCTCTCCCGGGCTTTC	0.562													25	40	---	---	---	---	PASS
COL4A4	1286	broad.mit.edu	37	2	227895295	227895295	+	Silent	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:227895295G>T	uc010zlt.1	-	41	4491	c.3837C>A	c.(3835-3837)GGC>GGA	p.G1279G		NM_000092	NP_000083	P53420	CO4A4_HUMAN	alpha 4 type IV collagen precursor	1279	Triple-helical region.				axon guidance|glomerular basement membrane development	basal lamina|collagen type IV	extracellular matrix structural constituent|protein binding			ovary(5)|central_nervous_system(3)|pancreas(1)|breast(1)|skin(1)	11		Renal(207;0.00844)|all_lung(227;0.0187)|Lung NSC(271;0.0879)|all_hematologic(139;0.21)|Esophageal squamous(248;0.242)		Epithelial(121;6.7e-11)|all cancers(144;5.39e-08)|Lung(261;0.0132)|LUSC - Lung squamous cell carcinoma(224;0.0181)		TCCCAGGGAGGCCTGGAGGCC	0.552													11	89	---	---	---	---	PASS
UGT1A9	54600	broad.mit.edu	37	2	234581152	234581152	+	Missense_Mutation	SNP	C	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr2:234581152C>T	uc002vus.2	+	1	609	c.572C>T	c.(571-573)CCC>CTC	p.P191L	UGT1A8_uc010zmv.1_Intron|UGT1A8_uc002vup.2_Intron|UGT1A10_uc002vuq.3_Intron|UGT1A10_uc002vur.2_Intron|UGT1A9_uc010zmw.1_Missense_Mutation_p.P191L	NM_021027	NP_066307	O60656	UD19_HUMAN	UDP glycosyltransferase 1 family, polypeptide A9	191					drug metabolic process|flavone metabolic process|negative regulation of fatty acid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	enzyme binding|enzyme inhibitor activity|glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity|retinoic acid binding			ovary(3)|breast(1)|skin(1)	5		Breast(86;0.000766)|all_lung(227;0.00269)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0331)|Lung NSC(271;0.0459)|Lung SC(224;0.128)		Epithelial(121;1.26e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000436)|Lung(119;0.00347)|LUSC - Lung squamous cell carcinoma(224;0.00757)	Entacapone(DB00494)|Etodolac(DB00749)|Indomethacin(DB00328)|Irinotecan(DB00762)|Mycophenolic acid(DB01024)|Oxyphenonium(DB00219)|Propofol(DB00818)|Sorafenib(DB00398)	TCCTATGTCCCCAGAATTCTC	0.483													33	243	---	---	---	---	PASS
NUP210	23225	broad.mit.edu	37	3	13401854	13401854	+	Silent	SNP	G	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:13401854G>A	uc003bxv.1	-	15	2153	c.2070C>T	c.(2068-2070)ATC>ATT	p.I690I	NUP210_uc003bxx.2_Silent_p.I362I	NM_024923	NP_079199	Q8TEM1	PO210_HUMAN	nucleoporin 210 precursor	690	Lumenal (Probable).				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	endoplasmic reticulum membrane|nuclear membrane|nuclear pore				ovary(3)|large_intestine(3)|skin(3)|pancreas(1)|liver(1)	11	all_neural(104;0.187)					GAGCCAGGCCGATGCTGTCAG	0.572													10	33	---	---	---	---	PASS
ZNF620	253639	broad.mit.edu	37	3	40552985	40552985	+	Missense_Mutation	SNP	G	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:40552985G>A	uc003ckk.2	+	3	198	c.49G>A	c.(49-51)GCT>ACT	p.A17T	ZNF620_uc003ckl.2_Intron	NM_175888	NP_787084	Q6ZNG0	ZN620_HUMAN	zinc finger protein 620	17	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0519)|Kidney(284;0.0653)		TGAGGATGTGGCTGTGTACTT	0.517													5	149	---	---	---	---	PASS
FYCO1	79443	broad.mit.edu	37	3	46010092	46010092	+	Missense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:46010092C>A	uc003cpb.3	-	8	940	c.734G>T	c.(733-735)CGG>CTG	p.R245L	FYCO1_uc011bal.1_Missense_Mutation_p.R245L	NM_024513	NP_078789	Q9BQS8	FYCO1_HUMAN	FYVE and coiled-coil domain containing 1	245	Potential.				transport	integral to membrane	metal ion binding|protein binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00147)|KIRC - Kidney renal clear cell carcinoma(197;0.0272)|Kidney(197;0.0323)		CTGCTTCTCCCGCACCTCCAA	0.577													26	37	---	---	---	---	PASS
TRAIP	10293	broad.mit.edu	37	3	49881319	49881319	+	Missense_Mutation	SNP	C	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:49881319C>T	uc003cxs.1	-	5	429	c.323G>A	c.(322-324)CGG>CAG	p.R108Q	TRAIP_uc010hla.1_Missense_Mutation_p.R108Q|TRAIP_uc011bcx.1_Missense_Mutation_p.R108Q	NM_005879	NP_005870	Q9BWF2	TRAIP_HUMAN	TRAF interacting protein	108	Potential.				cell proliferation|induction of apoptosis	perinuclear region of cytoplasm	protein binding|zinc ion binding			lung(4)|upper_aerodigestive_tract(1)|ovary(1)	6				BRCA - Breast invasive adenocarcinoma(193;4.71e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		CAGCGTATCCCGCAGAGTGTC	0.562													48	75	---	---	---	---	PASS
FEZF2	55079	broad.mit.edu	37	3	62357341	62357341	+	Missense_Mutation	SNP	A	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:62357341A>T	uc003dlh.2	-	2	1061	c.854T>A	c.(853-855)GTG>GAG	p.V285E	FEZF2_uc003dli.2_Missense_Mutation_p.V285E	NM_018008	NP_060478	Q8TBJ5	FEZF2_HUMAN	FEZ family zinc finger 2	285	C2H2-type 1.				transcription, DNA-dependent	nucleus	zinc ion binding			lung(1)	1		Lung SC(41;0.0262)		BRCA - Breast invasive adenocarcinoma(55;0.000221)|KIRC - Kidney renal clear cell carcinoma(15;0.00834)|Kidney(15;0.00957)		AGCGTTAAACACCTATGGAAA	0.617													16	41	---	---	---	---	PASS
CADPS	8618	broad.mit.edu	37	3	62522216	62522216	+	Missense_Mutation	SNP	G	C	C			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:62522216G>C	uc003dll.2	-	12	2367	c.2007C>G	c.(2005-2007)ATC>ATG	p.I669M	CADPS_uc003dlk.1_Missense_Mutation_p.I173M|CADPS_uc003dlm.2_Missense_Mutation_p.I669M|CADPS_uc003dln.2_Missense_Mutation_p.I669M	NM_003716	NP_003707	Q9ULU8	CAPS1_HUMAN	Ca2+-dependent secretion activator isoform 1	669					exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|cytosol|synapse	lipid binding|metal ion binding			central_nervous_system(2)|ovary(1)	3		Lung SC(41;0.0452)		BRCA - Breast invasive adenocarcinoma(55;5.98e-05)|KIRC - Kidney renal clear cell carcinoma(15;0.0246)|Kidney(15;0.0334)		GGTTGGAAGAGATAAATTCAT	0.398													66	99	---	---	---	---	PASS
PDZRN3	23024	broad.mit.edu	37	3	73673863	73673863	+	Missense_Mutation	SNP	G	C	C			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:73673863G>C	uc003dpl.1	-	1	210	c.114C>G	c.(112-114)TGC>TGG	p.C38W		NM_015009	NP_055824	Q9UPQ7	PZRN3_HUMAN	PDZ domain containing ring finger 3	38	RING-type; degenerate.						ubiquitin-protein ligase activity|zinc ion binding			pancreas(2)|ovary(2)|skin(2)|large_intestine(1)	7		Prostate(10;0.114)|Lung NSC(201;0.187)|Lung SC(41;0.236)		BRCA - Breast invasive adenocarcinoma(55;0.00041)|Epithelial(33;0.0023)|LUSC - Lung squamous cell carcinoma(21;0.0048)|Lung(16;0.0105)|KIRC - Kidney renal clear cell carcinoma(39;0.111)|Kidney(39;0.134)		CGCAGCCGGCGCAGAAGACGT	0.716													3	1	---	---	---	---	PASS
ZNF654	55279	broad.mit.edu	37	3	88189750	88189750	+	Silent	SNP	C	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:88189750C>T	uc003dqv.2	+	1	1489	c.1290C>T	c.(1288-1290)GTC>GTT	p.V430V	CGGBP1_uc003dqu.2_Intron	NM_018293	NP_060763	Q8IZM8	ZN654_HUMAN	zinc finger protein 654	430					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Lung NSC(201;0.0283)		UCEC - Uterine corpus endometrioid carcinoma (27;0.194)|LUSC - Lung squamous cell carcinoma(29;0.00353)|Lung(72;0.00661)		GTGATATAGTCAATGGACACA	0.348													17	191	---	---	---	---	PASS
ZNF654	55279	broad.mit.edu	37	3	88189791	88189791	+	Nonsense_Mutation	SNP	C	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:88189791C>G	uc003dqv.2	+	1	1530	c.1331C>G	c.(1330-1332)TCA>TGA	p.S444*	CGGBP1_uc003dqu.2_Intron	NM_018293	NP_060763	Q8IZM8	ZN654_HUMAN	zinc finger protein 654	444					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Lung NSC(201;0.0283)		UCEC - Uterine corpus endometrioid carcinoma (27;0.194)|LUSC - Lung squamous cell carcinoma(29;0.00353)|Lung(72;0.00661)		TTAGTTTCATCAGATCCTGCT	0.373													16	196	---	---	---	---	PASS
ZNF654	55279	broad.mit.edu	37	3	88189815	88189815	+	Missense_Mutation	SNP	C	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:88189815C>G	uc003dqv.2	+	1	1554	c.1355C>G	c.(1354-1356)ACA>AGA	p.T452R	CGGBP1_uc003dqu.2_Intron	NM_018293	NP_060763	Q8IZM8	ZN654_HUMAN	zinc finger protein 654	452					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Lung NSC(201;0.0283)		UCEC - Uterine corpus endometrioid carcinoma (27;0.194)|LUSC - Lung squamous cell carcinoma(29;0.00353)|Lung(72;0.00661)		AAAATTGATACAAACAGAATC	0.378													20	202	---	---	---	---	PASS
NSUN3	63899	broad.mit.edu	37	3	93803157	93803157	+	Missense_Mutation	SNP	T	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:93803157T>A	uc003drl.1	+	3	445	c.329T>A	c.(328-330)CTG>CAG	p.L110Q		NM_022072	NP_071355	Q9H649	NSUN3_HUMAN	NOL1/NOP2/Sun domain family, member 3	110							methyltransferase activity			skin(1)	1						ATTGGAAACCTGAAAAAATAT	0.458													32	206	---	---	---	---	PASS
NSUN3	63899	broad.mit.edu	37	3	93803158	93803158	+	Silent	SNP	G	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:93803158G>A	uc003drl.1	+	3	446	c.330G>A	c.(328-330)CTG>CTA	p.L110L		NM_022072	NP_071355	Q9H649	NSUN3_HUMAN	NOL1/NOP2/Sun domain family, member 3	110							methyltransferase activity			skin(1)	1						TTGGAAACCTGAAAAAATATT	0.458													32	209	---	---	---	---	PASS
OR5H15	403274	broad.mit.edu	37	3	97887807	97887807	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:97887807G>T	uc011bgu.1	+	1	264	c.264G>T	c.(262-264)AAG>AAT	p.K88N		NM_001005515	NP_001005515	A6NDH6	O5H15_HUMAN	olfactory receptor, family 5, subfamily H,	88	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						TCTTAGCTAAGAGTAAGATGA	0.378													61	206	---	---	---	---	PASS
DZIP3	9666	broad.mit.edu	37	3	108391468	108391468	+	Missense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:108391468C>A	uc003dxd.2	+	23	2976	c.2554C>A	c.(2554-2556)CTG>ATG	p.L852M	DZIP3_uc003dxf.1_Missense_Mutation_p.L852M|DZIP3_uc011bhm.1_Missense_Mutation_p.L303M	NM_014648	NP_055463	Q86Y13	DZIP3_HUMAN	DAZ interacting protein 3, zinc finger	852	Potential.				protein polyubiquitination	cytoplasm	polyubiquitin binding|RNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						CGTAAGCAAACTGAACGCAGA	0.398													24	82	---	---	---	---	PASS
CD96	10225	broad.mit.edu	37	3	111319669	111319669	+	Nonsense_Mutation	SNP	C	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:111319669C>G	uc003dxw.2	+	8	1213	c.1043C>G	c.(1042-1044)TCA>TGA	p.S348*	CD96_uc003dxv.2_Nonsense_Mutation_p.S332*|CD96_uc003dxx.2_Nonsense_Mutation_p.S332*|CD96_uc010hpy.1_Nonsense_Mutation_p.S332*	NM_198196	NP_937839	P40200	TACT_HUMAN	CD96 antigen isoform 1 precursor	348	Extracellular (Potential).|Ig-like C2-type.				cell adhesion|immune response|regulation of immune response	integral to plasma membrane				skin(2)|central_nervous_system(1)	3						CCAGCCCAATCAGACAACTTG	0.383									Opitz_Trigonocephaly_syndrome				25	145	---	---	---	---	PASS
SEMA5B	54437	broad.mit.edu	37	3	122632465	122632465	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:122632465G>T	uc003efz.1	-	16	2500	c.2196C>A	c.(2194-2196)AGC>AGA	p.S732R	SEMA5B_uc011bju.1_Missense_Mutation_p.S674R|SEMA5B_uc003ega.1_RNA|SEMA5B_uc003egb.1_Missense_Mutation_p.S732R|SEMA5B_uc010hro.1_Missense_Mutation_p.S674R|SEMA5B_uc003efy.1_5'Flank	NM_001031702	NP_001026872	Q9P283	SEM5B_HUMAN	semaphorin 5B isoform 1	732	Extracellular (Potential).|TSP type-1 2.				cell differentiation|nervous system development	integral to membrane	receptor activity			ovary(2)|breast(2)|pancreas(2)|central_nervous_system(1)	7				GBM - Glioblastoma multiforme(114;0.0367)		TGCTGCACTTGCTCCAGGAGC	0.677													10	31	---	---	---	---	PASS
MYLK	4638	broad.mit.edu	37	3	123452795	123452795	+	Missense_Mutation	SNP	C	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:123452795C>G	uc003ego.2	-	10	1330	c.1048G>C	c.(1048-1050)GCA>CCA	p.A350P	MYLK_uc011bjw.1_Missense_Mutation_p.A350P|MYLK_uc003egp.2_Missense_Mutation_p.A350P|MYLK_uc003egq.2_Missense_Mutation_p.A350P|MYLK_uc003egr.2_Missense_Mutation_p.A350P|MYLK_uc003egs.2_Missense_Mutation_p.A174P	NM_053025	NP_444253	Q15746	MYLK_HUMAN	myosin light chain kinase isoform 1	350					aorta smooth muscle tissue morphogenesis|muscle contraction	cytosol	actin binding|ATP binding|calmodulin binding|metal ion binding|myosin light chain kinase activity			ovary(6)|skin(2)|stomach(1)	9		Lung NSC(201;0.0496)		GBM - Glioblastoma multiforme(114;0.0736)		TGAACTCTTGCGGCCTGCAGG	0.632													59	217	---	---	---	---	PASS
SLCO2A1	6578	broad.mit.edu	37	3	133692604	133692604	+	Silent	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:133692604C>A	uc003eqa.3	-	3	574	c.300G>T	c.(298-300)CTG>CTT	p.L100L	SLCO2A1_uc003eqb.3_Silent_p.L100L|SLCO2A1_uc011blv.1_Silent_p.L100L|SLCO2A1_uc010htw.1_5'UTR	NM_005630	NP_005621	Q92959	SO2A1_HUMAN	solute carrier organic anion transporter family,	100	Helical; Name=3; (Potential).				sodium-independent organic anion transport	integral to plasma membrane|membrane fraction	prostaglandin transmembrane transporter activity|protein binding			central_nervous_system(1)	1						CGATGCCAATCAGACGTGGAC	0.567													7	39	---	---	---	---	PASS
TRIM42	287015	broad.mit.edu	37	3	140401468	140401468	+	Missense_Mutation	SNP	G	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:140401468G>A	uc003eto.1	+	2	697	c.506G>A	c.(505-507)TGC>TAC	p.C169Y		NM_152616	NP_689829	Q8IWZ5	TRI42_HUMAN	tripartite motif-containing 42	169	RING-type.					intracellular	zinc ion binding			lung(2)|skin(2)|upper_aerodigestive_tract(1)|breast(1)|central_nervous_system(1)	7						TGCGAGAAGTGCCTGCGGCAG	0.607													28	113	---	---	---	---	PASS
ATR	545	broad.mit.edu	37	3	142188344	142188344	+	Missense_Mutation	SNP	A	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:142188344A>T	uc003eux.3	-	38	6509	c.6387T>A	c.(6385-6387)CAT>CAA	p.H2129Q	ATR_uc003euy.1_Missense_Mutation_p.H15Q	NM_001184	NP_001175	Q13535	ATR_HUMAN	ataxia telangiectasia and Rad3 related protein	2129	FAT.				cell cycle|cellular response to gamma radiation|cellular response to UV|DNA damage checkpoint|DNA repair|DNA replication|multicellular organismal development|negative regulation of DNA replication|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|protein autophosphorylation|replicative senescence	PML body	ATP binding|DNA binding|MutLalpha complex binding|MutSalpha complex binding|protein serine/threonine kinase activity			lung(5)|skin(5)|breast(4)|ovary(3)|stomach(1)|central_nervous_system(1)|liver(1)	20						AATAGTTTGTATGCTCTGTGA	0.348								Other_conserved_DNA_damage_response_genes					85	92	---	---	---	---	PASS
CPB1	1360	broad.mit.edu	37	3	148562331	148562331	+	Missense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:148562331C>A	uc003ewl.2	+	7	666	c.643C>A	c.(643-645)CTG>ATG	p.L215M		NM_001871	NP_001862	P15086	CBPB1_HUMAN	pancreatic carboxypeptidase B1 preproprotein	215					proteolysis	extracellular region	metallocarboxypeptidase activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3			LUSC - Lung squamous cell carcinoma(72;0.0934)|Lung(72;0.115)			CTTTTATGTCCTGCCTGTGCT	0.423													26	94	---	---	---	---	PASS
OTOL1	131149	broad.mit.edu	37	3	161220152	161220152	+	Missense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:161220152C>A	uc011bpb.1	+	3	512	c.512C>A	c.(511-513)GCA>GAA	p.A171E		NM_001080440	NP_001073909	A6NHN0	OTOL1_HUMAN	otolin-1 precursor	171	Collagen-like 1.					collagen					0						AAACCGGGAGCACAAGGTAGA	0.423													27	34	---	---	---	---	PASS
SI	6476	broad.mit.edu	37	3	164712177	164712177	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:164712177G>T	uc003fei.2	-	41	4771	c.4709C>A	c.(4708-4710)TCC>TAC	p.S1570Y		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	1570	Sucrase.|Lumenal.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|brush border|Golgi apparatus|integral to membrane	carbohydrate binding|oligo-1,6-glucosidase activity|sucrose alpha-glucosidase activity			ovary(7)|upper_aerodigestive_tract(4)|skin(2)|pancreas(1)	14		Prostate(884;0.00314)|Melanoma(1037;0.0153)|all_neural(597;0.0199)			Acarbose(DB00284)	TTCATTCCAGGAAGCGGGATC	0.299										HNSCC(35;0.089)			99	132	---	---	---	---	PASS
ZBBX	79740	broad.mit.edu	37	3	167016230	167016230	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:167016230G>T	uc003fep.2	-	18	2065	c.1742C>A	c.(1741-1743)GCC>GAC	p.A581D	ZBBX_uc011bpc.1_Missense_Mutation_p.A581D|ZBBX_uc003feq.2_Missense_Mutation_p.A552D	NM_024687	NP_078963	A8MT70	ZBBX_HUMAN	zinc finger, B-box domain containing	581						intracellular	zinc ion binding			ovary(2)	2						ACTTCTGCAGGCTATTTCTTG	0.289													43	247	---	---	---	---	PASS
TERC	7012	broad.mit.edu	37	3	169482446	169482446	+	RNA	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:169482446G>T	uc003ffr.1	-	1		c.403C>A				NR_001566				Homo sapiens cDNA clone IMAGE:40002477.												0						TCAGGGAATCGCGCCGCGCGC	0.677									Congenital_Dyskeratosis|Pulmonary_Fibrosis_Idiopathic				14	63	---	---	---	---	PASS
ARPM1	84517	broad.mit.edu	37	3	169485281	169485281	+	Nonsense_Mutation	SNP	C	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:169485281C>T	uc003ffs.1	-	2	1433	c.1058G>A	c.(1057-1059)TGG>TAG	p.W353*	TERC_uc003ffr.1_5'Flank	NM_032487	NP_115876	Q9BYD9	ARPM1_HUMAN	actin related protein M1	353						cytoplasm|cytoskeleton					0	all_cancers(22;9.55e-22)|all_epithelial(15;2.04e-26)|all_lung(20;5.05e-16)|Lung NSC(18;2.19e-15)|Ovarian(172;0.000223)|Breast(254;0.197)		Epithelial(2;4.03e-64)|all cancers(2;5.01e-59)|Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.00676)			AGCAGTGATCCACATGTCCTG	0.418													9	171	---	---	---	---	PASS
FNDC3B	64778	broad.mit.edu	37	3	171965446	171965446	+	Missense_Mutation	SNP	C	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:171965446C>T	uc003fhy.2	+	5	560	c.388C>T	c.(388-390)CAT>TAT	p.H130Y	FNDC3B_uc003fhz.3_Missense_Mutation_p.H130Y|FNDC3B_uc003fia.2_Missense_Mutation_p.H61Y	NM_022763	NP_073600	Q53EP0	FND3B_HUMAN	fibronectin type III domain containing 3B	130						endoplasmic reticulum|integral to membrane				ovary(2)|breast(1)	3	all_cancers(22;1.01e-18)|Ovarian(172;0.00167)|Breast(254;0.165)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)	GBM - Glioblastoma multiforme(1;0.0494)		TCTGACTCACCATCCACATTT	0.542													291	190	---	---	---	---	PASS
MFN1	55669	broad.mit.edu	37	3	179096548	179096548	+	Silent	SNP	G	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:179096548G>A	uc003fjs.2	+	14	1734	c.1608G>A	c.(1606-1608)TTG>TTA	p.L536L	MFN1_uc010hxb.2_RNA|MFN1_uc003fjt.2_Silent_p.L564L|MFN1_uc010hxc.2_Intron	NM_033540	NP_284941	Q8IWA4	MFN1_HUMAN	mitofusin 1	536	Cytoplasmic (Potential).				mitochondrial fusion	integral to membrane|mitochondrial outer membrane	GTP binding|GTPase activity			ovary(2)|large_intestine(1)	3	all_cancers(143;1.67e-16)|Ovarian(172;0.0172)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;5.78e-26)|GBM - Glioblastoma multiforme(14;0.00225)|BRCA - Breast invasive adenocarcinoma(182;0.0923)			ATCGATTTTTGGGCCCTAGAA	0.363													13	207	---	---	---	---	PASS
FETUB	26998	broad.mit.edu	37	3	186370293	186370293	+	Missense_Mutation	SNP	T	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:186370293T>A	uc010hyq.2	+	8	1283	c.1022T>A	c.(1021-1023)ATT>AAT	p.I341N	FETUB_uc011brz.1_Missense_Mutation_p.I193N|FETUB_uc003fqn.2_Missense_Mutation_p.I341N|FETUB_uc003fqo.2_Missense_Mutation_p.I236N|FETUB_uc010hyr.2_Missense_Mutation_p.I304N|FETUB_uc010hys.2_Missense_Mutation_p.I193N|FETUB_uc003fqp.3_Missense_Mutation_p.I276N	NM_014375	NP_055190	Q9UGM5	FETUB_HUMAN	fetuin B precursor	341						extracellular space	cysteine-type endopeptidase inhibitor activity			ovary(1)|lung(1)	2	all_cancers(143;6.64e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;5.73e-20)	GBM - Glioblastoma multiforme(93;0.0479)		ACCCTGGATATTTCCTTCCTC	0.542													47	268	---	---	---	---	PASS
HRG	3273	broad.mit.edu	37	3	186383826	186383826	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:186383826G>T	uc003fqq.2	+	1	29	c.6G>T	c.(4-6)AAG>AAT	p.K2N		NM_000412	NP_000403	P04196	HRG_HUMAN	histidine-rich glycoprotein precursor	2					fibrinolysis|platelet activation|platelet degranulation	extracellular region|plasma membrane|platelet alpha granule lumen	cysteine-type endopeptidase inhibitor activity|heparin binding			ovary(1)|central_nervous_system(1)	2	all_cancers(143;6.64e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;5.73e-20)	GBM - Glioblastoma multiforme(93;0.0683)		ACAAAATGAAGGCACTCATTG	0.443													14	94	---	---	---	---	PASS
UTS2D	257313	broad.mit.edu	37	3	190995924	190995924	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:190995924G>T	uc003fsu.2	-	6	926	c.139C>A	c.(139-141)CGT>AGT	p.R47S		NM_198152	NP_937795	Q765I0	UTS2B_HUMAN	urotensin 2 domain containing precursor	47						extracellular region	hormone activity				0	all_cancers(143;1.77e-09)|Ovarian(172;0.103)		LUSC - Lung squamous cell carcinoma(58;2.42e-06)|Lung(62;2.86e-06)	GBM - Glioblastoma multiforme(46;0.000214)		AGTTCCTCACGATTTGTATAT	0.284													11	70	---	---	---	---	PASS
MUC20	200958	broad.mit.edu	37	3	195453110	195453110	+	Missense_Mutation	SNP	G	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr3:195453110G>A	uc010hzo.2	+	3	1249	c.1123G>A	c.(1123-1125)GTC>ATC	p.V375I	MUC20_uc010hzp.2_Missense_Mutation_p.V340I|MUC20_uc011bte.1_RNA	NM_152673	NP_689886	Q8N307	MUC20_HUMAN	mucin 20 isoform L	546	Involved in oligomerization.				protein homooligomerization	apical plasma membrane|basal plasma membrane|extracellular region|microvillus membrane					0	all_cancers(143;1.8e-08)|Ovarian(172;0.0634)	Lung NSC(153;0.191)	Epithelial(36;1e-21)|all cancers(36;9.02e-20)|OV - Ovarian serous cystadenocarcinoma(49;1.6e-18)|Lung(62;0.000104)|LUSC - Lung squamous cell carcinoma(58;0.000128)	GBM - Glioblastoma multiforme(46;1.66e-05)		TTACGTCAAAGTCTCAGGAGC	0.572													10	80	---	---	---	---	PASS
PIGG	54872	broad.mit.edu	37	4	517400	517400	+	Silent	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr4:517400G>T	uc003gak.3	+	9	1903	c.1767G>T	c.(1765-1767)CTG>CTT	p.L589L	PIGG_uc003gaj.3_Silent_p.L581L|PIGG_uc011bux.1_RNA|PIGG_uc010ibf.2_Silent_p.L456L|PIGG_uc003gal.3_Silent_p.L500L	NM_001127178	NP_001120650	Q5H8A4	PIGG_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	589					C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	CP2 mannose-ethanolamine phosphotransferase activity			central_nervous_system(2)|ovary(1)|skin(1)	4						GTCTAGCTCTGAGCCAAGAAA	0.607													62	61	---	---	---	---	PASS
SLIT2	9353	broad.mit.edu	37	4	20541128	20541128	+	Missense_Mutation	SNP	C	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr4:20541128C>T	uc003gpr.1	+	19	2101	c.1897C>T	c.(1897-1899)CGT>TGT	p.R633C	SLIT2_uc003gps.1_Missense_Mutation_p.R625C	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	633	LRR 16.				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						CAGTTCTGTGCGTTTGCTTTC	0.388													23	93	---	---	---	---	PASS
KCNIP4	80333	broad.mit.edu	37	4	21305467	21305467	+	Missense_Mutation	SNP	T	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr4:21305467T>G	uc003gqf.1	-	1	63	c.63A>C	c.(61-63)TTA>TTC	p.L21F	KCNIP4_uc003gqg.1_Intron|KCNIP4_uc003gqh.1_Intron|KCNIP4_uc003gqi.1_Intron	NM_147183	NP_671712	Q6PIL6	KCIP4_HUMAN	Kv channel interacting protein 4 isoform 4	Error:Variant_position_missing_in_Q6PIL6_after_alignment						plasma membrane	calcium ion binding|potassium channel activity|protein binding|voltage-gated ion channel activity				0		Breast(46;0.134)				ACTGTTCCAATAATTTAACAA	0.403													33	38	---	---	---	---	PASS
GABRG1	2565	broad.mit.edu	37	4	46099312	46099312	+	Missense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr4:46099312C>A	uc003gxb.2	-	2	311	c.159G>T	c.(157-159)TGG>TGT	p.W53C		NM_173536	NP_775807	Q8N1C3	GBRG1_HUMAN	gamma-aminobutyric acid A receptor, gamma 1	53	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity			ovary(2)	2				Lung(65;0.106)|LUSC - Lung squamous cell carcinoma(721;0.23)		GGGCCAAGACCCAGGTTTTGT	0.363													80	126	---	---	---	---	PASS
PDGFRA	5156	broad.mit.edu	37	4	55141131	55141131	+	Missense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr4:55141131C>A	uc003han.3	+	12	2108	c.1777C>A	c.(1777-1779)CTA>ATA	p.L593I	PDGFRA_uc003haa.2_Missense_Mutation_p.L353I|PDGFRA_uc010igq.1_Missense_Mutation_p.L487I|PDGFRA_uc003ham.2_RNA|PDGFRA_uc003hao.1_5'Flank	NM_006206	NP_006197	P16234	PGFRA_HUMAN	platelet-derived growth factor receptor alpha	593	Protein kinase.|Cytoplasmic (Potential).				cardiac myofibril assembly|cell activation|luteinization|metanephric glomerular capillary formation|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of DNA replication|positive regulation of fibroblast proliferation|protein autophosphorylation|retina vasculature development in camera-type eye	cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet-derived growth factor alpha-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein homodimerization activity|vascular endothelial growth factor receptor activity	p.L593L(1)		soft_tissue(572)|small_intestine(40)|stomach(16)|lung(16)|central_nervous_system(13)|haematopoietic_and_lymphoid_tissue(7)|skin(3)|ovary(3)|gastrointestinal_tract_(site_indeterminate)(1)|autonomic_ganglia(1)|prostate(1)|bone(1)	674	all_cancers(7;0.000425)|all_lung(4;0.000343)|Lung NSC(11;0.000467)|all_epithelial(27;0.0131)|all_neural(26;0.0209)|Glioma(25;0.08)		GBM - Glioblastoma multiforme(1;4.18e-71)|all cancers(1;4.76e-45)|LUSC - Lung squamous cell carcinoma(32;0.00256)		Becaplermin(DB00102)|Imatinib(DB00619)|Sunitinib(DB01268)	AAGAGATGGACTAGTGCTTGG	0.453			Mis|O|T	FIP1L1	GIST|idiopathic hypereosinophilic syndrome				Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Intestinal_Neurofibromatosis	TSP Lung(21;0.16)			34	41	---	---	---	---	PASS
CEP135	9662	broad.mit.edu	37	4	56820422	56820422	+	Silent	SNP	T	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr4:56820422T>A	uc003hbi.2	+	4	579	c.345T>A	c.(343-345)GCT>GCA	p.A115A	CEP135_uc003hbh.1_Silent_p.A115A|CEP135_uc010igz.1_5'UTR	NM_025009	NP_079285	Q66GS9	CP135_HUMAN	centrosome protein 4	115	Potential.				centriole replication|centriole-centriole cohesion|G2/M transition of mitotic cell cycle	centriole|cytosol	protein C-terminus binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5	Glioma(25;0.08)|all_neural(26;0.101)					GTGAAACAGCTGATCTGAAAT	0.313													36	53	---	---	---	---	PASS
SMR3A	26952	broad.mit.edu	37	4	71232593	71232593	+	Missense_Mutation	SNP	C	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr4:71232593C>T	uc003hfg.1	+	3	368	c.287C>T	c.(286-288)CCT>CTT	p.P96L	SMR3B_uc011cas.1_Intron	NM_012390	NP_036522	Q99954	SMR3A_HUMAN	submaxillary gland androgen regulated protein 3	96	Pro-rich.					extracellular region					0		all_hematologic(202;0.196)				TCTCTTCCTCCTCCTTATGGC	0.537													4	100	---	---	---	---	PASS
SHROOM3	57619	broad.mit.edu	37	4	77660963	77660963	+	Missense_Mutation	SNP	C	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr4:77660963C>T	uc011cbx.1	+	5	2590	c.1637C>T	c.(1636-1638)CCA>CTA	p.P546L	SHROOM3_uc011cbz.1_Missense_Mutation_p.P370L|SHROOM3_uc003hkf.1_Missense_Mutation_p.P421L|SHROOM3_uc003hkg.2_Missense_Mutation_p.P324L	NM_020859	NP_065910	Q8TF72	SHRM3_HUMAN	shroom family member 3 protein	546					apical protein localization|cell morphogenesis|cellular pigment accumulation|pattern specification process|regulation of cell shape	adherens junction|apical junction complex|apical plasma membrane|cytoplasm|microtubule	actin binding			skin(2)|ovary(1)	3			Lung(101;0.0903)			GAGAAGAAACCAGAAGCTACA	0.512													53	102	---	---	---	---	PASS
UNC5C	8633	broad.mit.edu	37	4	96166286	96166286	+	Missense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr4:96166286C>A	uc003htp.1	-	6	939	c.785G>T	c.(784-786)GGC>GTC	p.G262V	UNC5C_uc010ilc.1_Missense_Mutation_p.G262V|UNC5C_uc003htq.2_Missense_Mutation_p.G262V	NM_003728	NP_003719	O95185	UNC5C_HUMAN	unc5C precursor	262	Extracellular (Potential).|TSP type-1 1.				apoptosis|axon guidance|brain development	integral to membrane	netrin receptor activity			ovary(3)|pancreas(1)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;8.72e-10)		GGTGGACCAGCCACCGTTGAC	0.483													15	12	---	---	---	---	PASS
CISD2	493856	broad.mit.edu	37	4	103790340	103790340	+	Silent	SNP	C	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr4:103790340C>G	uc003hwt.3	+	1	206	c.99C>G	c.(97-99)CTC>CTG	p.L33L	UBE2D3_uc003hwq.2_5'Flank|UBE2D3_uc003hwr.2_5'Flank	NM_001008388	NP_001008389	Q8N5K1	CISD2_HUMAN	CDGSH iron sulfur domain 2	33	Lumenal (Potential).				multicellular organismal aging|regulation of autophagy	endoplasmic reticulum membrane|integral to membrane|mitochondrial outer membrane|protein complex	2 iron, 2 sulfur cluster binding|metal ion binding|protein homodimerization activity				0				OV - Ovarian serous cystadenocarcinoma(123;1.97e-08)		TCGCTAGGCTCACAGGTAATC	0.612													9	9	---	---	---	---	PASS
MAD2L1	4085	broad.mit.edu	37	4	120982076	120982076	+	Missense_Mutation	SNP	C	T	T	rs78047690		TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr4:120982076C>T	uc003idl.2	-	4	522	c.398G>A	c.(397-399)AGA>AAA	p.R133K	MAD2L1_uc003idm.2_3'UTR	NM_002358	NP_002349	Q13257	MD2L1_HUMAN	MAD2-like 1	133	HORMA.			R->A: Prevents aggregation and promotes formation of monomeric protein that slowly interconverts between the open and closed conformation.	anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|negative regulation of apoptosis|negative regulation of mitotic anaphase-promoting complex activity|positive regulation of mitotic cell cycle spindle assembly checkpoint	condensed chromosome kinetochore|cytosol|nucleus|perinuclear region of cytoplasm	protein homodimerization activity				0						TGTGATCTGTCTGATCACTGA	0.353													3	57	---	---	---	---	PASS
PRDM5	11107	broad.mit.edu	37	4	121738064	121738064	+	Silent	SNP	T	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr4:121738064T>A	uc003idn.2	-	6	916	c.666A>T	c.(664-666)ACA>ACT	p.T222T	PRDM5_uc003ido.2_Intron|PRDM5_uc010ine.2_Intron|PRDM5_uc010inf.2_Intron	NM_018699	NP_061169	Q9NQX1	PRDM5_HUMAN	PR domain containing 5	222					histone deacetylation|histone H3-K9 methylation|mitotic cell cycle|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	repressing transcription factor binding|sequence-specific DNA binding|transcription regulatory region DNA binding|zinc ion binding			central_nervous_system(1)|pancreas(1)	2						TGCTTTTCGCTGTGCACTGAA	0.368													73	94	---	---	---	---	PASS
KIAA1109	84162	broad.mit.edu	37	4	123268745	123268745	+	Missense_Mutation	SNP	A	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr4:123268745A>G	uc003ieh.2	+	74	12985	c.12940A>G	c.(12940-12942)AAA>GAA	p.K4314E	KIAA1109_uc003iem.2_Missense_Mutation_p.K670E	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	4314					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						ATCATCAAGAAAAGCTTACTG	0.458													6	51	---	---	---	---	PASS
IL2	3558	broad.mit.edu	37	4	123374898	123374898	+	Silent	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr4:123374898G>T	uc003ier.2	-	3	373	c.318C>A	c.(316-318)ATC>ATA	p.I106I		NM_000586	NP_000577	P60568	IL2_HUMAN	interleukin 2 precursor	106					anti-apoptosis|cell adhesion|cell-cell signaling|immune response|natural killer cell activation|negative regulation of B cell apoptosis|positive regulation of activated T cell proliferation|positive regulation of B cell proliferation|positive regulation of cell growth|positive regulation of interleukin-17 production|positive regulation of tyrosine phosphorylation of Stat5 protein|T cell differentiation	extracellular space	cytokine activity|growth factor activity|interleukin-2 receptor binding|kinase activator activity			skin(1)	1				LUSC - Lung squamous cell carcinoma(721;0.185)		TGATATTGCTGATTAAGTCCC	0.358			T	TNFRSF17	intestinal T-cell lymphoma								44	87	---	---	---	---	PASS
PCDH10	57575	broad.mit.edu	37	4	134076121	134076121	+	Missense_Mutation	SNP	G	C	C			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr4:134076121G>C	uc003iha.2	+	3	3566	c.2740G>C	c.(2740-2742)GGA>CGA	p.G914R		NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	914	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		CAGTGGTCATGGAGACAGTGA	0.413													27	43	---	---	---	---	PASS
NR3C2	4306	broad.mit.edu	37	4	149356359	149356359	+	Missense_Mutation	SNP	G	C	C			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr4:149356359G>C	uc003ilj.3	-	2	1988	c.1654C>G	c.(1654-1656)CCT>GCT	p.P552A	NR3C2_uc003ilk.3_Missense_Mutation_p.P552A|NR3C2_uc010iph.2_RNA	NM_000901	NP_000892	P08235	MCR_HUMAN	nuclear receptor subfamily 3, group C, member 2	552	Modulating.				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	endoplasmic reticulum membrane|nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			large_intestine(1)	1	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.0614)	Desoxycorticosterone Pivalate(DB01134)|Eplerenone(DB00700)|Fludrocortisone(DB00687)|Spironolactone(DB00421)	GTATTGACAGGAGGAAAGGAA	0.448													8	89	---	---	---	---	PASS
LRAT	9227	broad.mit.edu	37	4	155670218	155670218	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr4:155670218G>T	uc003iom.1	+	2	950	c.623G>T	c.(622-624)TGT>TTT	p.C208F	LRAT_uc003ion.1_Missense_Mutation_p.C208F	NM_004744	NP_004735	O95237	LRAT_HUMAN	lecithin retinol acyltransferase	208	Helical; (Potential).			C->A: Does not affect activity.	response to stimulus|retinoid metabolic process|steroid metabolic process|visual perception	endoplasmic reticulum membrane|integral to membrane|multivesicular body|perinuclear region of cytoplasm|rough endoplasmic reticulum	phosphatidylcholine-retinol O-acyltransferase activity			central_nervous_system(1)	1	all_hematologic(180;0.215)	Renal(120;0.0458)			Vitamin A(DB00162)	TCTATAGTCTGTACGGGCTTG	0.408													70	104	---	---	---	---	PASS
GALNT7	51809	broad.mit.edu	37	4	174090001	174090001	+	Silent	SNP	T	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr4:174090001T>A	uc003isz.3	+	1	98	c.15T>A	c.(13-15)ATT>ATA	p.I5I	uc003isy.1_Intron	NM_017423	NP_059119	Q86SF2	GALT7_HUMAN	polypeptide N-acetylgalactosaminyltransferase 7	5	Cytoplasmic (Potential).				protein O-linked glycosylation	Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			central_nervous_system(1)	1		Prostate(90;0.0132)|Renal(120;0.0183)|Melanoma(52;0.0749)|all_hematologic(60;0.107)|all_neural(102;0.122)		all cancers(43;1.87e-18)|Epithelial(43;3.44e-17)|OV - Ovarian serous cystadenocarcinoma(60;2.48e-09)|STAD - Stomach adenocarcinoma(60;0.0019)|GBM - Glioblastoma multiforme(59;0.0119)|LUSC - Lung squamous cell carcinoma(193;0.0199)		GGCTGAAGATTGGGTTCATCT	0.438													7	14	---	---	---	---	PASS
DNAH5	1767	broad.mit.edu	37	5	13759076	13759076	+	Missense_Mutation	SNP	T	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr5:13759076T>A	uc003jfd.2	-	61	10340	c.10298A>T	c.(10297-10299)CAA>CTA	p.Q3433L	DNAH5_uc003jfc.2_5'UTR	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	3433	Stalk (By similarity).|Potential.				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					GCGATTCTCTTGCACCACCAA	0.542									Kartagener_syndrome				33	254	---	---	---	---	PASS
CDH9	1007	broad.mit.edu	37	5	26881271	26881271	+	Missense_Mutation	SNP	C	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr5:26881271C>G	uc003jgs.1	-	12	2513	c.2344G>C	c.(2344-2346)GGG>CGG	p.G782R	CDH9_uc011cnv.1_Missense_Mutation_p.G375R	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	782	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						TCATCACCCCCATACATATCG	0.408													44	217	---	---	---	---	PASS
RXFP3	51289	broad.mit.edu	37	5	33937196	33937196	+	Silent	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr5:33937196C>A	uc003jic.1	+	1	708	c.351C>A	c.(349-351)ATC>ATA	p.I117I		NM_016568	NP_057652	Q9NSD7	RL3R1_HUMAN	relaxin/insulin-like family peptide receptor 3	117	Cytoplasmic (Potential).					integral to plasma membrane	N-formyl peptide receptor activity			upper_aerodigestive_tract(1)	1						AGTCCTCTATCAACCTCTTCG	0.592													21	133	---	---	---	---	PASS
EGFLAM	133584	broad.mit.edu	37	5	38407059	38407059	+	Missense_Mutation	SNP	A	C	C			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr5:38407059A>C	uc003jlc.1	+	8	1282	c.958A>C	c.(958-960)ACG>CCG	p.T320P	EGFLAM_uc003jlb.1_Missense_Mutation_p.T320P|EGFLAM_uc003jle.1_Missense_Mutation_p.T86P|EGFLAM_uc003jlf.1_Intron	NM_152403	NP_689616	Q63HQ2	EGFLA_HUMAN	EGF-like, fibronectin type III and laminin G	320						cell junction|proteinaceous extracellular matrix|synapse				pancreas(3)|skin(3)|ovary(1)	7	all_lung(31;0.000385)					CCCTGTGACCACGGTGGCTCC	0.478													13	199	---	---	---	---	PASS
ZNF131	7690	broad.mit.edu	37	5	43139363	43139363	+	Missense_Mutation	SNP	C	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr5:43139363C>T	uc011cpw.1	+	4	359	c.323C>T	c.(322-324)GCA>GTA	p.A108V	ZNF131_uc010ivl.1_Missense_Mutation_p.A108V|ZNF131_uc003jnj.3_5'UTR|ZNF131_uc003jnk.2_Missense_Mutation_p.A108V|ZNF131_uc003jnn.3_Intron|ZNF131_uc003jnl.1_Intron|ZNF131_uc010ivm.1_RNA	NM_003432	NP_003423	P52739	ZN131_HUMAN	zinc finger protein 131	108						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						GTATGGAAAGCAGCAGAGTTT	0.358													31	145	---	---	---	---	PASS
HCN1	348980	broad.mit.edu	37	5	45262584	45262584	+	Nonsense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr5:45262584G>T	uc003jok.2	-	8	2137	c.2112C>A	c.(2110-2112)TGC>TGA	p.C704*		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	704	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						CAGGAGGGCTGCAGACCGCGG	0.567													14	33	---	---	---	---	PASS
MAP3K1	4214	broad.mit.edu	37	5	56168787	56168787	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr5:56168787G>T	uc003jqw.3	+	9	2142	c.1641G>T	c.(1639-1641)CAG>CAT	p.Q547H		NM_005921	NP_005912	Q13233	M3K1_HUMAN	mitogen-activated protein kinase kinase kinase	547					cellular response to mechanical stimulus|innate immune response|MyD88-dependent toll-like receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	ATP binding|zinc ion binding			ovary(1)|skin(1)	2		Lung NSC(810;4.65e-05)|Prostate(74;0.0132)|Breast(144;0.0321)|Ovarian(174;0.223)		OV - Ovarian serous cystadenocarcinoma(10;6.08e-40)		ATGGAACTCAGCAAATCCCTC	0.403													21	31	---	---	---	---	PASS
SLCO6A1	133482	broad.mit.edu	37	5	101724397	101724397	+	Missense_Mutation	SNP	C	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr5:101724397C>G	uc003knn.2	-	12	2184	c.2012G>C	c.(2011-2013)GGA>GCA	p.G671A	SLCO6A1_uc003kno.2_Missense_Mutation_p.G418A|SLCO6A1_uc003knp.2_Missense_Mutation_p.G671A|SLCO6A1_uc003knq.2_Missense_Mutation_p.G609A	NM_173488	NP_775759	Q86UG4	SO6A1_HUMAN	solute carrier organic anion transporter family,	671	Extracellular (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|skin(3)|central_nervous_system(1)	7		all_cancers(142;8e-09)|all_epithelial(76;2.83e-12)|Prostate(80;0.00125)|Colorectal(57;0.00342)|Ovarian(225;0.024)|Lung NSC(167;0.0259)|all_lung(232;0.0323)		Epithelial(69;1.47e-15)|COAD - Colon adenocarcinoma(37;0.0113)		CTTACATATTCCTACCAATAA	0.269													21	41	---	---	---	---	PASS
FAM170A	340069	broad.mit.edu	37	5	118970249	118970249	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr5:118970249G>T	uc003ksm.2	+	3	1016	c.806G>T	c.(805-807)GGC>GTC	p.G269V	FAM170A_uc003ksl.2_Intron|FAM170A_uc003ksn.2_Missense_Mutation_p.G269V|FAM170A_uc003kso.2_Missense_Mutation_p.G222V	NM_182761	NP_877438	A1A519	F170A_HUMAN	family with sequence similarity 170, member A	269						intracellular	zinc ion binding			skin(1)	1						CAGCTGACAGGCAACATGGAA	0.343													83	89	---	---	---	---	PASS
SNCAIP	9627	broad.mit.edu	37	5	121759012	121759012	+	Missense_Mutation	SNP	A	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr5:121759012A>G	uc003ksw.1	+	4	786	c.580A>G	c.(580-582)ACA>GCA	p.T194A	SNCAIP_uc011cwl.1_Intron|SNCAIP_uc010jct.2_Missense_Mutation_p.T194A|SNCAIP_uc003ksx.1_Missense_Mutation_p.T241A|SNCAIP_uc003ksy.1_Intron|SNCAIP_uc003ksz.1_Intron|SNCAIP_uc010jcu.2_Intron|SNCAIP_uc011cwm.1_Intron|SNCAIP_uc003kta.1_Intron|SNCAIP_uc010jcv.1_RNA|SNCAIP_uc010jcw.1_Intron|SNCAIP_uc010jcx.1_Missense_Mutation_p.T194A	NM_005460	NP_005451	Q9Y6H5	SNCAP_HUMAN	synuclein alpha interacting protein	194					cell death|dopamine metabolic process|regulation of inclusion body assembly|regulation of neurotransmitter secretion	cytoplasm|neuronal cell body|nucleolus|presynaptic membrane	ubiquitin protein ligase binding			ovary(1)|pancreas(1)	2		all_cancers(142;0.00787)|Prostate(80;0.0327)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	OV - Ovarian serous cystadenocarcinoma(64;0.000625)|Epithelial(69;0.00216)|all cancers(49;0.0232)		AGCCTGCTCTACAGGAAGTTC	0.458													30	140	---	---	---	---	PASS
MYOT	9499	broad.mit.edu	37	5	137206399	137206399	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr5:137206399G>T	uc011cye.1	+	2	76	c.59G>T	c.(58-60)AGA>ATA	p.R20I	MYOT_uc003lbv.2_Missense_Mutation_p.R20I|MYOT_uc011cyg.1_Intron|MYOT_uc011cyh.1_Intron	NM_001135940	NP_001129412	Q9UBF9	MYOTI_HUMAN	myotilin isoform b	20					muscle contraction	actin cytoskeleton|sarcolemma|sarcomere	actin binding|structural constituent of muscle			large_intestine(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			TGTGGCTCCAGATTGCAGCCT	0.448													65	100	---	---	---	---	PASS
PCDHGA9	56107	broad.mit.edu	37	5	140783125	140783125	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr5:140783125G>T	uc003lkh.1	+	1	606	c.606G>T	c.(604-606)AGG>AGT	p.R202S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc011dax.1_Missense_Mutation_p.R202S	NM_018921	NP_061744	Q9Y5G4	PCDG9_HUMAN	protocadherin gamma subfamily A, 9 isoform 1	202	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCCTGGACAGGGAGGAGGCAA	0.622													7	10	---	---	---	---	PASS
HDAC3	8841	broad.mit.edu	37	5	141005610	141005610	+	Nonsense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr5:141005610C>A	uc003llf.2	-	12	1015	c.949G>T	c.(949-951)GAG>TAG	p.E317*	HDAC3_uc003lle.1_Nonsense_Mutation_p.E260*	NM_003883	NP_003874	O15379	HDAC3_HUMAN	histone deacetylase 3	317					anti-apoptosis|cellular lipid metabolic process|negative regulation of cell cycle|negative regulation of JNK cascade|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|spindle assembly|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|spindle microtubule|transcriptional repressor complex	histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|transcription corepressor activity|transcription factor binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		Vorinostat(DB02546)	CTAATGGCCTCTTCTACCAGC	0.532													10	83	---	---	---	---	PASS
HTR4	3360	broad.mit.edu	37	5	147902862	147902862	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr5:147902862G>T	uc003lpn.2	-	5	565	c.401C>A	c.(400-402)ACC>AAC	p.T134N	HTR4_uc010jgu.1_RNA|HTR4_uc003lpi.1_Missense_Mutation_p.T134N|HTR4_uc003lpj.1_Missense_Mutation_p.T134N|HTR4_uc003lpk.2_Missense_Mutation_p.T134N|HTR4_uc011dby.1_Missense_Mutation_p.T134N|HTR4_uc003lpl.2_Missense_Mutation_p.T134N|HTR4_uc003lpm.2_Missense_Mutation_p.T134N|HTR4_uc010jgv.2_RNA|HTR4_uc003lpo.1_Missense_Mutation_p.T134N	NM_000870	NP_000861	Q13639	5HT4R_HUMAN	serotonin 5-HT4 receptor isoform b	134	Cytoplasmic (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|positive regulation of cell proliferation	endosome|integral to plasma membrane|membrane fraction	serotonin receptor activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		Cisapride(DB00604)|Rizatriptan(DB00953)|Tegaserod(DB01079)|Zolmitriptan(DB00315)	GCGCAGAGGGGTCATCTTGTT	0.498													19	30	---	---	---	---	PASS
ITK	3702	broad.mit.edu	37	5	156607999	156607999	+	Missense_Mutation	SNP	T	C	C			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr5:156607999T>C	uc003lwo.1	+	1	93	c.11T>C	c.(10-12)TTT>TCT	p.F4S		NM_005546	NP_005537	Q08881	ITK_HUMAN	IL2-inducible T-cell kinase	4	PH.				cellular defense response|intracellular signal transduction|T cell receptor signaling pathway	cytosol|plasma membrane	ATP binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(12)|ovary(8)|skin(4)|stomach(1)|central_nervous_system(1)	26	Renal(175;0.00212)	Medulloblastoma(196;0.0354)|all_neural(177;0.1)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			ATGAACAACTTTATCCTCCTG	0.443			T	SYK	peripheral T-cell lymphoma								31	48	---	---	---	---	PASS
SCGN	10590	broad.mit.edu	37	6	25669792	25669792	+	Silent	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:25669792C>A	uc003nfb.2	+	5	593	c.390C>A	c.(388-390)CTC>CTA	p.L130L	SCGN_uc010jpz.2_Missense_Mutation_p.S40Y	NM_006998	NP_008929	O76038	SEGN_HUMAN	secretagogin precursor	130	EF-hand 3.					extracellular region|transport vesicle membrane	calcium ion binding			ovary(2)|pancreas(1)	3						CTGCTGAGCTCCGCGTGAGTG	0.413													23	101	---	---	---	---	PASS
SLC17A4	10050	broad.mit.edu	37	6	25778227	25778227	+	Missense_Mutation	SNP	G	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:25778227G>A	uc003nfe.2	+	11	1461	c.1342G>A	c.(1342-1344)GGA>AGA	p.G448R	SLC17A4_uc011djx.1_Missense_Mutation_p.G218R|SLC17A4_uc003nfg.2_Missense_Mutation_p.G385R|SLC17A4_uc010jqa.2_Nonsense_Mutation_p.W67*	NM_005495	NP_005486	Q9Y2C5	S17A4_HUMAN	solute carrier family 17 (sodium phosphate),	448	Helical; (Potential).				phosphate metabolic process	integral to plasma membrane|membrane fraction	sodium:phosphate symporter activity			skin(1)	1						TACTGCTGCTGGATTTTTCAT	0.418													18	86	---	---	---	---	PASS
SLC17A4	10050	broad.mit.edu	37	6	25778228	25778228	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:25778228G>T	uc003nfe.2	+	11	1462	c.1343G>T	c.(1342-1344)GGA>GTA	p.G448V	SLC17A4_uc011djx.1_Missense_Mutation_p.G218V|SLC17A4_uc003nfg.2_Missense_Mutation_p.G385V|SLC17A4_uc010jqa.2_Missense_Mutation_p.W67C	NM_005495	NP_005486	Q9Y2C5	S17A4_HUMAN	solute carrier family 17 (sodium phosphate),	448	Helical; (Potential).				phosphate metabolic process	integral to plasma membrane|membrane fraction	sodium:phosphate symporter activity			skin(1)	1						ACTGCTGCTGGATTTTTCATC	0.418													18	86	---	---	---	---	PASS
TRIM38	10475	broad.mit.edu	37	6	25983845	25983845	+	Missense_Mutation	SNP	C	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:25983845C>G	uc003nfm.2	+	8	1763	c.1328C>G	c.(1327-1329)TCT>TGT	p.S443C	TRIM38_uc003nfn.2_Missense_Mutation_p.S425C|TRIM38_uc010jqd.2_Missense_Mutation_p.S79C	NM_006355	NP_006346	O00635	TRI38_HUMAN	tripartite motif-containing 38	443	B30.2/SPRY.				positive regulation of I-kappaB kinase/NF-kappaB cascade	intracellular	signal transducer activity|zinc ion binding				0						GCTTCCTTCTCTGATACTCTC	0.463													32	65	---	---	---	---	PASS
HFE	3077	broad.mit.edu	37	6	26093020	26093020	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:26093020G>T	uc003nfx.1	+	4	884	c.724G>T	c.(724-726)GAT>TAT	p.D242Y	HFE_uc003nfy.1_Missense_Mutation_p.D219Y|HFE_uc010jqe.1_Missense_Mutation_p.D239Y|HFE_uc003nfz.1_Missense_Mutation_p.D154Y|HFE_uc003ngd.1_Missense_Mutation_p.D140Y|HFE_uc003nga.1_Missense_Mutation_p.D228Y|HFE_uc003ngb.1_Missense_Mutation_p.D136Y|HFE_uc003ngc.1_Missense_Mutation_p.D150Y|HFE_uc003nge.1_Missense_Mutation_p.D62Y|HFE_uc003ngf.1_Intron	NM_000410	NP_000401	Q30201	HFE_HUMAN	hemochromatosis protein isoform 1 precursor	242	Alpha-3.|Ig-like C1-type.|Extracellular (Potential).				antigen processing and presentation of peptide antigen via MHC class I|cellular iron ion homeostasis|immune response|iron ion transport|protein complex assembly|receptor-mediated endocytosis	apical part of cell|basal part of cell|cytoplasmic vesicle|early endosome|integral to plasma membrane|MHC class I protein complex|perinuclear region of cytoplasm|recycling endosome	protein binding				0						GTGGCTGAAGGATAAGCAGCC	0.527									Hemochromatosis				25	59	---	---	---	---	PASS
SCAND3	114821	broad.mit.edu	37	6	28542454	28542454	+	Silent	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:28542454C>A	uc003nlo.2	-	3	2646	c.2028G>T	c.(2026-2028)GGG>GGT	p.G676G		NM_052923	NP_443155	Q6R2W3	SCND3_HUMAN	SCAN domain containing 3	676					DNA integration|viral reproduction	nucleus	DNA binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity			ovary(1)	1						AAAATGGTGTCCCTGATGGCT	0.408													79	173	---	---	---	---	PASS
ZFP57	346171	broad.mit.edu	37	6	29640952	29640952	+	Silent	SNP	C	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:29640952C>T	uc011dlw.1	-	4	1087	c.936G>A	c.(934-936)CAG>CAA	p.Q312Q	ZFP57_uc003nnl.3_Silent_p.Q292Q	NM_001109809	NP_001103279	Q9NU63	ZFP57_HUMAN	zinc finger protein 57 homolog	228					DNA methylation involved in embryo development|regulation of gene expression by genetic imprinting|transcription, DNA-dependent		DNA binding|zinc ion binding			ovary(3)|skin(2)	5						GGATGGACCTCTGGCTTCTGG	0.542													23	151	---	---	---	---	PASS
TRIM39	56658	broad.mit.edu	37	6	30309598	30309598	+	Silent	SNP	A	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:30309598A>T	uc010jrz.2	+	9	1431	c.1119A>T	c.(1117-1119)CCA>CCT	p.P373P	TRIM39_uc003npz.2_Silent_p.P343P|TRIM39_uc003nqb.2_Silent_p.P343P|TRIM39_uc003nqc.2_Silent_p.P343P|TRIM39_uc010jsa.1_Silent_p.P343P	NM_021253	NP_067076	Q9HCM9	TRI39_HUMAN	tripartite motif-containing 39 isoform 1	373	B30.2/SPRY.				apoptosis	cytosol|mitochondrion	identical protein binding|zinc ion binding			ovary(3)	3						CTGACACACCAAGGCGTTTCA	0.577													18	29	---	---	---	---	PASS
HLA-DOA	3111	broad.mit.edu	37	6	32975108	32975108	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:32975108G>T	uc003ocr.2	-	3	669	c.593C>A	c.(592-594)GCG>GAG	p.A198E	HLA-DOA_uc010juj.2_Missense_Mutation_p.A168E|HLA-DOA_uc010jui.2_Missense_Mutation_p.A198E	NM_002119	NP_002110	P06340	DOA_HUMAN	major histocompatibility complex, class II, DO	198	Extracellular (Potential).|Alpha-2.|Ig-like C1-type.				antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|interferon-gamma-mediated signaling pathway|T cell costimulation|T cell receptor signaling pathway	endosome membrane|integral to membrane|lysosomal membrane|MHC class II protein complex	MHC class II receptor activity				0						GAGGAGTGGCGCATCCAGGCC	0.592													52	97	---	---	---	---	PASS
COL11A2	1302	broad.mit.edu	37	6	33135240	33135240	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:33135240G>T	uc003ocx.1	-	56	4313	c.4085C>A	c.(4084-4086)CCT>CAT	p.P1362H	COL11A2_uc010jul.1_Intron|COL11A2_uc003ocy.1_Missense_Mutation_p.P1276H|COL11A2_uc003ocz.1_Missense_Mutation_p.P1255H	NM_080680	NP_542411	P13942	COBA2_HUMAN	collagen, type XI, alpha 2 isoform 1	1362	Triple-helical region.				cartilage development|cell adhesion|collagen fibril organization|sensory perception of sound|soft palate development	collagen type XI	extracellular matrix structural constituent conferring tensile strength|protein binding, bridging			ovary(3)|skin(2)	5						ATCAGGGCCAGGTTTCCCTGC	0.647													13	42	---	---	---	---	PASS
DNAH8	1769	broad.mit.edu	37	6	38818172	38818172	+	Missense_Mutation	SNP	G	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:38818172G>A	uc003ooe.1	+	36	5294	c.4694G>A	c.(4693-4695)TGT>TAT	p.C1565Y		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						TTGGAAGTATGTCAGAAGTCA	0.363													14	89	---	---	---	---	PASS
ABCC10	89845	broad.mit.edu	37	6	43400087	43400087	+	Silent	SNP	A	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:43400087A>G	uc003ouy.1	+	3	584	c.369A>G	c.(367-369)GCA>GCG	p.A123A	ABCC10_uc003ouz.1_Silent_p.A80A	NM_033450	NP_258261	Q5T3U5	MRP7_HUMAN	ATP-binding cassette, sub-family C, member 10	123						integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(6)|central_nervous_system(1)	7	all_lung(25;0.00536)		Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0152)|OV - Ovarian serous cystadenocarcinoma(102;0.0804)			GGGTGTTGGCACATTCCCCTC	0.662													11	45	---	---	---	---	PASS
MUT	4594	broad.mit.edu	37	6	49403260	49403260	+	Missense_Mutation	SNP	T	C	C	rs147094927		TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:49403260T>C	uc003ozg.3	-	12	2288	c.2033A>G	c.(2032-2034)CAT>CGT	p.H678R		NM_000255	NP_000246	P22033	MUTA_HUMAN	methylmalonyl Coenzyme A mutase precursor	678	B12-binding.		H -> R (in MMAM; mut-).		fatty acid beta-oxidation	mitochondrial matrix	cobalamin binding|metal ion binding|methylmalonyl-CoA mutase activity				0	Lung NSC(77;0.0376)				Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	TAGGGTTTTATGACCAGCAGC	0.483													11	53	---	---	---	---	PASS
CRISP1	167	broad.mit.edu	37	6	49806193	49806193	+	Silent	SNP	G	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:49806193G>A	uc003ozw.2	-	7	658	c.579C>T	c.(577-579)GTC>GTT	p.V193V	CRISP1_uc003ozx.2_Intron	NM_001131	NP_001122	P54107	CRIS1_HUMAN	acidic epididymal glycoprotein-like 1 isoform 1	193					fusion of sperm to egg plasma membrane	extracellular space					0	Lung NSC(77;0.0358)					CTTCACATGGGACGCCTGTCT	0.363													59	104	---	---	---	---	PASS
GSTA5	221357	broad.mit.edu	37	6	52701091	52701091	+	Missense_Mutation	SNP	A	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:52701091A>G	uc003pba.1	-	4	285	c.215T>C	c.(214-216)CTT>CCT	p.L72P		NM_153699	NP_714543	Q7RTV2	GSTA5_HUMAN	glutathione S-transferase alpha 5	72	GST N-terminal.				glutathione metabolic process|xenobiotic metabolic process	cytosol	glutathione transferase activity			ovary(1)	1	Lung NSC(77;0.0912)				Glutathione(DB00143)	AATGTAGTTAAGAATGGCTCT	0.428													99	154	---	---	---	---	PASS
GFRAL	389400	broad.mit.edu	37	6	55216328	55216328	+	Silent	SNP	A	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:55216328A>G	uc003pcm.1	+	5	734	c.648A>G	c.(646-648)CCA>CCG	p.P216P		NM_207410	NP_997293	Q6UXV0	GFRAL_HUMAN	GDNF family receptor alpha like precursor	216	Extracellular (Potential).					integral to membrane	receptor activity			ovary(1)|breast(1)	2	Lung NSC(77;0.0875)|Renal(3;0.122)		LUSC - Lung squamous cell carcinoma(124;0.23)			ACATGGTTCCACCCCCTACTT	0.438													11	69	---	---	---	---	PASS
IMPG1	3617	broad.mit.edu	37	6	76712684	76712684	+	Silent	SNP	A	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:76712684A>G	uc003pik.1	-	12	1372	c.1242T>C	c.(1240-1242)CCT>CCC	p.P414P		NM_001563	NP_001554	Q17R60	IMPG1_HUMAN	interphotoreceptor matrix proteoglycan 1	414					visual perception	proteinaceous extracellular matrix	extracellular matrix structural constituent|receptor activity			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(125;0.0418)|all_hematologic(105;0.222)				GGGGTTCAACAGGAGGAAGTT	0.438													12	36	---	---	---	---	PASS
LAMA4	3910	broad.mit.edu	37	6	112508764	112508764	+	Missense_Mutation	SNP	C	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:112508764C>T	uc003pvu.2	-	8	1163	c.854G>A	c.(853-855)CGG>CAG	p.R285Q	LAMA4_uc003pvv.2_Missense_Mutation_p.R278Q|LAMA4_uc003pvt.2_Missense_Mutation_p.R278Q	NM_001105206	NP_001098676	Q16363	LAMA4_HUMAN	laminin, alpha 4 isoform 1 precursor	285	Domain II and I.				cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding			ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)		CGCTGCTAACCGCAGTGCATC	0.537													6	35	---	---	---	---	PASS
RFX6	222546	broad.mit.edu	37	6	117237460	117237460	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:117237460G>T	uc003pxm.2	+	9	1018	c.955G>T	c.(955-957)GAC>TAC	p.D319Y		NM_173560	NP_775831	Q8HWS3	RFX6_HUMAN	regulatory factor X, 6	319					glucose homeostasis|pancreatic A cell differentiation|pancreatic D cell differentiation|pancreatic E cell differentiation|positive regulation of transcription, DNA-dependent|regulation of insulin secretion|transcription, DNA-dependent|type B pancreatic cell differentiation	nucleus	protein binding|transcription regulatory region DNA binding			ovary(1)|pancreas(1)|skin(1)	3						CTGTGTTTGTGACTCAATTCT	0.348													52	97	---	---	---	---	PASS
ROS1	6098	broad.mit.edu	37	6	117710802	117710802	+	Silent	SNP	G	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:117710802G>A	uc003pxp.1	-	12	1669	c.1470C>T	c.(1468-1470)ATC>ATT	p.I490I	ROS1_uc011ebi.1_RNA|GOPC_uc003pxq.1_Intron	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor	490	Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	membrane fraction|sodium:potassium-exchanging ATPase complex	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(8)|ovary(6)|central_nervous_system(3)|skin(3)|stomach(2)|breast(2)|large_intestine(1)	25		all_cancers(87;0.00846)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0387)|OV - Ovarian serous cystadenocarcinoma(136;0.0954)|all cancers(137;0.137)		TGCGAGGTAGGATGAGATGGG	0.433			T	GOPC|ROS1	glioblastoma|NSCLC								5	58	---	---	---	---	PASS
MAN1A1	4121	broad.mit.edu	37	6	119669750	119669750	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:119669750G>T	uc003pym.1	-	2	923	c.481C>A	c.(481-483)CAG>AAG	p.Q161K	MAN1A1_uc010kei.1_Missense_Mutation_p.Q161K	NM_005907	NP_005898	P33908	MA1A1_HUMAN	mannosidase, alpha, class 1A, member 1	161	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum|ER-Golgi intermediate compartment|Golgi membrane|integral to membrane|membrane fraction	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			ovary(2)|central_nervous_system(1)|skin(1)	4		all_epithelial(87;0.173)		OV - Ovarian serous cystadenocarcinoma(136;0.0612)|GBM - Glioblastoma multiforme(226;0.0702)|all cancers(137;0.115)		TCACGCAGCTGGTCCTGGGCC	0.667													34	81	---	---	---	---	PASS
THEMIS	387357	broad.mit.edu	37	6	128176332	128176332	+	Silent	SNP	G	C	C			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:128176332G>C	uc003qbi.2	-	3	412	c.93C>G	c.(91-93)GGC>GGG	p.G31G	THEMIS_uc010kfa.2_5'UTR|THEMIS_uc011ebt.1_Silent_p.G31G|THEMIS_uc010kfb.2_5'UTR	NM_001010923	NP_001010923	Q8N1K5	THMS1_HUMAN	thymocyte selection pathway associated isoform	31	CABIT 1.				negative T cell selection|positive T cell selection|T cell receptor signaling pathway	cytoplasm|nucleus				ovary(2)|skin(2)	4						CATAAATAGAGCCTAAAAGGA	0.284													21	33	---	---	---	---	PASS
LAMA2	3908	broad.mit.edu	37	6	129777610	129777610	+	Missense_Mutation	SNP	T	C	C			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:129777610T>C	uc003qbn.2	+	47	6943	c.6838T>C	c.(6838-6840)TTT>CTT	p.F2280L	LAMA2_uc003qbo.2_Missense_Mutation_p.F2280L	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	2280	Laminin G-like 1.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		TGCAATGCTGTTTGTTGGTGG	0.463													103	179	---	---	---	---	PASS
TAAR9	134860	broad.mit.edu	37	6	132859838	132859838	+	Missense_Mutation	SNP	C	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:132859838C>T	uc011eci.1	+	2	412	c.410C>T	c.(409-411)CCT>CTT	p.P137L		NM_175057	NP_778227	Q96RI9	TAAR9_HUMAN	trace amine associated receptor 9	137	Cytoplasmic (Potential).					plasma membrane	G-protein coupled receptor activity				0	Breast(56;0.112)			OV - Ovarian serous cystadenocarcinoma(155;0.0042)|GBM - Glioblastoma multiforme(226;0.00816)		GTTACTGATCCTCTGACCTAT	0.363													35	58	---	---	---	---	PASS
KIAA1244	57221	broad.mit.edu	37	6	138655785	138655785	+	Silent	SNP	C	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:138655785C>T	uc003qhu.2	+	33	5802	c.5802C>T	c.(5800-5802)GGC>GGT	p.G1934G		NM_020340	NP_065073	Q5TH69	BIG3_HUMAN	brefeldin A-inhibited guanine	1934					regulation of ARF protein signal transduction	cytoplasm|integral to membrane	ARF guanyl-nucleotide exchange factor activity			ovary(1)|skin(1)	2	Breast(32;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00102)|GBM - Glioblastoma multiforme(68;0.00259)		TCTTCAAGGGCGACCCGTTCT	0.562													4	46	---	---	---	---	PASS
TIAM2	26230	broad.mit.edu	37	6	155504519	155504519	+	Silent	SNP	A	C	C			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:155504519A>C	uc003qqb.2	+	16	4222	c.2949A>C	c.(2947-2949)ACA>ACC	p.T983T	TIAM2_uc003qqe.2_Silent_p.T983T|TIAM2_uc010kjj.2_Silent_p.T516T|TIAM2_uc003qqf.2_Silent_p.T359T|TIAM2_uc011efl.1_Silent_p.T319T|TIAM2_uc003qqg.2_Silent_p.T295T	NM_012454	NP_036586	Q8IVF5	TIAM2_HUMAN	T-cell lymphoma invasion and metastasis 2	983					apoptosis|cellular lipid metabolic process|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|filopodium|growth cone|lamellipodium	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			ovary(3)|breast(1)	4		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;8.1e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0053)		CCCTGTGTACATCCTGGTCAG	0.527													35	67	---	---	---	---	PASS
C6orf118	168090	broad.mit.edu	37	6	165715433	165715433	+	Silent	SNP	G	T	T	rs34717417	byFrequency	TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:165715433G>T	uc003qum.3	-	2	414	c.378C>A	c.(376-378)ACC>ACA	p.T126T	C6orf118_uc011egi.1_RNA	NM_144980	NP_659417	Q5T5N4	CF118_HUMAN	hypothetical protein LOC168090	126											0		Breast(66;6.27e-05)|Ovarian(120;0.0228)|Prostate(117;0.0906)|all_neural(5;0.157)		OV - Ovarian serous cystadenocarcinoma(33;3.23e-18)|BRCA - Breast invasive adenocarcinoma(81;3.11e-06)|GBM - Glioblastoma multiforme(31;0.000313)		TGAACAGCGGGGTGTCCTGGG	0.622													16	125	---	---	---	---	PASS
THBS2	7058	broad.mit.edu	37	6	169641892	169641892	+	Missense_Mutation	SNP	G	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr6:169641892G>A	uc003qwt.2	-	6	1104	c.856C>T	c.(856-858)CTC>TTC	p.L286F		NM_003247	NP_003238	P35442	TSP2_HUMAN	thrombospondin 2 precursor	286					cell adhesion	extracellular region	calcium ion binding|heparin binding|protein binding|structural molecule activity			ovary(5)	5		Breast(66;1.78e-05)|Ovarian(120;0.0728)|Esophageal squamous(34;0.247)		OV - Ovarian serous cystadenocarcinoma(33;1.85e-21)|BRCA - Breast invasive adenocarcinoma(81;1.43e-06)|GBM - Glioblastoma multiforme(31;0.000379)		TGGTTCACGAGGACGTGGAGC	0.672													29	77	---	---	---	---	PASS
ZFAND2A	90637	broad.mit.edu	37	7	1195151	1195151	+	Missense_Mutation	SNP	C	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr7:1195151C>G	uc003skc.2	-	4	521	c.220G>C	c.(220-222)GTG>CTG	p.V74L	ZFAND2A_uc003skd.3_Missense_Mutation_p.V74L	NM_182491	NP_872297	Q8N6M9	ZFN2A_HUMAN	zinc finger, AN1-type domain 2A	74						cytoplasm|nucleus	zinc ion binding			ovary(1)	1		Ovarian(82;0.11)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0178)|OV - Ovarian serous cystadenocarcinoma(56;1.82e-15)		CCAACCACCACGTCTGGTATC	0.483													52	91	---	---	---	---	PASS
CRHR2	1395	broad.mit.edu	37	7	30706895	30706895	+	Silent	SNP	C	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr7:30706895C>G	uc003tbn.2	-	3	508	c.264G>C	c.(262-264)ACG>ACC	p.T88T	CRHR2_uc010kvw.1_Silent_p.T88T|CRHR2_uc010kvx.1_Silent_p.T88T|CRHR2_uc010kvy.1_Intron|CRHR2_uc003tbo.2_Silent_p.T74T|CRHR2_uc003tbp.2_Silent_p.T115T	NM_001883	NP_001874	Q13324	CRFR2_HUMAN	corticotropin releasing hormone receptor 2	88	Extracellular (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger	integral to plasma membrane	corticotrophin-releasing factor receptor activity|protein binding			lung(2)|ovary(1)|skin(1)	4						TTGAGGCCCACGTCCCATTCT	0.537													36	84	---	---	---	---	PASS
CCDC129	223075	broad.mit.edu	37	7	31618018	31618018	+	Silent	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr7:31618018C>A	uc003tcj.1	+	8	2133	c.1140C>A	c.(1138-1140)GGC>GGA	p.G380G	CCDC129_uc011kad.1_Silent_p.G390G|CCDC129_uc003tci.1_Intron|CCDC129_uc011kae.1_Silent_p.G406G|CCDC129_uc003tck.1_Silent_p.G288G	NM_194300	NP_919276	Q6ZRS4	CC129_HUMAN	coiled-coil domain containing 129	380											0						ATCTTGCAGGCAAAGGACCAG	0.483													14	35	---	---	---	---	PASS
CCDC129	223075	broad.mit.edu	37	7	31682532	31682532	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr7:31682532G>T	uc003tcj.1	+	11	2541	c.1548G>T	c.(1546-1548)GAG>GAT	p.E516D	CCDC129_uc011kad.1_Missense_Mutation_p.E526D|CCDC129_uc003tci.1_Missense_Mutation_p.E367D|CCDC129_uc011kae.1_Missense_Mutation_p.E542D|CCDC129_uc003tck.1_Missense_Mutation_p.E424D	NM_194300	NP_919276	Q6ZRS4	CC129_HUMAN	coiled-coil domain containing 129	516											0						GGCCACCAGAGCTGTATATCC	0.542													6	126	---	---	---	---	PASS
CCDC129	223075	broad.mit.edu	37	7	31683037	31683037	+	Missense_Mutation	SNP	G	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr7:31683037G>A	uc003tcj.1	+	11	3046	c.2053G>A	c.(2053-2055)GGT>AGT	p.G685S	CCDC129_uc011kad.1_Missense_Mutation_p.G695S|CCDC129_uc003tci.1_Missense_Mutation_p.G536S|CCDC129_uc011kae.1_Missense_Mutation_p.G711S|CCDC129_uc003tck.1_Missense_Mutation_p.G593S	NM_194300	NP_919276	Q6ZRS4	CC129_HUMAN	coiled-coil domain containing 129	685											0						TGGTACTTTGGGTCAGATACT	0.498													27	50	---	---	---	---	PASS
KBTBD2	25948	broad.mit.edu	37	7	32909082	32909082	+	Missense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr7:32909082C>A	uc003tdb.2	-	4	2406	c.1747G>T	c.(1747-1749)GTG>TTG	p.V583L	AVL9_uc011kai.1_Intron	NM_015483	NP_056298	Q8IY47	KBTB2_HUMAN	kelch repeat and BTB (POZ) domain containing 2	583											0			GBM - Glioblastoma multiforme(11;0.0499)			AGTTTCCCCACAGTGCATCGA	0.483													26	110	---	---	---	---	PASS
DPY19L1	23333	broad.mit.edu	37	7	35009140	35009140	+	Missense_Mutation	SNP	T	C	C			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr7:35009140T>C	uc003tem.3	-	9	845	c.700A>G	c.(700-702)ACA>GCA	p.T234A		NM_015283	NP_056098	Q2PZI1	D19L1_HUMAN	dpy-19-like 1	234						integral to membrane					0						TAAAGTTTTGTAGCCCTTGAA	0.353													24	22	---	---	---	---	PASS
PGAM2	5224	broad.mit.edu	37	7	44104495	44104495	+	Silent	SNP	G	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr7:44104495G>A	uc003tjs.2	-	2	566	c.531C>T	c.(529-531)GCC>GCT	p.A177A		NM_000290	NP_000281	P15259	PGAM2_HUMAN	phosphoglycerate mutase 2	177					gluconeogenesis|glycolysis|striated muscle contraction	cytosol	2,3-bisphospho-D-glycerate 2-phosphohydrolase activity|bisphosphoglycerate mutase activity				0						CTCGCTTGCCGGCCTTGATCT	0.647													12	22	---	---	---	---	PASS
MYO1G	64005	broad.mit.edu	37	7	45004657	45004657	+	Missense_Mutation	SNP	G	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr7:45004657G>A	uc003tmh.2	-	18	2557	c.2413C>T	c.(2413-2415)CCC>TCC	p.P805S	MYO1G_uc003tmf.2_Missense_Mutation_p.P248S|MYO1G_uc003tmg.2_Missense_Mutation_p.P567S|MYO1G_uc010kym.2_Missense_Mutation_p.P690S	NM_033054	NP_149043	B0I1T2	MYO1G_HUMAN	myosin IG	805						myosin complex|plasma membrane	actin binding|ATP binding|calmodulin binding|motor activity			breast(2)|ovary(1)|pancreas(1)	4						TCTGAAGGGGGGATGTTCTTC	0.662													26	82	---	---	---	---	PASS
CCM2	83605	broad.mit.edu	37	7	45113071	45113071	+	Silent	SNP	A	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr7:45113071A>G	uc003tmo.2	+	8	962	c.816A>G	c.(814-816)GAA>GAG	p.E272E	CCM2_uc003tmn.2_RNA|CCM2_uc003tmp.2_Silent_p.E214E|CCM2_uc003tmq.2_RNA|CCM2_uc003tmr.2_Silent_p.E181E|CCM2_uc003tms.2_Silent_p.E293E	NM_031443	NP_113631	Q9BSQ5	CCM2_HUMAN	cerebral cavernous malformation 2 isoform 2	272					endothelial tube morphogenesis|integrin-mediated signaling pathway|stress-activated MAPK cascade|vasculogenesis	cytoplasm	protein binding				0						GCTTCCCTGAATCTGTGGATG	0.587									Familial_Cerebral_Cavernous_Angioma				5	37	---	---	---	---	PASS
IKZF1	10320	broad.mit.edu	37	7	50467916	50467916	+	Nonsense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr7:50467916C>A	uc003tow.3	+	9	1319	c.1151C>A	c.(1150-1152)TCG>TAG	p.S384*	IKZF1_uc003tox.3_Nonsense_Mutation_p.S342*|IKZF1_uc003toy.3_Nonsense_Mutation_p.S342*|IKZF1_uc011kck.1_Nonsense_Mutation_p.S297*|IKZF1_uc003toz.3_Nonsense_Mutation_p.S354*|IKZF1_uc010kyx.2_Nonsense_Mutation_p.S124*|IKZF1_uc003tpa.3_Nonsense_Mutation_p.S126*	NM_006060	NP_006051	Q13422	IKZF1_HUMAN	zinc finger protein, subfamily 1A, 1 (Ikaros)	384					cell cycle|chromatin modification|mesoderm development	cytoplasm|nucleus	zinc ion binding			haematopoietic_and_lymphoid_tissue(147)|lung(1)	148	Glioma(55;0.08)|all_neural(89;0.245)	Acute lymphoblastic leukemia(4;7.29e-10)|all_hematologic(4;4.8e-07)				TTGGTGCCCTCGGAGCGCGAG	0.667			D		ALL								6	5	---	---	---	---	PASS
TYW1	55253	broad.mit.edu	37	7	66703398	66703398	+	Missense_Mutation	SNP	A	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr7:66703398A>G	uc003tvn.2	+	16	2230	c.2081A>G	c.(2080-2082)AAG>AGG	p.K694R	TYW1_uc010lai.2_RNA|TYW1_uc011kef.1_Missense_Mutation_p.K308R|PMS2L4_uc003tvo.2_Intron	NM_018264	NP_060734	Q9NV66	TYW1_HUMAN	radical S-adenosyl methionine and flavodoxin	694					tRNA processing		4 iron, 4 sulfur cluster binding|FMN binding|iron ion binding|oxidoreductase activity			skin(1)	1		Lung NSC(55;0.0846)|all_lung(88;0.183)				TTCAGCGCAAAGGATTATATG	0.438													22	61	---	---	---	---	PASS
GRM3	2913	broad.mit.edu	37	7	86394893	86394893	+	Silent	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr7:86394893G>T	uc003uid.2	+	2	1531	c.432G>T	c.(430-432)GGG>GGT	p.G144G	GRM3_uc010lef.2_Silent_p.G142G|GRM3_uc010leg.2_Intron|GRM3_uc010leh.2_Intron	NM_000840	NP_000831	Q14832	GRM3_HUMAN	glutamate receptor, metabotropic 3 precursor	144	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(4)|ovary(3)|central_nervous_system(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|prostate(1)	13	Esophageal squamous(14;0.0058)|all_lung(186;0.132)|Lung NSC(181;0.142)				Acamprosate(DB00659)|Nicotine(DB00184)	TCATTGCAGGGGTCATTGGTG	0.423													13	103	---	---	---	---	PASS
ABCB4	5244	broad.mit.edu	37	7	87069537	87069537	+	Missense_Mutation	SNP	T	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr7:87069537T>A	uc003uiv.1	-	13	1614	c.1538A>T	c.(1537-1539)GAG>GTG	p.E513V	ABCB4_uc003uiw.1_Missense_Mutation_p.E513V|ABCB4_uc003uix.1_Missense_Mutation_p.E513V	NM_018849	NP_061337	P21439	MDR3_HUMAN	ATP-binding cassette, subfamily B, member 4	513	ABC transporter 1.|Cytoplasmic (By similarity).				cellular lipid metabolic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|xenobiotic-transporting ATPase activity			ovary(4)|skin(1)|pancreas(1)	6	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)					CATGATAAACTCATAGGCGTT	0.373													35	88	---	---	---	---	PASS
MUC17	140453	broad.mit.edu	37	7	100682917	100682917	+	Silent	SNP	C	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr7:100682917C>T	uc003uxp.1	+	3	8273	c.8220C>T	c.(8218-8220)AGC>AGT	p.S2740S	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	2740	Extracellular (Potential).|Ser-rich.|59 X approximate tandem repeats.|44.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					AAGGTACCAGCATGCGAATCT	0.498													87	244	---	---	---	---	PASS
ARF5	381	broad.mit.edu	37	7	127231092	127231092	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr7:127231092G>T	uc003vmb.1	+	5	442	c.406G>T	c.(406-408)GTG>TTG	p.V136L	FSCN3_uc003vmc.1_5'Flank|FSCN3_uc011kog.1_5'Flank|FSCN3_uc011koh.1_5'Flank|FSCN3_uc003vmd.1_5'Flank|FSCN3_uc010llc.1_5'Flank	NM_001662	NP_001653	P84085	ARF5_HUMAN	ADP-ribosylation factor 5	136					protein transport|small GTPase mediated signal transduction|vesicle-mediated transport	Golgi apparatus|perinuclear region of cytoplasm	GTP binding|GTPase activity|protein binding			ovary(1)	1						CGCCATGCCCGTGAGCGAGCT	0.612													62	251	---	---	---	---	PASS
FAM131B	9715	broad.mit.edu	37	7	143053859	143053859	+	Silent	SNP	C	A	A	rs144329877	by1000genomes	TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr7:143053859C>A	uc003wct.2	-	6	2489	c.783G>T	c.(781-783)CCG>CCT	p.P261P	FAM131B_uc010loz.2_Silent_p.P229P|FAM131B_uc003wcu.3_Silent_p.P261P|FAM131B_uc010lpa.2_Silent_p.P289P	NM_014690	NP_055505	Q86XD5	F131B_HUMAN	hypothetical protein LOC9715 isoform b	261											0	Melanoma(164;0.205)					CGCCTACCCCCGGAGCCCAGT	0.622													143	123	---	---	---	---	PASS
NOBOX	135935	broad.mit.edu	37	7	144098589	144098589	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr7:144098589G>T	uc011kue.1	-	4	394	c.394C>A	c.(394-396)CCA>ACA	p.P132T		NM_001080413	NP_001073882	O60393	NOBOX_HUMAN	NOBOX oogenesis homeobox	132					cell differentiation|oogenesis	nucleus	sequence-specific DNA binding			ovary(1)	1	Melanoma(164;0.14)					CAGGAGGGTGGCAGTTCCTCA	0.657													18	77	---	---	---	---	PASS
CNTNAP2	26047	broad.mit.edu	37	7	146818117	146818117	+	Silent	SNP	A	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr7:146818117A>G	uc003weu.1	+	6	1317	c.801A>G	c.(799-801)ACA>ACG	p.T267T		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	267	Laminin G-like 1.|Extracellular (Potential).				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			CAGTGATGACAGGAAGTTTGC	0.517										HNSCC(39;0.1)			72	72	---	---	---	---	PASS
CNTNAP2	26047	broad.mit.edu	37	7	147844663	147844663	+	Missense_Mutation	SNP	G	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr7:147844663G>A	uc003weu.1	+	17	3151	c.2635G>A	c.(2635-2637)GAT>AAT	p.D879N		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	879	Laminin G-like 3.|Extracellular (Potential).				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			CCCTCTCAACGATGACCAGTG	0.562										HNSCC(39;0.1)			106	123	---	---	---	---	PASS
GIMAP1	170575	broad.mit.edu	37	7	150417936	150417936	+	Silent	SNP	C	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr7:150417936C>T	uc003whq.2	+	3	931	c.844C>T	c.(844-846)CTG>TTG	p.L282L	GIMAP1_uc003whp.2_Silent_p.L290L	NM_130759	NP_570115	Q8WWP7	GIMA1_HUMAN	GTPase, IMAP family member 1	282	Helical; Anchor for type IV membrane protein; (Potential).					endoplasmic reticulum membrane|integral to membrane	GTP binding			ovary(1)|breast(1)|central_nervous_system(1)	3			OV - Ovarian serous cystadenocarcinoma(82;0.0145)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		GGCCCTGCTGCTGGGGGGCGC	0.697													4	23	---	---	---	---	PASS
TMEM176A	55365	broad.mit.edu	37	7	150499388	150499388	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr7:150499388G>T	uc003whx.1	+	3	338	c.260G>T	c.(259-261)GGA>GTA	p.G87V	TMEM176B_uc003whu.3_5'Flank|TMEM176B_uc003whv.3_5'Flank|TMEM176B_uc003whw.3_5'Flank	NM_018487	NP_060957	Q96HP8	T176A_HUMAN	hepatocellular carcinoma-associated antigen 112	87	Helical; (Potential).					integral to membrane				ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		GTCACCTCGGGAGCTGCCATC	0.562													41	48	---	---	---	---	PASS
MIR595	693180	broad.mit.edu	37	7	158325457	158325457	+	RNA	SNP	T	C	C			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr7:158325457T>C	hsa-mir-595|MI0003607	-			c.49T>C			PTPRN2_uc003wno.2_Intron|PTPRN2_uc003wnp.2_Intron|PTPRN2_uc003wnq.2_Intron|PTPRN2_uc003wnr.2_Intron|PTPRN2_uc011kwa.1_Intron																	0						ACCTGTTCCTTACAAGACTAC	0.507													62	195	---	---	---	---	PASS
C8orf79	57604	broad.mit.edu	37	8	12879025	12879025	+	Silent	SNP	T	C	C			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr8:12879025T>C	uc010lsq.2	+	5	1329	c.837T>C	c.(835-837)AGT>AGC	p.S279S	C8orf79_uc011kxw.1_Intron|C8orf79_uc003wwj.3_Silent_p.S192S|C8orf79_uc010lsr.2_Silent_p.S153S	NM_020844	NP_065895	Q9P272	K1456_HUMAN	hypothetical protein LOC57604 isoform 1	279							methyltransferase activity				0						TTTGGGCCAGTAGCACTGTAA	0.423													27	45	---	---	---	---	PASS
STC1	6781	broad.mit.edu	37	8	23709836	23709836	+	Silent	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr8:23709836C>A	uc003xdw.1	-	2	464	c.180G>T	c.(178-180)CTG>CTT	p.L60L		NM_003155	NP_003146	P52823	STC1_HUMAN	stanniocalcin 1 precursor	60					cell surface receptor linked signaling pathway|cell-cell signaling|cellular calcium ion homeostasis		hormone activity			skin(3)|upper_aerodigestive_tract(1)	4		Prostate(55;0.055)|Breast(100;0.116)		Colorectal(74;0.0155)|COAD - Colon adenocarcinoma(73;0.0632)		TGGAGTTTTCCAGGCATGCAA	0.478													45	61	---	---	---	---	PASS
ADAM7	8756	broad.mit.edu	37	8	24342837	24342837	+	Missense_Mutation	SNP	G	C	C			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr8:24342837G>C	uc003xeb.2	+	10	1036	c.923G>C	c.(922-924)GGT>GCT	p.G308A	ADAM7_uc003xec.2_Missense_Mutation_p.G80A	NM_003817	NP_003808	Q9H2U9	ADAM7_HUMAN	a disintegrin and metalloproteinase domain 7	308	Peptidase M12B.|Extracellular (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(1)|kidney(1)	5		Prostate(55;0.0181)		Colorectal(74;0.0199)|COAD - Colon adenocarcinoma(73;0.0754)|BRCA - Breast invasive adenocarcinoma(99;0.182)		TATCCAGGGGGTATGTGCCTG	0.353													51	92	---	---	---	---	PASS
TEX15	56154	broad.mit.edu	37	8	30705226	30705226	+	Silent	SNP	G	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr8:30705226G>A	uc003xil.2	-	1	1308	c.1308C>T	c.(1306-1308)AAC>AAT	p.N436N		NM_031271	NP_112561	Q9BXT5	TEX15_HUMAN	testis expressed 15	436										ovary(3)|upper_aerodigestive_tract(2)|skin(2)	7				KIRC - Kidney renal clear cell carcinoma(542;0.0918)|Kidney(114;0.111)		CTCTCTGAATGTTCTCTAATG	0.348													57	129	---	---	---	---	PASS
WRN	7486	broad.mit.edu	37	8	31024623	31024623	+	Silent	SNP	A	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr8:31024623A>G	uc003xio.3	+	34	4856	c.4068A>G	c.(4066-4068)AAA>AAG	p.K1356K	WRN_uc010lvk.2_Silent_p.K823K	NM_000553	NP_000544	Q14191	WRN_HUMAN	Werner syndrome protein	1356					base-excision repair|cellular response to starvation|DNA recombination|DNA synthesis involved in DNA repair|multicellular organismal aging|nucleolus to nucleoplasm transport|positive regulation of hydrolase activity|regulation of apoptosis|replication fork processing|response to oxidative stress|response to UV-C|telomere maintenance	centrosome|nucleolus|nucleoplasm	3'-5' exonuclease activity|ATP binding|ATP-dependent 3'-5' DNA helicase activity|bubble DNA binding|four-way junction helicase activity|G-quadruplex DNA binding|magnesium ion binding|manganese ion binding|protein complex binding|protein homodimerization activity|Y-form DNA binding			ovary(2)|kidney(2)|large_intestine(1)|lung(1)|skin(1)	7		Breast(100;0.195)		KIRC - Kidney renal clear cell carcinoma(542;0.147)|Kidney(114;0.176)|Colorectal(111;0.192)		AGATCCTTAAACATGGTCCTG	0.388			Mis|N|F|S			osteosarcoma|meningioma|others		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Werner_syndrome				20	29	---	---	---	---	PASS
KCNU1	157855	broad.mit.edu	37	8	36698064	36698064	+	Silent	SNP	T	C	C			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr8:36698064T>C	uc010lvw.2	+	15	1689	c.1602T>C	c.(1600-1602)TTT>TTC	p.F534F	KCNU1_uc003xjw.2_RNA	NM_001031836	NP_001027006	A8MYU2	KCNU1_HUMAN	potassium channel, subfamily U, member 1	534	Cytoplasmic (Potential).					voltage-gated potassium channel complex	binding|large conductance calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(67;0.0504)|Kidney(114;0.0634)		CTGATGACTTTGCTGGAATGA	0.343													14	19	---	---	---	---	PASS
MYST3	7994	broad.mit.edu	37	8	41834527	41834527	+	Silent	SNP	T	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr8:41834527T>A	uc010lxb.2	-	8	1906	c.1362A>T	c.(1360-1362)ACA>ACT	p.T454T	MYST3_uc010lxc.2_Silent_p.T454T|MYST3_uc003xon.3_Silent_p.T454T|MYST3_uc010lxd.2_Silent_p.T454T	NM_001099412	NP_001092882	Q92794	MYST3_HUMAN	MYST histone acetyltransferase (monocytic	454	Interaction with RUNX1-1.				histone H3 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription coactivator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7	all_epithelial(6;1.12e-27)|all_lung(13;3.94e-12)|Lung NSC(13;6.54e-11)|Ovarian(28;0.00744)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000294)|Lung NSC(58;0.00105)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	Epithelial(1;2.82e-19)|all cancers(1;1.15e-16)|BRCA - Breast invasive adenocarcinoma(8;9.17e-11)|OV - Ovarian serous cystadenocarcinoma(14;9.4e-05)|Colorectal(10;0.000728)|Lung(22;0.00153)|LUSC - Lung squamous cell carcinoma(45;0.00741)|COAD - Colon adenocarcinoma(11;0.0171)			AACTCTTACCTGTGGGCCAAT	0.388													35	92	---	---	---	---	PASS
ST18	9705	broad.mit.edu	37	8	53030927	53030927	+	Missense_Mutation	SNP	C	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr8:53030927C>T	uc003xqz.2	-	19	2986	c.2830G>A	c.(2830-2832)GAA>AAA	p.E944K	ST18_uc011ldq.1_Missense_Mutation_p.E591K|ST18_uc011ldr.1_Missense_Mutation_p.E909K|ST18_uc011lds.1_Missense_Mutation_p.E849K|ST18_uc003xra.2_Missense_Mutation_p.E944K	NM_014682	NP_055497	O60284	ST18_HUMAN	suppression of tumorigenicity 18	944	Potential.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(129;0.131)|all_epithelial(80;0.217)|all_lung(136;0.229)				ATATCTGCTTCAATTTTAAGG	0.308													29	45	---	---	---	---	PASS
ZFHX4	79776	broad.mit.edu	37	8	77765162	77765162	+	Missense_Mutation	SNP	C	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr8:77765162C>G	uc003yav.2	+	10	6257	c.5870C>G	c.(5869-5871)ACG>AGG	p.T1957R	ZFHX4_uc003yau.1_Missense_Mutation_p.T2002R|ZFHX4_uc003yaw.1_Missense_Mutation_p.T1957R	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	1957	Pro-rich.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			TCTCCAGAAACGccgcccccg	0.318										HNSCC(33;0.089)			5	8	---	---	---	---	PASS
DCAF4L2	138009	broad.mit.edu	37	8	88885555	88885555	+	Silent	SNP	C	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr8:88885555C>G	uc003ydz.2	-	1	742	c.645G>C	c.(643-645)ACG>ACC	p.T215T		NM_152418	NP_689631	Q8NA75	DC4L2_HUMAN	WD repeat domain 21C	215										ovary(1)	1						GCTGGTGTCCCGTCACCACGT	0.542													54	132	---	---	---	---	PASS
RUNX1T1	862	broad.mit.edu	37	8	93017503	93017503	+	Missense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr8:93017503C>A	uc003yfd.2	-	5	665	c.581G>T	c.(580-582)CGT>CTT	p.R194L	RUNX1T1_uc003yfc.1_Missense_Mutation_p.R167L|RUNX1T1_uc003yfe.1_Missense_Mutation_p.R157L|RUNX1T1_uc010mao.2_Missense_Mutation_p.R167L|RUNX1T1_uc011lgi.1_Missense_Mutation_p.R205L|RUNX1T1_uc003yfb.1_Missense_Mutation_p.R157L|RUNX1T1_uc003yff.1_Missense_Mutation_p.R157L	NM_175634	NP_783552	Q06455	MTG8_HUMAN	acute myelogenous leukemia 1 translocation 1	194	TAFH.				generation of precursor metabolites and energy	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(9)|large_intestine(3)|breast(2)|central_nervous_system(1)|pancreas(1)	16			BRCA - Breast invasive adenocarcinoma(11;0.0141)			GAGGAGCTCACGCTGCAGCAG	0.547													26	55	---	---	---	---	PASS
FZD6	8323	broad.mit.edu	37	8	104330981	104330981	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr8:104330981G>T	uc003ylh.2	+	3	625	c.341G>T	c.(340-342)GGG>GTG	p.G114V	FZD6_uc003yli.2_Missense_Mutation_p.G114V|FZD6_uc003ylj.2_Missense_Mutation_p.G114V|FZD6_uc011lhn.1_Missense_Mutation_p.G80V|FZD6_uc011lho.1_Intron|FZD6_uc011lhp.1_Missense_Mutation_p.G59V	NM_003506	NP_003497	O60353	FZD6_HUMAN	frizzled 6 isoform a precursor	114	FZ.|Extracellular (Potential).				angiogenesis|axonogenesis|cell proliferation in midbrain|establishment of planar polarity|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|inner ear morphogenesis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of sequence-specific DNA binding transcription factor activity|neural tube closure|non-canonical Wnt receptor signaling pathway	apical part of cell|apicolateral plasma membrane|cytoplasm|integral to plasma membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			central_nervous_system(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(57;2.86e-05)|STAD - Stomach adenocarcinoma(118;0.197)			GACACTTTTGGGATCCGATGG	0.378													5	124	---	---	---	---	PASS
PKHD1L1	93035	broad.mit.edu	37	8	110457003	110457003	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr8:110457003G>T	uc003yne.2	+	38	5009	c.4905G>T	c.(4903-4905)TTG>TTT	p.L1635F		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	1635	Extracellular (Potential).|IPT/TIG 8.				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			CTGTCACTTTGACTGTCTACA	0.423										HNSCC(38;0.096)			133	257	---	---	---	---	PASS
MED30	90390	broad.mit.edu	37	8	118533154	118533154	+	Silent	SNP	C	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr8:118533154C>T	uc003yoj.2	+	1	190	c.39C>T	c.(37-39)CCC>CCT	p.P13P	MED30_uc011lib.1_Silent_p.P13P	NM_080651	NP_542382	Q96HR3	MED30_HUMAN	TRAP/Mediator complex component TRAP25	13					androgen receptor signaling pathway|positive regulation of transcription, DNA-dependent|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding				0	all_cancers(13;3.41e-25)|Lung NSC(37;3.02e-05)|Ovarian(258;0.00163)		STAD - Stomach adenocarcinoma(47;0.0266)			GGATGGCGCCCGGGCCCTTCG	0.716													8	14	---	---	---	---	PASS
KCNQ3	3786	broad.mit.edu	37	8	133142111	133142111	+	Nonsense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr8:133142111C>A	uc003ytj.2	-	15	2242	c.2017G>T	c.(2017-2019)GAG>TAG	p.E673*	KCNQ3_uc010mdt.2_Nonsense_Mutation_p.E661*	NM_004519	NP_004510	O43525	KCNQ3_HUMAN	potassium voltage-gated channel KQT-like protein	673					axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5	Esophageal squamous(12;0.00507)|Ovarian(258;0.00579)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000311)			CTGTTGTCCTCCTTCTTCTCT	0.527													53	136	---	---	---	---	PASS
FAM135B	51059	broad.mit.edu	37	8	139189639	139189639	+	Missense_Mutation	SNP	A	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr8:139189639A>T	uc003yuy.2	-	11	1225	c.1054T>A	c.(1054-1056)TTT>ATT	p.F352I	FAM135B_uc003yux.2_Missense_Mutation_p.F253I|FAM135B_uc003yuz.2_RNA	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	352										ovary(7)|skin(2)	9	all_epithelial(106;8.29e-14)|Lung NSC(106;6.88e-06)|all_lung(105;1.44e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0805)			TCCATGTAAAAGAAGGCCTCA	0.403										HNSCC(54;0.14)			18	41	---	---	---	---	PASS
COL22A1	169044	broad.mit.edu	37	8	139674290	139674290	+	Missense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr8:139674290C>A	uc003yvd.2	-	43	3670	c.3223G>T	c.(3223-3225)GGC>TGC	p.G1075C	COL22A1_uc011ljo.1_Missense_Mutation_p.G355C	NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	1075	Pro-rich.|Gly-rich.|Collagen-like 9.				cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(11)|pancreas(1)|skin(1)	13	all_epithelial(106;1.55e-12)|Lung NSC(106;1.67e-05)|all_lung(105;3.39e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0517)			CCGGCTGGGCCCTGGGGGCCA	0.552										HNSCC(7;0.00092)			38	104	---	---	---	---	PASS
EPPK1	83481	broad.mit.edu	37	8	144945978	144945978	+	Missense_Mutation	SNP	A	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr8:144945978A>G	uc003zaa.1	-	1	1457	c.1444T>C	c.(1444-1446)TTC>CTC	p.F482L		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	482						cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			TACTTGATGAATGGGGGTCCC	0.677													12	35	---	---	---	---	PASS
KANK1	23189	broad.mit.edu	37	9	745225	745225	+	Missense_Mutation	SNP	C	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr9:745225C>T	uc003zgl.1	+	16	4698	c.4049C>T	c.(4048-4050)TCA>TTA	p.S1350L	KANK1_uc003zgn.1_Missense_Mutation_p.S1350L|KANK1_uc003zgs.1_Missense_Mutation_p.S1192L|KANK1_uc010mgx.1_Missense_Mutation_p.S328L|KANK1_uc010mgy.1_Missense_Mutation_p.S262L|KANK1_uc003zgt.1_3'UTR	NM_015158	NP_055973	Q14678	KANK1_HUMAN	KN motif and ankyrin repeat domains 1 isoform a	1350					negative regulation of actin filament polymerization	cytoplasm				ovary(2)|central_nervous_system(1)|pancreas(1)	4		Lung NSC(10;9.84e-12)|all_lung(10;1.02e-11)|Breast(48;0.128)		Epithelial(6;0.000153)|OV - Ovarian serous cystadenocarcinoma(1;0.000358)|Lung(218;0.0222)		CACCGAGGTTCATTTGATTGA	0.453													202	119	---	---	---	---	PASS
PTPRD	5789	broad.mit.edu	37	9	8527345	8527345	+	Missense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr9:8527345C>A	uc003zkk.2	-	15	1261	c.550G>T	c.(550-552)GGT>TGT	p.G184C	PTPRD_uc003zkp.2_Missense_Mutation_p.G184C|PTPRD_uc003zkq.2_Missense_Mutation_p.G184C|PTPRD_uc003zkr.2_Nonsense_Mutation_p.G184*|PTPRD_uc003zks.2_Nonsense_Mutation_p.G184*|PTPRD_uc003zkl.2_Missense_Mutation_p.G184C|PTPRD_uc003zkm.2_Intron|PTPRD_uc003zkn.2_Missense_Mutation_p.G184C|PTPRD_uc003zko.2_Intron	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	184	Extracellular (Potential).|Ig-like C2-type 2.				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		AAGCACTTACCAATAGATTCT	0.289										TSP Lung(15;0.13)			11	101	---	---	---	---	PASS
MLLT3	4300	broad.mit.edu	37	9	20414001	20414001	+	Silent	SNP	A	C	C			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr9:20414001A>C	uc003zoe.2	-	5	1102	c.843T>G	c.(841-843)CCT>CCG	p.P281P	MLLT3_uc011lne.1_Silent_p.P249P|MLLT3_uc011lnf.1_Silent_p.P278P|MLLT3_uc003zof.2_Silent_p.P82P	NM_004529	NP_004520	P42568	AF9_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	281					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			lung(2)|ovary(1)	3				GBM - Glioblastoma multiforme(3;4.35e-105)|Lung(42;3.48e-06)|LUSC - Lung squamous cell carcinoma(42;7.92e-05)		GCCTTTTACTAGGAGCCTTCT	0.418			T	MLL	ALL								205	186	---	---	---	---	PASS
ELAVL2	1993	broad.mit.edu	37	9	23762131	23762131	+	Silent	SNP	T	C	C			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr9:23762131T>C	uc003zpu.2	-	2	377	c.102A>G	c.(100-102)ACA>ACG	p.T34T	ELAVL2_uc003zps.2_Silent_p.T34T|ELAVL2_uc003zpt.2_Silent_p.T34T|ELAVL2_uc003zpv.2_Silent_p.T34T|ELAVL2_uc003zpw.2_Silent_p.T34T	NM_004432	NP_004423	Q12926	ELAV2_HUMAN	ELAV (embryonic lethal, abnormal vision,	34					regulation of transcription, DNA-dependent		mRNA 3'-UTR binding|nucleotide binding|protein binding			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(1;2.18e-156)|Lung(42;2.15e-28)|LUSC - Lung squamous cell carcinoma(38;1.02e-19)		TGCTGTCTTCTGTGTTCCCAG	0.443													229	159	---	---	---	---	PASS
ELAVL2	1993	broad.mit.edu	37	9	23762132	23762132	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr9:23762132G>T	uc003zpu.2	-	2	376	c.101C>A	c.(100-102)ACA>AAA	p.T34K	ELAVL2_uc003zps.2_Missense_Mutation_p.T34K|ELAVL2_uc003zpt.2_Missense_Mutation_p.T34K|ELAVL2_uc003zpv.2_Missense_Mutation_p.T34K|ELAVL2_uc003zpw.2_Missense_Mutation_p.T34K	NM_004432	NP_004423	Q12926	ELAV2_HUMAN	ELAV (embryonic lethal, abnormal vision,	34					regulation of transcription, DNA-dependent		mRNA 3'-UTR binding|nucleotide binding|protein binding			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(1;2.18e-156)|Lung(42;2.15e-28)|LUSC - Lung squamous cell carcinoma(38;1.02e-19)		GCTGTCTTCTGTGTTCCCAGA	0.443													232	159	---	---	---	---	PASS
C9orf79	286234	broad.mit.edu	37	9	90502802	90502802	+	Missense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr9:90502802C>A	uc004app.3	+	4	3435	c.3400C>A	c.(3400-3402)CAC>AAC	p.H1134N		NM_178828	NP_849150	Q6ZUB1	CI079_HUMAN	chromosome 9 open reading frame 79	1134						integral to membrane				ovary(3)	3						TCCAGGCCGCCACATGGACAT	0.652													18	64	---	---	---	---	PASS
RGS3	5998	broad.mit.edu	37	9	116357881	116357881	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr9:116357881G>T	uc004bhq.2	+	25	3456	c.3247G>T	c.(3247-3249)GGG>TGG	p.G1083W	RGS3_uc004bhs.2_Missense_Mutation_p.G973W|RGS3_uc004bht.2_Missense_Mutation_p.G802W|RGS3_uc010muy.2_Missense_Mutation_p.G476W|RGS3_uc004bhv.2_Missense_Mutation_p.G404W|RGS3_uc004bhw.2_Missense_Mutation_p.G53W|RGS3_uc011lxh.1_Missense_Mutation_p.G393W|RGS3_uc004bhx.2_Missense_Mutation_p.G404W|RGS3_uc004bhz.2_Missense_Mutation_p.G425W|RGS3_uc004bia.2_Missense_Mutation_p.G196W	NM_144488	NP_652759	P49796	RGS3_HUMAN	regulator of G-protein signalling 3 isoform 6	1083	RGS.				inactivation of MAPK activity|regulation of G-protein coupled receptor protein signaling pathway	cytosol|nucleus|plasma membrane	GTPase activator activity|signal transducer activity			ovary(1)|lung(1)|skin(1)	3						CCTCACAGACGGGTTAGCAGT	0.522													53	45	---	---	---	---	PASS
COL27A1	85301	broad.mit.edu	37	9	117051248	117051248	+	Splice_Site	SNP	G	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr9:117051248G>A	uc011lxl.1	+	44	4152	c.4152_splice	c.e44+1	p.P1384_splice	COL27A1_uc004bii.2_Splice_Site	NM_032888	NP_116277	Q8IZC6	CORA1_HUMAN	collagen, type XXVII, alpha 1 precursor						cell adhesion		extracellular matrix structural constituent			ovary(3)|skin(1)	4						GGGCCAACCCGTGAGTGGTGC	0.617													23	54	---	---	---	---	PASS
ORM1	5004	broad.mit.edu	37	9	117094113	117094113	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr9:117094113G>T	uc011lxo.1	+	5	555	c.444G>T	c.(442-444)AAG>AAT	p.K148N	ORM2_uc004bil.2_Missense_Mutation_p.K148N	NM_000607	NP_000598	P02763	A1AG1_HUMAN	orosomucoid 1 precursor	148					acute-phase response|regulation of immune system process|transport	extracellular space	protein binding				0		Myeloproliferative disorder(63;0.163)			Acenocoumarol(DB01418)|Alfentanil(DB00802)|Aprindine(DB01429)|Disopyramide(DB00280)|Penbutolol(DB01359)|Phenprocoumon(DB00946)|Quinidine(DB00908)|Tamsulosin(DB00706)	CAGCTGACAAGCCAGAGACGA	0.612													15	44	---	---	---	---	PASS
TNC	3371	broad.mit.edu	37	9	117793909	117793909	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr9:117793909G>T	uc004bjj.3	-	23	6205	c.5843C>A	c.(5842-5844)TCC>TAC	p.S1948Y	TNC_uc010mvf.2_Missense_Mutation_p.S1675Y	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	1948	Fibronectin type-III 15.				cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						GTAGTGGGTGGATGGGCTCAG	0.512													99	67	---	---	---	---	PASS
DBC1	1620	broad.mit.edu	37	9	122004458	122004458	+	Missense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr9:122004458C>A	uc004bkc.2	-	4	902	c.446G>T	c.(445-447)CGC>CTC	p.R149L	DBC1_uc004bkd.2_Missense_Mutation_p.R149L	NM_014618	NP_055433	O60477	DBC1_HUMAN	deleted in bladder cancer 1 precursor	149	MACPF.				cell cycle arrest|cell death	cytoplasm	protein binding			skin(3)|ovary(2)|central_nervous_system(2)|large_intestine(1)	8						CCTGTCGAGGCGACTTTTGTC	0.493													35	38	---	---	---	---	PASS
MRPL41	64975	broad.mit.edu	37	9	140446840	140446840	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr9:140446840G>T	uc004cnh.3	+	2	437	c.307G>T	c.(307-309)GAC>TAC	p.D103Y	PNPLA7_uc010ncj.1_5'Flank|PNPLA7_uc004cnf.2_5'Flank	NM_032477	NP_115866	Q8IXM3	RM41_HUMAN	mitochondrial ribosomal protein L41	103					apoptosis|cell cycle|translation	mitochondrial large ribosomal subunit	structural constituent of ribosome				0	all_cancers(76;0.106)			OV - Ovarian serous cystadenocarcinoma(145;0.000415)|Epithelial(140;0.00106)		CATCGAAAAGGACTTCAAGGA	0.612													31	21	---	---	---	---	PASS
ITIH2	3698	broad.mit.edu	37	10	7762836	7762836	+	Missense_Mutation	SNP	C	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr10:7762836C>G	uc001ijs.2	+	7	810	c.648C>G	c.(646-648)ATC>ATG	p.I216M		NM_002216	NP_002207	P19823	ITIH2_HUMAN	inter-alpha globulin inhibitor H2 polypeptide	216					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(1)|pancreas(1)|skin(1)	3						TGTGGGTTATCGAACCACAGG	0.393													31	56	---	---	---	---	PASS
USP6NL	9712	broad.mit.edu	37	10	11505306	11505306	+	Missense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr10:11505306C>A	uc001ikt.3	-	15	1942	c.1621G>T	c.(1621-1623)GAC>TAC	p.D541Y	USP6NL_uc001iks.1_Missense_Mutation_p.D558Y	NM_014688	NP_055503	Q92738	US6NL_HUMAN	USP6 N-terminal like isoform 1	541						intracellular	Rab GTPase activator activity				0						CGCTTCCCGTCCTCAGCATCC	0.667													35	73	---	---	---	---	PASS
ZNF239	8187	broad.mit.edu	37	10	44053146	44053146	+	Missense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr10:44053146C>A	uc001jaw.3	-	2	1035	c.382G>T	c.(382-384)GCC>TCC	p.A128S	ZNF239_uc001jax.3_Missense_Mutation_p.A128S|ZNF239_uc009xmj.2_Missense_Mutation_p.A128S|ZNF239_uc009xmk.2_Missense_Mutation_p.A128S	NM_005674	NP_005665	Q16600	ZN239_HUMAN	zinc finger protein 239	128					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|RNA binding|zinc ion binding				0						AATGGCGAGGCCAGTTCTTGT	0.418													52	84	---	---	---	---	PASS
GPRIN2	9721	broad.mit.edu	37	10	46999982	46999982	+	Missense_Mutation	SNP	C	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr10:46999982C>G	uc001jec.2	+	3	1237	c.1102C>G	c.(1102-1104)CTG>GTG	p.L368V	GPRIN2_uc010qfq.1_Missense_Mutation_p.L131V	NM_014696	NP_055511	O60269	GRIN2_HUMAN	G protein-regulated inducer of neurite outgrowth	368											0						AGAGGTAACTCTGGGGTCCAG	0.667													23	46	---	---	---	---	PASS
DUPD1	338599	broad.mit.edu	37	10	76797658	76797658	+	Missense_Mutation	SNP	A	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr10:76797658A>T	uc001jwq.1	-	3	599	c.599T>A	c.(598-600)CTG>CAG	p.L200Q		NM_001003892	NP_001003892	Q68J44	DUPD1_HUMAN	dual specificity phosphatase and pro isomerase	200	Tyrosine-protein phosphatase.					cytoplasm	protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)	2	all_cancers(46;0.0207)|all_epithelial(25;0.00126)|Prostate(51;0.0112)|Ovarian(15;0.0348)					CTGCTGCACCAGCTGCTTGTC	0.657													43	47	---	---	---	---	PASS
GRID1	2894	broad.mit.edu	37	10	87489309	87489309	+	Silent	SNP	G	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr10:87489309G>A	uc001kdl.1	-	9	1397	c.1296C>T	c.(1294-1296)AGC>AGT	p.S432S	GRID1_uc009xsu.1_RNA|GRID1_uc010qmf.1_Silent_p.S3S	NM_017551	NP_060021	Q9ULK0	GRID1_HUMAN	glutamate receptor, ionotropic, delta 1	432	Extracellular (Potential).					cell junction|integral to membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(5)|upper_aerodigestive_tract(2)|large_intestine(2)|central_nervous_system(1)	10					L-Glutamic Acid(DB00142)	CTTGGAGGCGGCTGCCCATGG	0.517										Multiple Myeloma(13;0.14)			3	42	---	---	---	---	PASS
HSPA12A	259217	broad.mit.edu	37	10	118434309	118434309	+	Missense_Mutation	SNP	C	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr10:118434309C>T	uc001lct.2	-	12	2116	c.2011G>A	c.(2011-2013)GAC>AAC	p.D671N	HSPA12A_uc001lcu.2_Missense_Mutation_p.D588N	NM_025015	NP_079291	O43301	HS12A_HUMAN	heat shock 70kDa protein 12A	671							ATP binding			ovary(1)	1				all cancers(201;0.0158)		TTTAAGAAGTCGATCCCAACT	0.522													28	43	---	---	---	---	PASS
DMBT1	1755	broad.mit.edu	37	10	124358454	124358454	+	Missense_Mutation	SNP	T	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr10:124358454T>A	uc001lgk.1	+	26	3227	c.3121T>A	c.(3121-3123)TCA>ACA	p.S1041T	DMBT1_uc001lgl.1_Missense_Mutation_p.S1031T|DMBT1_uc001lgm.1_Missense_Mutation_p.S542T|DMBT1_uc009xzz.1_Missense_Mutation_p.S1041T|DMBT1_uc010qtx.1_Intron|DMBT1_uc009yab.1_Missense_Mutation_p.S2T	NM_007329	NP_015568	Q9UGM3	DMBT1_HUMAN	deleted in malignant brain tumors 1 isoform b	1041	SRCR 8.				epithelial cell differentiation|induction of bacterial agglutination|innate immune response|interspecies interaction between organisms|protein transport|response to virus	extrinsic to membrane|phagocytic vesicle membrane|zymogen granule membrane	calcium-dependent protein binding|Gram-negative bacterial cell surface binding|Gram-positive bacterial cell surface binding|pattern recognition receptor activity|scavenger receptor activity|zymogen binding			central_nervous_system(7)	7		all_neural(114;0.0765)|Lung NSC(174;0.132)|all_lung(145;0.163)|Breast(234;0.238)				CTGGGCCATGTCAGCCCCAGG	0.607													93	139	---	---	---	---	PASS
IKZF5	64376	broad.mit.edu	37	10	124754084	124754084	+	Missense_Mutation	SNP	T	C	C			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr10:124754084T>C	uc001lha.2	-	5	771	c.472A>G	c.(472-474)AGG>GGG	p.R158G	IKZF5_uc001lgz.2_5'UTR	NM_022466	NP_071911	Q9H5V7	IKZF5_HUMAN	zinc finger protein, subfamily 1A, 5	158	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_neural(114;0.169)|Colorectal(57;0.178)|Glioma(114;0.222)		Colorectal(40;0.0701)|COAD - Colon adenocarcinoma(40;0.0754)		TGCTTGCGCCTTCGATGATGG	0.423													46	52	---	---	---	---	PASS
FAM53B	9679	broad.mit.edu	37	10	126370538	126370538	+	Missense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr10:126370538C>A	uc001lhv.1	-	4	1067	c.544G>T	c.(544-546)GAC>TAC	p.D182Y	FAM53B_uc001lhu.1_Missense_Mutation_p.D182Y|FAM53B_uc001lhw.2_Missense_Mutation_p.D182Y	NM_014661	NP_055476	Q14153	FA53B_HUMAN	hypothetical protein LOC9679	182										ovary(1)|pancreas(1)	2		all_lung(145;0.0191)|Lung NSC(174;0.0301)|Colorectal(57;0.106)|all_neural(114;0.117)		COAD - Colon adenocarcinoma(40;0.141)|Colorectal(40;0.15)		CCTGCCTGGTCGCAGGGTGAG	0.662													25	33	---	---	---	---	PASS
DCHS1	8642	broad.mit.edu	37	11	6655498	6655498	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:6655498G>T	uc001mem.1	-	3	2247	c.1837C>A	c.(1837-1839)CTC>ATC	p.L613I		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	613	Cadherin 6.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GAATAGGAGAGGAGGCCAAAT	0.602													18	81	---	---	---	---	PASS
OR10A4	283297	broad.mit.edu	37	11	6898035	6898035	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:6898035G>T	uc010rat.1	+	1	157	c.157G>T	c.(157-159)GAC>TAC	p.D53Y		NM_207186	NP_997069	Q9H209	O10A4_HUMAN	olfactory receptor, family 10, subfamily A,	53	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.78e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		CACTATAGCTGACTCTGCACT	0.458													77	173	---	---	---	---	PASS
INSC	387755	broad.mit.edu	37	11	15197542	15197542	+	Silent	SNP	C	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:15197542C>T	uc001mly.2	+	3	499	c.453C>T	c.(451-453)CAC>CAT	p.H151H	INSC_uc001mlz.2_Silent_p.H104H|INSC_uc001mma.2_Silent_p.H104H|INSC_uc010rcs.1_Silent_p.H104H|INSC_uc001mmb.2_Silent_p.H104H|INSC_uc001mmc.2_Silent_p.H104H	NM_001031853	NP_001027024	Q1MX18	INSC_HUMAN	inscuteable isoform a	151					cell differentiation|nervous system development	cytoplasm	binding			upper_aerodigestive_tract(2)|ovary(2)|central_nervous_system(1)	5						CACGGGTGCACAGCATGAGCG	0.632													10	5	---	---	---	---	PASS
MYOD1	4654	broad.mit.edu	37	11	17742502	17742502	+	Silent	SNP	C	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:17742502C>T	uc001mni.2	+	2	904	c.684C>T	c.(682-684)GGC>GGT	p.G228G		NM_002478	NP_002469	P15172	MYOD1_HUMAN	myogenic differentiation 1	228					muscle cell fate commitment|positive regulation of muscle cell differentiation|positive regulation of transcription from RNA polymerase II promoter|protein phosphorylation|skeletal muscle tissue development	nuclear chromatin|transcription factor complex	E-box binding|protein heterodimerization activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription coactivator activity			breast(2)|ovary(1)	3						GCTACGAAGGCGCCTACTACA	0.537													8	10	---	---	---	---	PASS
NAV2	89797	broad.mit.edu	37	11	20070399	20070399	+	Missense_Mutation	SNP	G	C	C			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:20070399G>C	uc010rdm.1	+	16	4458	c.4097G>C	c.(4096-4098)GGC>GCC	p.G1366A	NAV2_uc001mpp.2_Missense_Mutation_p.G1279A|NAV2_uc001mpr.3_Missense_Mutation_p.G1343A|NAV2_uc001mpt.2_Missense_Mutation_p.G429A|NAV2_uc009yhx.2_Missense_Mutation_p.G429A|NAV2_uc009yhy.1_Missense_Mutation_p.G342A|NAV2_uc009yhz.2_Missense_Mutation_p.G25A	NM_145117	NP_660093	Q8IVL1	NAV2_HUMAN	neuron navigator 2 isoform 2	1366	Ser-rich.					nucleus	ATP binding|helicase activity			skin(4)|ovary(1)|pancreas(1)	6						TCCCCGTCAGGCAGTGGCGTC	0.567													34	100	---	---	---	---	PASS
ANO5	203859	broad.mit.edu	37	11	22283735	22283735	+	Missense_Mutation	SNP	A	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:22283735A>G	uc001mqi.2	+	16	2008	c.1691A>G	c.(1690-1692)CAG>CGG	p.Q564R	ANO5_uc001mqj.2_Missense_Mutation_p.Q563R	NM_213599	NP_998764	Q75V66	ANO5_HUMAN	anoctamin 5 isoform a	564	Helical; (Potential).					chloride channel complex|endoplasmic reticulum membrane	chloride channel activity			central_nervous_system(3)|ovary(1)	4						TTCCTGTTTCAGTTTGTAAAT	0.333													33	139	---	---	---	---	PASS
GAS2	2620	broad.mit.edu	37	11	22770670	22770670	+	Missense_Mutation	SNP	G	C	C			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:22770670G>C	uc009yie.2	+	6	784	c.478G>C	c.(478-480)GGT>CGT	p.G160R	GAS2_uc001mqm.2_Missense_Mutation_p.G160R|GAS2_uc001mqn.2_RNA|GAS2_uc001mqo.2_Missense_Mutation_p.G160R	NM_001143830	NP_001137302	O43903	GAS2_HUMAN	growth arrest-specific 2	160					cell cycle arrest|cellular component disassembly involved in apoptosis|regulation of cell shape	actin filament|cytosol|membrane				ovary(1)|skin(1)	2						TTAAAGGTATGGTGTGGAGCC	0.383													24	57	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	11	30925176	30925176	+	RNA	SNP	A	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:30925176A>G	uc001mss.1	-	10		c.1466T>C			uc009yjk.1_Missense_Mutation_p.Y903H|uc009yjj.1_RNA					Homo sapiens mRNA for KIAA1493 protein, partial cds.																		TCTTTGGTATATACTTTGGAG	0.443													8	18	---	---	---	---	PASS
MAPK8IP1	9479	broad.mit.edu	37	11	45923535	45923535	+	Missense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:45923535C>A	uc001nbr.2	+	4	697	c.527C>A	c.(526-528)ACA>AAA	p.T176K		NM_005456	NP_005447	Q9UQF2	JIP1_HUMAN	mitogen-activated protein kinase 8 interacting	176	JNK-binding domain (JBD).|Minimal inhibitory domain (MID).				vesicle-mediated transport	nucleus|perinuclear region of cytoplasm	kinesin binding|MAP-kinase scaffold activity|protein kinase inhibitor activity			ovary(2)|breast(1)|skin(1)	4				GBM - Glioblastoma multiforme(35;0.231)		GCACAGGACACACTGAATAAT	0.572													54	264	---	---	---	---	PASS
CELF1	10658	broad.mit.edu	37	11	47496998	47496998	+	Missense_Mutation	SNP	G	C	C			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:47496998G>C	uc001nfl.2	-	10	1089	c.1079C>G	c.(1078-1080)ACT>AGT	p.T360S	CELF1_uc001nfm.2_Missense_Mutation_p.T357S|CELF1_uc001nfn.2_Missense_Mutation_p.T356S|CELF1_uc001nfo.1_Missense_Mutation_p.T386S|CELF1_uc010rhm.1_Missense_Mutation_p.T359S|CELF1_uc001nfp.2_Missense_Mutation_p.T388S|CELF1_uc001nfq.1_Missense_Mutation_p.T360S|CELF1_uc001nfr.1_Missense_Mutation_p.T360S	NM_001025596	NP_001020767	Q92879	CELF1_HUMAN	CUG triplet repeat, RNA-binding protein 1	360					embryo development|mRNA splice site selection|regulation of RNA splicing|RNA interference	cytoplasm|nucleus|ribonucleoprotein complex	BRE binding|mRNA binding|nucleotide binding|translation repressor activity, nucleic acid binding			central_nervous_system(2)|ovary(1)	3						GTAGGCCTGAGTGAGGGCCTC	0.552													27	110	---	---	---	---	PASS
OR5L2	26338	broad.mit.edu	37	11	55595083	55595083	+	Missense_Mutation	SNP	T	C	C			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:55595083T>C	uc001nhy.1	+	1	389	c.389T>C	c.(388-390)CTG>CCG	p.L130P		NM_001004739	NP_001004739	Q8NGL0	OR5L2_HUMAN	olfactory receptor, family 5, subfamily L,	130	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_epithelial(135;0.208)				TGTAACCCCCTGCTGTACATG	0.527										HNSCC(27;0.073)			76	162	---	---	---	---	PASS
OR5D16	390144	broad.mit.edu	37	11	55606825	55606825	+	Missense_Mutation	SNP	C	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:55606825C>T	uc010rio.1	+	1	598	c.598C>T	c.(598-600)CTT>TTT	p.L200F		NM_001005496	NP_001005496	Q8NGK9	OR5DG_HUMAN	olfactory receptor, family 5, subfamily D,	200	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)|skin(1)	5		all_epithelial(135;0.208)				CAGCCAGTTGCTTCTTTTCAC	0.388													41	72	---	---	---	---	PASS
OR5W2	390148	broad.mit.edu	37	11	55681359	55681359	+	Missense_Mutation	SNP	T	C	C			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:55681359T>C	uc010rir.1	-	1	700	c.700A>G	c.(700-702)AGG>GGG	p.R234G		NM_001001960	NP_001001960	Q8NH69	OR5W2_HUMAN	olfactory receptor, family 5, subfamily W,	234	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						GCTTTGAACCTCCCCTCAGCA	0.418													24	58	---	---	---	---	PASS
OR8H3	390152	broad.mit.edu	37	11	55890198	55890198	+	Missense_Mutation	SNP	C	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:55890198C>T	uc001nii.1	+	1	350	c.350C>T	c.(349-351)TCA>TTA	p.S117L		NM_001005201	NP_001005201	Q8N146	OR8H3_HUMAN	olfactory receptor, family 8, subfamily H,	117	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00693)					CTTCTCTCCTCAATGGCCTAT	0.473													133	243	---	---	---	---	PASS
OR5T3	390154	broad.mit.edu	37	11	56020497	56020497	+	Missense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:56020497C>A	uc010rjd.1	+	1	822	c.822C>A	c.(820-822)CAC>CAA	p.H274Q		NM_001004747	NP_001004747	Q8NGG3	OR5T3_HUMAN	olfactory receptor, family 5, subfamily T,	274	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(21;0.00448)					GTGGCTCTCACCTAACTGGAG	0.408													41	192	---	---	---	---	PASS
OR8H1	219469	broad.mit.edu	37	11	56058198	56058198	+	Missense_Mutation	SNP	A	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:56058198A>T	uc010rje.1	-	1	341	c.341T>A	c.(340-342)CTC>CAC	p.L114H		NM_001005199	NP_001005199	Q8NGG4	OR8H1_HUMAN	olfactory receptor, family 8, subfamily H,	114	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3	Esophageal squamous(21;0.00448)					CATTGATGAGAGAAGAAAACA	0.458													37	185	---	---	---	---	PASS
OR5M8	219484	broad.mit.edu	37	11	56258324	56258324	+	Missense_Mutation	SNP	G	C	C			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:56258324G>C	uc001nix.1	-	1	523	c.523C>G	c.(523-525)CAC>GAC	p.H175D		NM_001005282	NP_001005282	Q8NGP6	OR5M8_HUMAN	olfactory receptor, family 5, subfamily M,	175	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	Esophageal squamous(21;0.00352)					CAGTAGAAGTGATTAATTTCA	0.488													41	75	---	---	---	---	PASS
OR5B3	441608	broad.mit.edu	37	11	58170159	58170159	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:58170159G>T	uc010rkf.1	-	1	724	c.724C>A	c.(724-726)CAT>AAT	p.H242N		NM_001005469	NP_001005469	Q8NH48	OR5B3_HUMAN	olfactory receptor, family 5, subfamily B,	242	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				GCAATGAAATGAGAGGCACAG	0.433													27	42	---	---	---	---	PASS
NRXN2	9379	broad.mit.edu	37	11	64453274	64453274	+	Missense_Mutation	SNP	C	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:64453274C>G	uc001oar.2	-	7	1435	c.996G>C	c.(994-996)AAG>AAC	p.K332N	NRXN2_uc001oas.2_Missense_Mutation_p.K308N|NRXN2_uc001oaq.2_Missense_Mutation_p.K6N	NM_015080	NP_055895	P58401	NRX2B_HUMAN	neurexin 2 isoform alpha-1 precursor	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell adhesion	integral to membrane				upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)|ovary(2)|kidney(1)|pancreas(1)	10						AGTCGGCCGACTTGCCTGTAT	0.592													38	98	---	---	---	---	PASS
PDE2A	5138	broad.mit.edu	37	11	72290644	72290644	+	Silent	SNP	G	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:72290644G>A	uc010rrc.1	-	26	2433	c.2190C>T	c.(2188-2190)CAC>CAT	p.H730H	PDE2A_uc001oso.2_Silent_p.H709H|PDE2A_uc010rra.1_Silent_p.H723H|PDE2A_uc001osn.2_Silent_p.H474H|PDE2A_uc010rrb.1_Silent_p.H721H|PDE2A_uc010rrd.1_Silent_p.H615H	NM_002599	NP_002590	O00408	PDE2A_HUMAN	phosphodiesterase 2A isoform 1	730	Catalytic (By similarity).				platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|cGMP-stimulated cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(2)|breast(1)|skin(1)	4			BRCA - Breast invasive adenocarcinoma(5;3.55e-05)		Sildenafil(DB00203)|Sulindac(DB00605)	CCTGAGCAAAGTGGTGCCTCT	0.502													6	11	---	---	---	---	PASS
C2CD3	26005	broad.mit.edu	37	11	73789655	73789655	+	Missense_Mutation	SNP	T	C	C			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:73789655T>C	uc001ouu.2	-	23	4335	c.4108A>G	c.(4108-4110)ACG>GCG	p.T1370A	C2CD3_uc001out.2_RNA	NM_015531	NP_056346	Q4AC94	C2CD3_HUMAN	C2 calcium-dependent domain containing 3	1370						centrosome				ovary(4)|pancreas(2)|skin(1)	7	Breast(11;4.16e-06)					CCACGATGCGTGAAGGAAATC	0.507													23	91	---	---	---	---	PASS
GRM5	2915	broad.mit.edu	37	11	88780906	88780906	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:88780906G>T	uc001pcq.2	-	1	335	c.135C>A	c.(133-135)CAC>CAA	p.H45Q	GRM5_uc009yvm.2_Missense_Mutation_p.H45Q|GRM5_uc009yvn.1_Missense_Mutation_p.H45Q	NM_001143831	NP_001137303	P41594	GRM5_HUMAN	glutamate receptor, metabotropic 5 isoform a	45	Extracellular (Potential).				activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			central_nervous_system(4)|ovary(2)|lung(2)|breast(1)	9		Acute lymphoblastic leukemia(157;2.54e-05)|all_hematologic(158;0.00834)			Acamprosate(DB00659)	CAGTAGGCTGGTGATGAACAG	0.527													11	48	---	---	---	---	PASS
CNTN5	53942	broad.mit.edu	37	11	100211382	100211382	+	Splice_Site	SNP	G	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:100211382G>A	uc001pga.2	+	22	3256	c.2917_splice	c.e22+1	p.P973_splice	CNTN5_uc001pgb.2_Splice_Site_p.P899_splice|CNTN5_uc010ruk.1_Splice_Site_p.P244_splice	NM_014361	NP_055176	O94779	CNTN5_HUMAN	contactin 5 isoform long						cell adhesion	anchored to membrane|plasma membrane	protein binding			skin(3)|ovary(2)|pancreas(2)|breast(1)	8		all_hematologic(158;1.22e-05)|Acute lymphoblastic leukemia(157;3.81e-05)|Melanoma(852;0.219)		BRCA - Breast invasive adenocarcinoma(274;0.00146)|KIRC - Kidney renal clear cell carcinoma(183;0.156)|Kidney(183;0.196)		AAGAAATCCCGTAAGTGACCT	0.443													14	19	---	---	---	---	PASS
PGR	5241	broad.mit.edu	37	11	100909920	100909920	+	Missense_Mutation	SNP	G	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:100909920G>A	uc001pgh.2	-	8	3472	c.2729C>T	c.(2728-2730)TCT>TTT	p.S910F	PGR_uc001pgg.2_Missense_Mutation_p.S291F|PGR_uc001pgi.2_Missense_Mutation_p.S808F|PGR_uc009yww.1_RNA|PGR_uc001pgj.2_RNA|PGR_uc009ywx.1_RNA	NM_000926	NP_000917	P06401	PRGR_HUMAN	progesterone receptor	910	Steroid-binding.				cell-cell signaling|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	enzyme binding|receptor binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			lung(1)|liver(1)|central_nervous_system(1)|pancreas(1)	4		Acute lymphoblastic leukemia(157;0.000885)|all_hematologic(158;0.014)		LUSC - Lung squamous cell carcinoma(1;0.0387)|BRCA - Breast invasive adenocarcinoma(274;0.124)|OV - Ovarian serous cystadenocarcinoma(223;0.148)|Lung(307;0.164)	Desogestrel(DB00304)|Drospirenone(DB01395)|Dydrogesterone(DB00378)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Mifepristone(DB00834)|Norethindrone(DB00717)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)	AATAACTTCAGACATCATTTC	0.368													10	81	---	---	---	---	PASS
SIDT2	51092	broad.mit.edu	37	11	117050006	117050006	+	Missense_Mutation	SNP	G	C	C			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:117050006G>C	uc001pqh.1	+	1	68	c.27G>C	c.(25-27)TTG>TTC	p.L9F	SIDT2_uc010rxe.1_Missense_Mutation_p.L9F|SIDT2_uc001pqg.2_Missense_Mutation_p.L9F|SIDT2_uc001pqi.1_Missense_Mutation_p.L9F	NM_001040455	NP_001035545	Q8NBJ9	SIDT2_HUMAN	SID1 transmembrane family, member 2 precursor	9						integral to membrane|lysosomal membrane					0	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.69e-05)|Epithelial(105;0.000219)|all cancers(92;0.00144)		TGCCCTTCTTGGTGCTCTTGG	0.522													6	95	---	---	---	---	PASS
AMICA1	120425	broad.mit.edu	37	11	118074380	118074380	+	Nonsense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:118074380C>A	uc001psk.2	-	6	709	c.535G>T	c.(535-537)GAG>TAG	p.E179*	AMICA1_uc001psg.2_5'UTR|AMICA1_uc001psh.2_Nonsense_Mutation_p.E140*|AMICA1_uc009yzw.1_RNA|AMICA1_uc001psi.2_Nonsense_Mutation_p.E169*|AMICA1_uc001psj.2_Nonsense_Mutation_p.E168*|AMICA1_uc010rxw.1_Nonsense_Mutation_p.E140*|AMICA1_uc010rxx.1_Nonsense_Mutation_p.E179*|AMICA1_uc001psl.1_Nonsense_Mutation_p.E135*	NM_001098526	NP_001091996	Q86YT9	JAML1_HUMAN	adhesion molecule, interacts with CXADR antigen	179	Ig-like V-type 2.|Extracellular (Potential).				blood coagulation|cell adhesion|leukocyte migration|regulation of immune response	cell junction|integral to membrane				ovary(1)	1	all_hematologic(175;0.046)	Medulloblastoma(222;0.0425)|Breast(348;0.181)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.4e-05)		ACAATCTCCTCCTAGAAGTGA	0.512													32	76	---	---	---	---	PASS
ATP5L	10632	broad.mit.edu	37	11	118272382	118272382	+	Missense_Mutation	SNP	T	C	C			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:118272382T>C	uc001psx.2	+	1	279	c.2T>C	c.(1-3)ATG>ACG	p.M1T		NM_006476	NP_006467	O75964	ATP5L_HUMAN	ATP synthase, H+ transporting, mitochondrial F0	1					ATP catabolic process|respiratory electron transport chain	mitochondrial proton-transporting ATP synthase complex, coupling factor F(o)	hydrogen ion transmembrane transporter activity|protein binding				0	all_hematologic(175;0.046)	Medulloblastoma(222;0.0425)|Breast(348;0.181)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.07e-05)		TCCAGAACCATGGCCCAATTT	0.672													9	35	---	---	---	---	PASS
CRTAM	56253	broad.mit.edu	37	11	122720898	122720898	+	Missense_Mutation	SNP	A	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr11:122720898A>G	uc001pyj.2	+	2	169	c.169A>G	c.(169-171)ACC>GCC	p.T57A		NM_019604	NP_062550	O95727	CRTAM_HUMAN	class-I MHC-restricted T cell associated	57	Ig-like V-type.|Extracellular (Potential).				cell recognition|detection of tumor cell|positive regulation of cytokine secretion|positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target	integral to membrane|plasma membrane	receptor binding			ovary(1)	1		Breast(109;0.00249)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.28e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0308)		CTCAGGGTTCACCATTTTTTT	0.483													17	71	---	---	---	---	PASS
GNB3	2784	broad.mit.edu	37	12	6954923	6954923	+	Silent	SNP	C	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:6954923C>T	uc001qrd.2	+	10	1278	c.873C>T	c.(871-873)GAC>GAT	p.D291D	GNB3_uc001qrc.2_Silent_p.D247D|GNB3_uc009zfe.2_Silent_p.D290D|CDCA3_uc001qre.2_3'UTR|uc001qrf.1_RNA	NM_002075	NP_002066	P16520	GBB3_HUMAN	guanine nucleotide-binding protein, beta-3	291	WD 6.				cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|regulation of blood pressure|synaptic transmission	plasma membrane	GTPase activity|GTPase binding|signal transducer activity				0						GCTACGACGACTTCAACTGCA	0.607													96	188	---	---	---	---	PASS
CLEC4A	50856	broad.mit.edu	37	12	8281903	8281903	+	Silent	SNP	A	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:8281903A>G	uc001qtz.1	+	3	490	c.243A>G	c.(241-243)ACA>ACG	p.T81T	CLEC4A_uc009zga.1_Silent_p.T42T|CLEC4A_uc001qub.1_Intron|CLEC4A_uc001quc.1_Intron|CLEC4A_uc009zgb.1_Intron	NM_016184	NP_057268	Q9UMR7	CLC4A_HUMAN	C-type lectin domain family 4, member A isoform	81	Extracellular (Potential).				cell adhesion|cell surface receptor linked signaling pathway|innate immune response	integral to plasma membrane	sugar binding|transmembrane receptor activity				0				Kidney(36;0.0915)		AAAAGACTACAAAAGAGCTGG	0.328													20	62	---	---	---	---	PASS
PZP	5858	broad.mit.edu	37	12	9313702	9313702	+	Silent	SNP	C	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:9313702C>G	uc001qvl.2	-	23	2828	c.2799G>C	c.(2797-2799)GTG>GTC	p.V933V	PZP_uc009zgl.2_Silent_p.V719V|PZP_uc010sgo.1_RNA|PZP_uc009zgm.1_Missense_Mutation_p.C165S	NM_002864	NP_002855			pregnancy-zone protein precursor											ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)	5						ACTGCTCAGACACATTAGCAC	0.333													27	95	---	---	---	---	PASS
PZP	5858	broad.mit.edu	37	12	9313712	9313712	+	Missense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:9313712C>A	uc001qvl.2	-	23	2818	c.2789G>T	c.(2788-2790)GGT>GTT	p.G930V	PZP_uc009zgl.2_Missense_Mutation_p.G716V|PZP_uc010sgo.1_RNA|PZP_uc009zgm.1_Missense_Mutation_p.V162L	NM_002864	NP_002855			pregnancy-zone protein precursor											ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)	5						CACATTAGCACCTTTAGAAAC	0.318													25	93	---	---	---	---	PASS
LST-3TM12	338821	broad.mit.edu	37	12	21196447	21196447	+	Missense_Mutation	SNP	G	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:21196447G>A	uc010sin.1	+	6	766	c.766G>A	c.(766-768)GAT>AAT	p.D256N	SLCO1B3_uc010sil.1_Intron|LST-3TM12_uc010sim.1_Missense_Mutation_p.D303N	NM_001009562	NP_001009562	Q71QF0	Q71QF0_HUMAN	liver-specific organic anion transporter 3TM12	256						membrane	transporter activity				0						AAAAACTAATGATAAAAGGAA	0.294													6	63	---	---	---	---	PASS
CAPRIN2	65981	broad.mit.edu	37	12	30868013	30868013	+	Nonsense_Mutation	SNP	G	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:30868013G>A	uc001rji.1	-	15	3281	c.2530C>T	c.(2530-2532)CAG>TAG	p.Q844*	CAPRIN2_uc001rjf.1_Nonsense_Mutation_p.Q640*|CAPRIN2_uc001rjg.1_Nonsense_Mutation_p.Q511*|CAPRIN2_uc001rjh.1_Nonsense_Mutation_p.Q794*|CAPRIN2_uc001rjj.1_Nonsense_Mutation_p.Q510*|CAPRIN2_uc001rjk.3_Nonsense_Mutation_p.Q843*|CAPRIN2_uc001rjl.3_Nonsense_Mutation_p.Q788*|CAPRIN2_uc001rjm.1_3'UTR	NM_001002259	NP_001002259	Q6IMN6	CAPR2_HUMAN	C1q domain containing 1 isoform 1	844					negative regulation of cell growth|negative regulation of translation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of dendrite morphogenesis|positive regulation of dendritic spine morphogenesis|positive regulation of peptidyl-serine phosphorylation|positive regulation of protein binding|positive regulation of transcription from RNA polymerase II promoter	mitochondrion|receptor complex	receptor binding|RNA binding			ovary(1)|central_nervous_system(1)	2	all_lung(12;1.13e-09)|Lung NSC(12;7.98e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0355)|Lung SC(12;0.0905)|Esophageal squamous(101;0.233)					ACATTCGTCTGTGCTGGGTAA	0.423													60	123	---	---	---	---	PASS
C12orf35	55196	broad.mit.edu	37	12	32134684	32134684	+	Silent	SNP	A	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:32134684A>G	uc001rks.2	+	4	1209	c.795A>G	c.(793-795)CCA>CCG	p.P265P		NM_018169	NP_060639	Q9HCM1	CL035_HUMAN	hypothetical protein LOC55196	265										ovary(1)|skin(1)	2	all_cancers(9;3.36e-11)|all_epithelial(9;2.56e-11)|all_lung(12;5.67e-10)|Acute lymphoblastic leukemia(23;0.0122)|Lung SC(12;0.0336)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.204)		OV - Ovarian serous cystadenocarcinoma(6;0.0114)			CAGCTGTACCATCACAGCAGT	0.388													64	118	---	---	---	---	PASS
CNTN1	1272	broad.mit.edu	37	12	41419027	41419027	+	Missense_Mutation	SNP	A	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:41419027A>G	uc001rmm.1	+	21	2712	c.2599A>G	c.(2599-2601)AGG>GGG	p.R867G	CNTN1_uc001rmn.1_Missense_Mutation_p.R856G	NM_001843	NP_001834	Q12860	CNTN1_HUMAN	contactin 1 isoform 1 precursor	867	Fibronectin type-III 3.				axon guidance|cell adhesion|Notch signaling pathway	anchored to membrane|membrane fraction|plasma membrane				lung(4)|ovary(3)|large_intestine(1)|skin(1)	9	all_cancers(12;2.07e-06)|all_epithelial(1;4.26e-06)|Breast(8;0.0716)	Lung NSC(34;0.0211)|all_lung(34;0.0294)				GTACTCGGCCAGGCTCGAGAA	0.493													111	270	---	---	---	---	PASS
PDZRN4	29951	broad.mit.edu	37	12	41966513	41966513	+	Silent	SNP	C	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:41966513C>T	uc010skn.1	+	10	1403	c.1335C>T	c.(1333-1335)GAC>GAT	p.D445D	PDZRN4_uc001rmq.3_Silent_p.D386D|PDZRN4_uc009zjz.2_Silent_p.D384D|PDZRN4_uc001rmr.2_Silent_p.D271D	NM_013377	NP_037509	Q6ZMN7	PZRN4_HUMAN	PDZ domain containing RING finger 4 isoform 2	644							ubiquitin-protein ligase activity|zinc ion binding			lung(3)|skin(3)|ovary(2)|large_intestine(1)|kidney(1)|pancreas(1)	11	all_cancers(12;0.000673)	Lung NSC(34;0.0205)|all_lung(34;0.0264)				GAGAGTATGACCTGTATTACT	0.448													38	77	---	---	---	---	PASS
ADAMTS20	80070	broad.mit.edu	37	12	43822469	43822469	+	Missense_Mutation	SNP	C	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:43822469C>G	uc010skx.1	-	25	3623	c.3623G>C	c.(3622-3624)TGT>TCT	p.C1208S	ADAMTS20_uc001rno.1_Missense_Mutation_p.C326S|ADAMTS20_uc001rnp.1_Missense_Mutation_p.C362S	NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	1208	TSP type-1 8.					proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		CCACTCTCCACAAGGGGTAAA	0.358													19	49	---	---	---	---	PASS
ADAMTS20	80070	broad.mit.edu	37	12	43944852	43944852	+	Missense_Mutation	SNP	T	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:43944852T>A	uc010skx.1	-	2	313	c.313A>T	c.(313-315)ACC>TCC	p.T105S		NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	105						proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		TGCACCTCGGTGTAGCCGGCG	0.662													11	27	---	---	---	---	PASS
HOXC5	3222	broad.mit.edu	37	12	54427303	54427303	+	Missense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:54427303C>A	uc001sew.2	+	1	472	c.397C>A	c.(397-399)CAG>AAG	p.Q133K	HOXC5_uc001set.2_Intron|HOXC4_uc001seu.2_Intron|MIR615_hsa-mir-615|MI0003628_5'Flank	NM_018953	NP_061826	Q00444	HXC5_HUMAN	homeobox C5	133					regulation of transcription from RNA polymerase II promoter	cell junction|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						CGGACTGAGCCAGCCACCGGC	0.632													5	4	---	---	---	---	PASS
SLC26A10	65012	broad.mit.edu	37	12	58017644	58017644	+	Missense_Mutation	SNP	T	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:58017644T>A	uc001spe.2	+	8	1390	c.1079T>A	c.(1078-1080)GTG>GAG	p.V360E	SLC26A10_uc001spf.2_RNA|SLC26A10_uc009zpz.1_5'Flank	NM_133489	NP_597996	Q8NG04	S2610_HUMAN	solute carrier family 26, member 10	360	Helical; (Potential).					integral to membrane	antiporter activity			large_intestine(1)|central_nervous_system(1)	2	Melanoma(17;0.122)					TCCTGCACAGTGGTCCTGTCG	0.567													37	103	---	---	---	---	PASS
AGAP2	116986	broad.mit.edu	37	12	58135772	58135772	+	Missense_Mutation	SNP	C	T	T	rs145881416		TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:58135772C>T	uc001spr.2	-	1	169	c.83G>A	c.(82-84)CGC>CAC	p.R28H		NM_014770	NP_055585	Q99490	AGAP2_HUMAN	centaurin, gamma 1 isoform PIKE-S	Error:Variant_position_missing_in_Q99490_after_alignment					axon guidance|negative regulation of neuron apoptosis|negative regulation of protein catabolic process|protein transport|regulation of ARF GTPase activity|small GTPase mediated signal transduction	mitochondrion|nucleolus	ARF GTPase activator activity|GTP binding|zinc ion binding			central_nervous_system(3)|breast(2)	5						CTTCCTGAGGCGGTTTAGAGC	0.567													6	172	---	---	---	---	PASS
LEMD3	23592	broad.mit.edu	37	12	65632464	65632464	+	Silent	SNP	C	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:65632464C>T	uc001ssl.1	+	6	1797	c.1791C>T	c.(1789-1791)GGC>GGT	p.G597G	LEMD3_uc009zqo.1_Silent_p.G596G	NM_014319	NP_055134	Q9Y2U8	MAN1_HUMAN	LEM domain containing 3	597					negative regulation of activin receptor signaling pathway|negative regulation of BMP signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway	integral to nuclear inner membrane|membrane fraction	DNA binding|nucleotide binding|protein binding			central_nervous_system(3)|ovary(1)	4			LUAD - Lung adenocarcinoma(6;0.0234)|LUSC - Lung squamous cell carcinoma(43;0.0975)	GBM - Glioblastoma multiforme(28;0.0104)		TTGGTTTTGGCCCTGAGGAAG	0.368													35	102	---	---	---	---	PASS
MDM1	56890	broad.mit.edu	37	12	68716991	68716991	+	Silent	SNP	T	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:68716991T>A	uc001stz.2	-	5	799	c.663A>T	c.(661-663)CCA>CCT	p.P221P	MDM1_uc010stc.1_Silent_p.P176P|MDM1_uc009zqv.1_5'UTR	NM_017440	NP_059136	Q8TC05	MDM1_HUMAN	mouse Mdm1 nuclear protein homolog isoform 1	221						nucleus				ovary(3)|skin(2)	5			Lung(24;0.000131)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.018)	GBM - Glioblastoma multiforme(7;0.000174)		CTTTGAATGGTGGAACAAACT	0.299													49	146	---	---	---	---	PASS
RAB3IP	117177	broad.mit.edu	37	12	70206564	70206564	+	Silent	SNP	T	C	C			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:70206564T>C	uc001svp.2	+	9	1632	c.1185T>C	c.(1183-1185)TGT>TGC	p.C395C	RAB3IP_uc001svm.2_Silent_p.C379C|RAB3IP_uc001svn.2_Intron|RAB3IP_uc001svo.2_RNA|RAB3IP_uc001svq.2_Intron|RAB3IP_uc001svr.2_Intron|RAB3IP_uc001svs.2_RNA|RAB3IP_uc001svt.2_Silent_p.C173C	NM_175623	NP_783322	Q96QF0	RAB3I_HUMAN	RAB3A interacting protein isoform alpha 2	395					cilium assembly|Golgi to plasma membrane transport|protein localization to organelle|protein transport	actin cortical patch|centrosome|cytosol|lamellipodium|microtubule basal body|nucleus	guanyl-nucleotide exchange factor activity|protein binding			ovary(1)	1	Esophageal squamous(21;0.187)		Lung(24;0.000381)|OV - Ovarian serous cystadenocarcinoma(12;0.00168)|STAD - Stomach adenocarcinoma(21;0.00694)			ACAGAAAATGTGCTCTCACTG	0.318													31	65	---	---	---	---	PASS
TPH2	121278	broad.mit.edu	37	12	72372760	72372760	+	Silent	SNP	G	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:72372760G>A	uc009zrw.1	+	7	975	c.834G>A	c.(832-834)GTG>GTA	p.V278V	TPH2_uc001swy.2_Silent_p.V188V	NM_173353	NP_775489	Q8IWU9	TPH2_HUMAN	tryptophan hydroxylase 2	278					aromatic amino acid family metabolic process|hormone biosynthetic process|serotonin biosynthetic process	cytosol	amino acid binding|iron ion binding|tryptophan 5-monooxygenase activity			ovary(2)|central_nervous_system(1)|skin(1)	4					L-Tryptophan(DB00150)	TGAGGCCGGTGGCTGGATACC	0.532													49	107	---	---	---	---	PASS
TRHDE	29953	broad.mit.edu	37	12	72969167	72969167	+	Missense_Mutation	SNP	A	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:72969167A>T	uc001sxa.2	+	11	2159	c.2129A>T	c.(2128-2130)GAG>GTG	p.E710V		NM_013381	NP_037513	Q9UKU6	TRHDE_HUMAN	thyrotropin-releasing hormone degrading enzyme	710	Extracellular (Potential).				cell-cell signaling|proteolysis|signal transduction	integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(2)|skin(1)	3						CGGAATCATGAGGTACACTCC	0.353													30	84	---	---	---	---	PASS
CEP290	80184	broad.mit.edu	37	12	88505121	88505121	+	Missense_Mutation	SNP	T	C	C			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:88505121T>C	uc001tar.2	-	22	2569	c.2225A>G	c.(2224-2226)CAT>CGT	p.H742R	CEP290_uc001tat.2_Missense_Mutation_p.H535R|CEP290_uc009zsl.1_RNA	NM_025114	NP_079390	O15078	CE290_HUMAN	centrosomal protein 290kDa	742	Potential.				cilium assembly|eye photoreceptor cell development|G2/M transition of mitotic cell cycle|hindbrain development|otic vesicle formation|positive regulation of transcription, DNA-dependent|pronephros development|protein transport	cell surface|centrosome|cytosol|nucleus|photoreceptor connecting cilium	protein binding			ovary(5)|breast(1)|pancreas(1)	7						TTTTTCAAGATGGTCTATCTG	0.368													6	17	---	---	---	---	PASS
C12orf63	374467	broad.mit.edu	37	12	97112245	97112245	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:97112245G>T	uc001tet.1	+	16	2102	c.2024G>T	c.(2023-2025)AGT>ATT	p.S675I		NM_198520	NP_940922	Q6ZTY8	CL063_HUMAN	hypothetical protein LOC374467	675										skin(6)|ovary(1)	7						GATGATGGAAGTTCATTTTAT	0.269													25	96	---	---	---	---	PASS
C12orf63	374467	broad.mit.edu	37	12	97133762	97133762	+	Missense_Mutation	SNP	C	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:97133762C>T	uc001tet.1	+	18	2347	c.2269C>T	c.(2269-2271)CTT>TTT	p.L757F		NM_198520	NP_940922	Q6ZTY8	CL063_HUMAN	hypothetical protein LOC374467	757										skin(6)|ovary(1)	7						TACACTTACACTTCTCCAGGA	0.308													19	53	---	---	---	---	PASS
STAB2	55576	broad.mit.edu	37	12	104056738	104056738	+	Missense_Mutation	SNP	C	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:104056738C>T	uc001tjw.2	+	18	2170	c.1984C>T	c.(1984-1986)CCC>TCC	p.P662S		NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	662	Extracellular (Potential).				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						CCCGATTCTGCCCCATCGATG	0.453													37	121	---	---	---	---	PASS
DAO	1610	broad.mit.edu	37	12	109292474	109292474	+	Nonsense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:109292474G>T	uc001tnr.3	+	9	868	c.715G>T	c.(715-717)GGA>TGA	p.G239*	DAO_uc001tnq.3_Nonsense_Mutation_p.G173*|DAO_uc009zvb.2_RNA|DAO_uc001tns.3_RNA	NM_001917	NP_001908	P14920	OXDA_HUMAN	D-amino-acid oxidase	239					glyoxylate metabolic process	peroxisomal matrix	binding|D-amino-acid oxidase activity			ovary(1)|skin(1)	2						AGTTACTCTTGGAGGCATCTT	0.468													29	87	---	---	---	---	PASS
ACACB	32	broad.mit.edu	37	12	109650737	109650737	+	Nonsense_Mutation	SNP	C	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:109650737C>T	uc001tob.2	+	22	3465	c.3346C>T	c.(3346-3348)CAG>TAG	p.Q1116*	ACACB_uc001toc.2_Nonsense_Mutation_p.Q1116*	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta	1116					acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)	GCAGTTGGTCCAGAGGTGAAT	0.552													30	101	---	---	---	---	PASS
KSR2	283455	broad.mit.edu	37	12	117977639	117977639	+	Silent	SNP	C	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:117977639C>G	uc001two.2	-	10	1540	c.1485G>C	c.(1483-1485)ACG>ACC	p.T495T		NM_173598	NP_775869	Q6VAB6	KSR2_HUMAN	kinase suppressor of ras 2	524	Pro-rich.				intracellular signal transduction	cytoplasm|membrane	ATP binding|metal ion binding|protein serine/threonine kinase activity			lung(10)|central_nervous_system(2)|stomach(1)|large_intestine(1)|breast(1)	15	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					TGGAGGACGTCGTGGAGGAGG	0.642													12	34	---	---	---	---	PASS
BRI3BP	140707	broad.mit.edu	37	12	125509875	125509875	+	Missense_Mutation	SNP	A	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:125509875A>T	uc001uha.1	+	3	798	c.655A>T	c.(655-657)AGC>TGC	p.S219C		NM_080626	NP_542193	Q8WY22	BRI3B_HUMAN	BRI3-binding protein	219	Potential.					integral to membrane|mitochondrial outer membrane				ovary(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;7.35e-05)|Epithelial(86;0.000426)|all cancers(50;0.00576)		cagcaaccccagcGTGGAGGA	0.547													12	28	---	---	---	---	PASS
TMEM132D	121256	broad.mit.edu	37	12	130184571	130184571	+	Missense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:130184571C>A	uc009zyl.1	-	2	1080	c.752G>T	c.(751-753)CGG>CTG	p.R251L		NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	251	Extracellular (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		GTGGCCTGTCCGGATCCCATT	0.617													33	97	---	---	---	---	PASS
EP400	57634	broad.mit.edu	37	12	132562020	132562020	+	Silent	SNP	C	T	T	rs149254036	byFrequency	TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:132562020C>T	uc001ujn.2	+	52	9209	c.9174C>T	c.(9172-9174)ACC>ACT	p.T3058T	EP400_uc001ujl.2_Silent_p.T3057T|EP400_uc001ujm.2_Silent_p.T2977T|EP400_uc001ujp.2_Silent_p.T268T|EP400_uc010tbo.1_Missense_Mutation_p.R125C	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	3094					histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		CTGCAGTGACCGCGACTGCCC	0.652													33	69	---	---	---	---	PASS
POLE	5426	broad.mit.edu	37	12	133201511	133201511	+	Missense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:133201511C>A	uc001uks.1	-	48	6771	c.6727G>T	c.(6727-6729)GCC>TCC	p.A2243S	POLE_uc001ukq.1_Missense_Mutation_p.A453S|POLE_uc001ukr.1_Missense_Mutation_p.A1047S|POLE_uc010tbq.1_RNA	NM_006231	NP_006222	Q07864	DPOE1_HUMAN	DNA-directed DNA polymerase epsilon	2243					base-excision repair, gap-filling|DNA synthesis involved in DNA repair|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	chromatin binding|DNA binding|DNA-directed DNA polymerase activity|nucleotide binding|protein binding|zinc ion binding			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0416)		OV - Ovarian serous cystadenocarcinoma(86;5.22e-08)|Epithelial(86;4.03e-07)|all cancers(50;1.18e-05)		ATGGTGAGGGCGAAGTCTCCC	0.657								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					11	38	---	---	---	---	PASS
FRY	10129	broad.mit.edu	37	13	32835816	32835816	+	Missense_Mutation	SNP	T	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr13:32835816T>A	uc001utx.2	+	52	7976	c.7480T>A	c.(7480-7482)TGT>AGT	p.C2494S	FRY_uc010tdw.1_RNA|FRY_uc001uty.2_Missense_Mutation_p.C49S|FRY_uc001utz.2_Missense_Mutation_p.C19S|FRY_uc010tdx.1_5'Flank	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	2494					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		CCTGGATAAGTGTGATATGCA	0.493													36	25	---	---	---	---	PASS
N4BP2L2	10443	broad.mit.edu	37	13	33096393	33096393	+	Missense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr13:33096393C>A	uc001uuk.3	-	4	1577	c.1399G>T	c.(1399-1401)GAT>TAT	p.D467Y	N4BP2L2_uc001uuj.2_5'UTR|N4BP2L2_uc010abe.1_Missense_Mutation_p.D38Y|N4BP2L2_uc010tdz.1_Missense_Mutation_p.D23Y	NM_014887	NP_055702	Q92802	N42L2_HUMAN	phosphonoformate immuno-associated protein 5	467											0		Lung SC(185;0.0262)		all cancers(112;9.5e-07)|Epithelial(112;5.07e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00196)|BRCA - Breast invasive adenocarcinoma(63;0.00438)|GBM - Glioblastoma multiforme(144;0.243)		CTTCCCTGATCGATAGCTTGT	0.259													59	92	---	---	---	---	PASS
TNFSF11	8600	broad.mit.edu	37	13	43180990	43180990	+	Missense_Mutation	SNP	C	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr13:43180990C>T	uc001uyu.2	+	5	1039	c.890C>T	c.(889-891)TCC>TTC	p.S297F	TNFSF11_uc001uyt.2_Missense_Mutation_p.S224F	NM_003701	NP_003692	O14788	TNF11_HUMAN	tumor necrosis factor ligand superfamily, member	297	Extracellular (Potential).				immune response|monocyte chemotaxis|osteoclast differentiation|positive regulation of bone resorption|positive regulation of corticotropin-releasing hormone secretion|positive regulation of ERK1 and ERK2 cascade via TNFSF11-mediated signaling|positive regulation of fever generation by positive regulation of prostaglandin secretion|positive regulation of homotypic cell-cell adhesion|positive regulation of NF-kappaB transcription factor activity|positive regulation of osteoclast differentiation|positive regulation of T cell activation	cytoplasm|extracellular space|integral to plasma membrane	cytokine activity|receptor activity|tumor necrosis factor receptor binding				0		Lung NSC(96;1.11e-05)|Breast(139;0.00868)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000249)|GBM - Glioblastoma multiforme(144;0.00119)|BRCA - Breast invasive adenocarcinoma(63;0.073)		TCCAACCCCTCCTTACTGGAT	0.423													69	83	---	---	---	---	PASS
KLHL1	57626	broad.mit.edu	37	13	70681734	70681734	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr13:70681734G>T	uc001vip.2	-	1	892	c.98C>A	c.(97-99)GCG>GAG	p.A33E	KLHL1_uc010thm.1_Missense_Mutation_p.A33E|ATXN8OS_uc010aej.1_RNA	NM_020866	NP_065917	Q9NR64	KLHL1_HUMAN	kelch-like 1 protein	33					actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding				0		Breast(118;0.000162)		COAD - Colon adenocarcinoma(199;0.000193)|GBM - Glioblastoma multiforme(99;0.000211)		GCCTCCCCCCGCCGGGCCGCC	0.622													10	15	---	---	---	---	PASS
ITGBL1	9358	broad.mit.edu	37	13	102367951	102367951	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr13:102367951G>T	uc001vpb.2	+	11	1651	c.1432G>T	c.(1432-1434)GAT>TAT	p.D478Y	ITGBL1_uc010agb.2_Missense_Mutation_p.D429Y|ITGBL1_uc001vpc.3_Missense_Mutation_p.D337Y	NM_004791	NP_004782	O95965	ITGBL_HUMAN	integrin, beta-like 1 (with EGF-like repeat	478	X.|Cysteine-rich tandem repeats.				cell-matrix adhesion|integrin-mediated signaling pathway	extracellular region|integrin complex	binding|receptor activity			ovary(1)|skin(1)	2	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					TGAATGCTGGGATGGATGGAA	0.368													68	102	---	---	---	---	PASS
OR4K5	79317	broad.mit.edu	37	14	20389542	20389542	+	Silent	SNP	G	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr14:20389542G>A	uc010tkw.1	+	1	777	c.777G>A	c.(775-777)GTG>GTA	p.V259V		NM_001005483	NP_001005483	Q8NGD3	OR4K5_HUMAN	olfactory receptor, family 4, subfamily K,	259	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TCATCTATGTGTGGCCCTTTA	0.413													8	467	---	---	---	---	PASS
OR4K14	122740	broad.mit.edu	37	14	20483236	20483236	+	Missense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr14:20483236C>A	uc010tky.1	-	1	117	c.117G>T	c.(115-117)ATG>ATT	p.M39I		NM_001004712	NP_001004712	Q8NGD5	OR4KE_HUMAN	olfactory receptor, family 4, subfamily K,	39	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|large_intestine(1)	3	all_cancers(95;0.00108)		Epithelial(56;4.65e-07)|all cancers(55;2e-06)	GBM - Glioblastoma multiforme(265;0.00124)		GGTTACCCAGCATAATGGCCA	0.433													19	48	---	---	---	---	PASS
OR11G2	390439	broad.mit.edu	37	14	20665548	20665548	+	Silent	SNP	T	C	C			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr14:20665548T>C	uc010tlb.1	+	1	54	c.54T>C	c.(52-54)TGT>TGC	p.C18C		NM_001005503	NP_001005503	Q8NGC1	O11G2_HUMAN	olfactory receptor, family 11, subfamily G,	18	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(95;0.00108)		Epithelial(56;9.76e-07)|all cancers(55;5.61e-06)	GBM - Glioblastoma multiforme(265;0.0144)		CCCATCTATGTTTGCACCGTC	0.353													23	38	---	---	---	---	PASS
OR11H6	122748	broad.mit.edu	37	14	20692683	20692683	+	Missense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr14:20692683C>A	uc010tlc.1	+	1	815	c.815C>A	c.(814-816)ACC>AAC	p.T272N		NM_001004480	NP_001004480	Q8NGC7	O11H6_HUMAN	olfactory receptor, family 11, subfamily H,	272	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(95;0.00108)		Epithelial(56;1.75e-06)|all cancers(55;1.22e-05)	GBM - Glioblastoma multiforme(265;0.0143)		TTCTATGGAACCCTTATGGTG	0.473													63	105	---	---	---	---	PASS
MYH6	4624	broad.mit.edu	37	14	23853813	23853813	+	Silent	SNP	C	T	T	rs139597048		TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr14:23853813C>T	uc001wjv.2	-	36	5470	c.5403G>A	c.(5401-5403)GAG>GAA	p.E1801E		NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	1801	Potential.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		TCTGCTCGGCCTCGTCCAGCC	0.632													4	95	---	---	---	---	PASS
MYH7	4625	broad.mit.edu	37	14	23884402	23884402	+	Silent	SNP	T	C	C			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr14:23884402T>C	uc001wjx.2	-	37	5467	c.5361A>G	c.(5359-5361)GAA>GAG	p.E1787E		NM_000257	NP_000248	P12883	MYH7_HUMAN	myosin, heavy chain 7, cardiac muscle, beta	1787	Potential.				adult heart development|muscle filament sliding|regulation of heart rate|ventricular cardiac muscle tissue morphogenesis	focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(3)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00725)		TAATGGTCTGTTCCATGTTCT	0.622													46	131	---	---	---	---	PASS
LRRC16B	90668	broad.mit.edu	37	14	24524987	24524987	+	Silent	SNP	C	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr14:24524987C>T	uc001wlj.2	+	10	916	c.759C>T	c.(757-759)GCC>GCT	p.A253A		NM_138360	NP_612369	Q8ND23	LR16B_HUMAN	leucine rich repeat containing 16B	253	LRR 1.									ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(265;0.019)		TGGACAACGCCGGGCTTAAGA	0.448													40	61	---	---	---	---	PASS
STRN3	29966	broad.mit.edu	37	14	31381003	31381003	+	Missense_Mutation	SNP	G	C	C			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr14:31381003G>C	uc001wqu.2	-	12	1794	c.1578C>G	c.(1576-1578)ATC>ATG	p.I526M	STRN3_uc001wqv.2_Missense_Mutation_p.I442M|STRN3_uc010tpj.1_RNA	NM_001083893	NP_001077362	Q13033	STRN3_HUMAN	nuclear autoantigen isoform 1	526					negative regulation of estrogen receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|response to estradiol stimulus	cytoplasm|dendrite|Golgi apparatus|neuronal cell body|nucleoplasm|nucleus|plasma membrane|protein complex	armadillo repeat domain binding|calmodulin binding|protein complex binding|protein phosphatase 2A binding|sequence-specific DNA binding transcription factor activity				0	Hepatocellular(127;0.0877)|Breast(36;0.148)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.0119)|BRCA - Breast invasive adenocarcinoma(188;0.0805)	GBM - Glioblastoma multiforme(265;0.0124)		TAAATGTGTAGATAGGCTCTA	0.333													13	56	---	---	---	---	PASS
HECTD1	25831	broad.mit.edu	37	14	31609180	31609180	+	Missense_Mutation	SNP	C	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr14:31609180C>T	uc001wrc.1	-	19	3386	c.2897G>A	c.(2896-2898)CGA>CAA	p.R966Q	HECTD1_uc001wrd.1_Missense_Mutation_p.R481Q	NM_015382	NP_056197	Q9ULT8	HECD1_HUMAN	HECT domain containing 1	966					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	metal ion binding|protein binding|ubiquitin-protein ligase activity			ovary(3)|large_intestine(1)|lung(1)	5	Hepatocellular(127;0.0877)|Breast(36;0.176)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.111)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00617)		TATTAACTTTCGAATTAACGC	0.338													3	79	---	---	---	---	PASS
C14orf115	55237	broad.mit.edu	37	14	74824956	74824956	+	Silent	SNP	C	T	T	rs45500395	byFrequency	TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr14:74824956C>T	uc001xpw.3	+	2	1661	c.1470C>T	c.(1468-1470)GAC>GAT	p.D490D		NM_018228	NP_060698	Q9H8Y1	VRTN_HUMAN	hypothetical protein LOC55237	490					transposition, DNA-mediated		DNA binding|transposase activity				0				BRCA - Breast invasive adenocarcinoma(234;0.00147)		CAGGTGAGGACCCTCCCGCCC	0.662													31	29	---	---	---	---	PASS
DIO2	1734	broad.mit.edu	37	14	80677661	80677661	+	Missense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr14:80677661C>A	uc010tvq.1	-	2	557	c.155G>T	c.(154-156)CGG>CTG	p.R52L	uc001xuw.1_5'Flank|DIO2_uc010tvp.1_Missense_Mutation_p.R52L|DIO2_uc001xut.2_RNA|DIO2_uc010asx.2_Missense_Mutation_p.R52L|DIO2_uc010tvr.1_Missense_Mutation_p.R52L|DIO2_uc010asy.2_Missense_Mutation_p.R52L	NM_000793	NP_000784	Q92813	IOD2_HUMAN	deiodinase, iodothyronine, type II isoform a	52					hormone biosynthetic process|selenocysteine incorporation|thyroid hormone generation	integral to membrane|plasma membrane	thyroxine 5'-deiodinase activity|ubiquitin protein ligase binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.0281)		CAGCATGCGCCGCCACTCTCC	0.587													15	7	---	---	---	---	PASS
EML5	161436	broad.mit.edu	37	14	89163203	89163203	+	Missense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr14:89163203C>A	uc001xxg.2	-	16	2518	c.2332G>T	c.(2332-2334)GTT>TTT	p.V778F	EML5_uc001xxh.1_5'UTR	NM_183387	NP_899243	Q05BV3	EMAL5_HUMAN	echinoderm microtubule associated protein like	778	WD 12.					cytoplasm|microtubule				ovary(3)	3						GAGAAATCAACGGCACTAACA	0.393													12	20	---	---	---	---	PASS
CATSPERB	79820	broad.mit.edu	37	14	92139233	92139233	+	Missense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr14:92139233C>A	uc001xzs.1	-	13	1246	c.1106G>T	c.(1105-1107)GGA>GTA	p.G369V	CATSPERB_uc010aub.1_5'Flank	NM_024764	NP_079040	Q9H7T0	CTSRB_HUMAN	cation channel, sperm-associated, beta	369					cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane				breast(2)|skin(2)|ovary(1)	5		all_cancers(154;0.0663)|all_epithelial(191;0.236)				GAGGTAAACTCCAGTACCACG	0.353													96	128	---	---	---	---	PASS
CATSPERB	79820	broad.mit.edu	37	14	92185772	92185772	+	Silent	SNP	T	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr14:92185772T>A	uc001xzs.1	-	5	500	c.360A>T	c.(358-360)ACA>ACT	p.T120T		NM_024764	NP_079040	Q9H7T0	CTSRB_HUMAN	cation channel, sperm-associated, beta	120					cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane				breast(2)|skin(2)|ovary(1)	5		all_cancers(154;0.0663)|all_epithelial(191;0.236)				CTGTGCTTTGTGTGATGTTTT	0.303													32	50	---	---	---	---	PASS
RIN3	79890	broad.mit.edu	37	14	93107667	93107667	+	Silent	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr14:93107667G>T	uc001yap.2	+	5	677	c.525G>T	c.(523-525)CTG>CTT	p.L175L	RIN3_uc010auk.2_5'UTR|RIN3_uc001yaq.2_Silent_p.L100L	NM_024832	NP_079108	Q8TB24	RIN3_HUMAN	Ras and Rab interactor 3	175					endocytosis|signal transduction	cytoplasmic membrane-bounded vesicle|early endosome	GTPase activator activity|Ras GTPase binding			lung(2)|ovary(1)	3		all_cancers(154;0.0701)				TCGCCAACCTGGGTCTGGGTG	0.637													30	28	---	---	---	---	PASS
MARK3	4140	broad.mit.edu	37	14	103931944	103931944	+	Silent	SNP	C	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr14:103931944C>T	uc001ymz.3	+	8	1257	c.591C>T	c.(589-591)TTC>TTT	p.F197F	MARK3_uc001ymx.3_Silent_p.F197F|MARK3_uc001ymw.3_Silent_p.F197F|MARK3_uc001yna.3_Silent_p.F197F|MARK3_uc001ymy.3_Intron|MARK3_uc010awp.2_Silent_p.F220F|MARK3_uc010tyb.1_Silent_p.F8F	NM_001128918	NP_001122390	P27448	MARK3_HUMAN	MAP/microtubule affinity-regulating kinase 3	197	Protein kinase.						ATP binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(2)|ovary(1)|stomach(1)	4		Melanoma(154;0.155)	Epithelial(46;0.241)			TAGCAGATTTCGGTTTTAGCA	0.388													19	116	---	---	---	---	PASS
TUBGCP5	114791	broad.mit.edu	37	15	22841050	22841050	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr15:22841050G>T	uc001yur.3	+	5	548	c.418G>T	c.(418-420)GAT>TAT	p.D140Y	TUBGCP5_uc001yuq.2_Missense_Mutation_p.D140Y	NM_052903	NP_443135	Q96RT8	GCP5_HUMAN	tubulin, gamma complex associated protein 5	140					G2/M transition of mitotic cell cycle|microtubule nucleation	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	microtubule binding			skin(1)	1		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;2.86e-06)|Epithelial(43;2.63e-05)|BRCA - Breast invasive adenocarcinoma(123;0.000949)		AAAGAAAGATGATTTCGACTG	0.328													17	31	---	---	---	---	PASS
C15orf2	23742	broad.mit.edu	37	15	24922681	24922681	+	Missense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr15:24922681C>A	uc001ywo.2	+	1	2141	c.1667C>A	c.(1666-1668)ACT>AAT	p.T556N		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	556					cell differentiation|multicellular organismal development|spermatogenesis					ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)		GTCATTTCCACTGTCACAACA	0.493													53	77	---	---	---	---	PASS
ATP10A	57194	broad.mit.edu	37	15	25924963	25924963	+	Missense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr15:25924963C>A	uc010ayu.2	-	21	4131	c.4025G>T	c.(4024-4026)AGG>ATG	p.R1342M		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	1342	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		CTTGACTGTCCTCCCTGATGA	0.627													40	70	---	---	---	---	PASS
APBA2	321	broad.mit.edu	37	15	29346393	29346393	+	Silent	SNP	C	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr15:29346393C>T	uc001zck.2	+	3	513	c.306C>T	c.(304-306)CGC>CGT	p.R102R	APBA2_uc010azj.2_Silent_p.R102R|APBA2_uc010uat.1_Silent_p.R102R|APBA2_uc001zcl.2_Silent_p.R102R|APBA2_uc010uas.1_Silent_p.R102R	NM_005503	NP_005494	Q99767	APBA2_HUMAN	amyloid beta A4 precursor protein-binding,	102					nervous system development|protein transport		protein binding				0		all_lung(180;1.73e-12)|Breast(32;2.89e-05)|Colorectal(260;0.234)		all cancers(64;7.44e-11)|Epithelial(43;5.74e-10)|GBM - Glioblastoma multiforme(186;0.026)|BRCA - Breast invasive adenocarcinoma(123;0.0286)|Lung(196;0.24)		ACTACATCCGCTACTGCCCTG	0.597													54	57	---	---	---	---	PASS
SCG5	6447	broad.mit.edu	37	15	32935913	32935913	+	Missense_Mutation	SNP	C	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr15:32935913C>G	uc001zha.2	+	2	237	c.120C>G	c.(118-120)ATC>ATG	p.I40M	SCG5_uc001zgz.2_Missense_Mutation_p.I40M	NM_001144757	NP_001138229	P05408	7B2_HUMAN	secretogranin V isoform 1	40					intracellular protein transport|neuropeptide signaling pathway|peptide hormone processing|regulation of hormone secretion	extracellular region|stored secretory granule	enzyme inhibitor activity|GTP binding|unfolded protein binding				0		all_lung(180;7.32e-08)		all cancers(64;6.48e-17)|Epithelial(43;1.23e-11)|GBM - Glioblastoma multiforme(186;1.39e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0212)		AAGCAGATATCCAGAGGCTGC	0.562													48	65	---	---	---	---	PASS
GJD2	57369	broad.mit.edu	37	15	35044940	35044940	+	Silent	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr15:35044940G>T	uc001zis.1	-	2	705	c.705C>A	c.(703-705)CCC>CCA	p.P235P	uc001zit.1_5'Flank	NM_020660	NP_065711	Q9UKL4	CXD2_HUMAN	gap junction protein, delta 2, 36kDa	235	Extracellular (Potential).				synaptic transmission	connexon complex|integral to membrane	gap junction channel activity				0		all_lung(180;9.67e-07)		all cancers(64;2.75e-18)|GBM - Glioblastoma multiforme(113;1.9e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0156)		CCTTGATGCAGGGGTAGCGGT	0.478													22	35	---	---	---	---	PASS
ITGA11	22801	broad.mit.edu	37	15	68618991	68618991	+	Splice_Site	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr15:68618991C>A	uc002ari.2	-	17	2298	c.2211_splice	c.e17+1	p.L737_splice	ITGA11_uc010bib.2_Splice_Site_p.L737_splice	NM_001004439	NP_001004439	Q9UKX5	ITA11_HUMAN	integrin, alpha 11 precursor						cell-matrix adhesion|integrin-mediated signaling pathway|muscle organ development	integrin complex	collagen binding|receptor activity			kidney(2)|pancreas(1)	3					Tirofiban(DB00775)	TGCCAGCTTACCAGGACATGG	0.632													4	9	---	---	---	---	PASS
CORO2B	10391	broad.mit.edu	37	15	69011811	69011811	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr15:69011811G>T	uc002arj.3	+	11	1260	c.1231G>T	c.(1231-1233)GCT>TCT	p.A411S	CORO2B_uc010bic.2_Missense_Mutation_p.A406S|CORO2B_uc002ark.2_Missense_Mutation_p.A178S	NM_006091	NP_006082	Q9UQ03	COR2B_HUMAN	coronin, actin binding protein, 2B	411					actin cytoskeleton organization	actin cytoskeleton|cytoplasm|membrane	actin filament binding			ovary(3)|skin(2)|large_intestine(1)	6						GGTATTTAAGGCTCCCATCAA	0.408													52	105	---	---	---	---	PASS
CYP1A2	1544	broad.mit.edu	37	15	75047333	75047333	+	Silent	SNP	G	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr15:75047333G>A	uc002ayr.1	+	7	1519	c.1455G>A	c.(1453-1455)CCG>CCA	p.P485P		NM_000761	NP_000752	P05177	CP1A2_HUMAN	cytochrome P450, family 1, subfamily A,	485					alkaloid metabolic process|exogenous drug catabolic process|methylation|monocarboxylic acid metabolic process|monoterpenoid metabolic process|oxidative deethylation|oxidative demethylation|steroid catabolic process|toxin biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|caffeine oxidase activity|demethylase activity|electron carrier activity|enzyme binding|heme binding|oxygen binding			ovary(3)|breast(1)	4					Acenocoumarol(DB01418)|Acetaminophen(DB00316)|Aciclovir(DB00787)|Alosetron(DB00969)|Aminophenazone(DB01424)|Amitriptyline(DB00321)|Anagrelide(DB00261)|Azelastine(DB00972)|Bortezomib(DB00188)|Caffeine(DB00201)|Carmustine(DB00262)|Chlordiazepoxide(DB00475)|Chlorpromazine(DB00477)|Chlorzoxazone(DB00356)|Cimetidine(DB00501)|Cinacalcet(DB01012)|Ciprofloxacin(DB00537)|Clomipramine(DB01242)|Clotrimazole(DB00257)|Clozapine(DB00363)|Conjugated Estrogens(DB00286)|Cyclobenzaprine(DB00924)|Dacarbazine(DB00851)|Desloratadine(DB00967)|Diazepam(DB00829)|Dibucaine(DB00527)|Diclofenac(DB00586)|Duloxetine(DB00476)|Enoxacin(DB00467)|Esomeprazole(DB00736)|Estradiol(DB00783)|Estrone(DB00655)|Fluorouracil(DB00544)|Flutamide(DB00499)|Fluvoxamine(DB00176)|Frovatriptan(DB00998)|Grepafloxacin(DB00365)|Haloperidol(DB00502)|Hesperetin(DB01094)|Imipramine(DB00458)|Ketoconazole(DB01026)|Leflunomide(DB01097)|Levobupivacaine(DB01002)|Levofloxacin(DB01137)|Lidocaine(DB00281)|Lomefloxacin(DB00978)|Melatonin(DB01065)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mirtazapine(DB00370)|Norfloxacin(DB01059)|Nortriptyline(DB00540)|Ofloxacin(DB01165)|Olanzapine(DB00334)|Ondansetron(DB00904)|Palonosetron(DB00377)|Pantoprazole(DB00213)|Pefloxacin(DB00487)|Pimozide(DB01100)|Propafenone(DB01182)|Propranolol(DB00571)|Quinidine(DB00908)|Ramelteon(DB00980)|Ranitidine(DB00863)|Rasagiline(DB01367)|Rifampin(DB01045)|Riluzole(DB00740)|Rofecoxib(DB00533)|Ropinirole(DB00268)|Ropivacaine(DB00296)|Tacrine(DB00382)|Telithromycin(DB00976)|Terfenadine(DB00342)|Theophylline(DB00277)|Thiabendazole(DB00730)|Tizanidine(DB00697)|Tolbutamide(DB01124)|Verapamil(DB00661)|Warfarin(DB00682)|Zileuton(DB00744)|Zolmitriptan(DB00315)	GCGTGCCGCCGGGCGTGAAAG	0.612													40	49	---	---	---	---	PASS
CIB2	10518	broad.mit.edu	37	15	78398097	78398097	+	Missense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr15:78398097C>A	uc002bdb.1	-	5	847	c.526G>T	c.(526-528)GCC>TCC	p.A176S	CIB2_uc002bdc.1_Missense_Mutation_p.A133S|CIB2_uc010ums.1_Missense_Mutation_p.A176S	NM_006383	NP_006374	O75838	CIB2_HUMAN	DNA-dependent protein kinase catalytic	176	EF-hand 3.						calcium ion binding				0						AAGTCAGGGGCCTTGGCAATC	0.627													6	49	---	---	---	---	PASS
TMED3	23423	broad.mit.edu	37	15	79603747	79603747	+	Silent	SNP	C	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr15:79603747C>G	uc002beu.2	+	1	257	c.156C>G	c.(154-156)TCC>TCG	p.S52S	TMED3_uc010unj.1_Silent_p.S52S|TMED3_uc002bev.2_RNA	NM_007364	NP_031390	Q9Y3Q3	TMED3_HUMAN	transmembrane emp24 domain containing 3	52	Lumenal (Potential).|GOLD.				protein transport	ER-Golgi intermediate compartment membrane|Golgi apparatus|integral to membrane				ovary(1)|skin(1)	2						TGAAGTTCTCCCTGGATTACC	0.692													9	14	---	---	---	---	PASS
TMC3	342125	broad.mit.edu	37	15	81625008	81625008	+	Missense_Mutation	SNP	A	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr15:81625008A>T	uc002bgo.1	-	22	3055	c.3055T>A	c.(3055-3057)TTC>ATC	p.F1019I	TMC3_uc010blr.1_RNA	NM_001080532	NP_001074001	Q7Z5M5	TMC3_HUMAN	transmembrane channel-like 3	1019	Cytoplasmic (Potential).					integral to membrane				ovary(1)|liver(1)	2						GGGTATTGGAAATTCCGGGAT	0.582													7	55	---	---	---	---	PASS
IGFALS	3483	broad.mit.edu	37	16	1842028	1842028	+	Silent	SNP	G	T	T	rs141901437		TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr16:1842028G>T	uc002cmy.2	-	2	472	c.391C>A	c.(391-393)CGG>AGG	p.R131R	IGFALS_uc010uvn.1_Silent_p.R169R|IGFALS_uc010uvo.1_5'UTR	NM_004970	NP_004961	P35858	ALS_HUMAN	insulin-like growth factor binding protein, acid	131	LRR 3.				cell adhesion|signal transduction	soluble fraction	insulin-like growth factor binding				0						AGCTGGTTCCGCTCCAGGTGC	0.692													8	13	---	---	---	---	PASS
CLDN9	9080	broad.mit.edu	37	16	3063914	3063914	+	Missense_Mutation	SNP	C	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr16:3063914C>T	uc010uwo.1	+	1	1458	c.551C>T	c.(550-552)ACG>ATG	p.T184M		NM_020982	NP_066192	O95484	CLD9_HUMAN	claudin 9	184	Cytoplasmic (Potential).				calcium-independent cell-cell adhesion|tight junction assembly	integral to membrane|tight junction	identical protein binding|structural molecule activity				0						CTCTGCTGCACGTGCCCCCCG	0.721													8	20	---	---	---	---	PASS
IL32	9235	broad.mit.edu	37	16	3119200	3119200	+	Silent	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr16:3119200G>T	uc002cto.2	+	6	760	c.549G>T	c.(547-549)CTG>CTT	p.L183L	IL32_uc002ctk.2_Intron|IL32_uc010uwp.1_Silent_p.L117L|IL32_uc010btb.2_Silent_p.L127L|IL32_uc002ctl.2_Silent_p.L137L|IL32_uc002ctm.2_Silent_p.L137L|IL32_uc002ctn.2_Silent_p.L137L|IL32_uc002cts.3_Silent_p.L137L|IL32_uc002ctp.2_Silent_p.L117L|IL32_uc002ctq.2_Silent_p.L183L|IL32_uc002ctr.2_Silent_p.L117L|IL32_uc002ctt.2_Silent_p.L137L|IL32_uc010uwr.1_Silent_p.L97L|IL32_uc002ctu.2_Silent_p.L128L	NM_004221	NP_004212	P24001	IL32_HUMAN	interleukin 32 isoform B	183					cell adhesion|defense response|immune response	extracellular space	cytokine activity			pancreas(1)	1						TGGTGGCCCTGGTCCATGCAG	0.592													15	69	---	---	---	---	PASS
ZNF75A	7627	broad.mit.edu	37	16	3367431	3367431	+	Missense_Mutation	SNP	C	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr16:3367431C>G	uc002cut.3	+	6	979	c.453C>G	c.(451-453)CAC>CAG	p.H151Q	ZNF75A_uc002cuv.3_RNA	NM_153028	NP_694573	Q96N20	ZN75A_HUMAN	zinc finger protein 75a	151					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1						TGGATCGTCACAAGAAAGATT	0.398													3	74	---	---	---	---	PASS
ACSM2A	123876	broad.mit.edu	37	16	20471499	20471499	+	Silent	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr16:20471499C>A	uc010bwe.2	+	3	302	c.63C>A	c.(61-63)CGC>CGA	p.R21R	ACSM2A_uc010bwd.1_RNA|ACSM2A_uc010vax.1_Intron|ACSM2A_uc002dhf.3_Silent_p.R21R|ACSM2A_uc002dhg.3_Silent_p.R21R|ACSM2A_uc010vay.1_Intron	NM_001010845	NP_001010845	Q08AH3	ACS2A_HUMAN	acyl-CoA synthetase medium-chain family member	21					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding			skin(2)|breast(1)	3						TGTCCAGCCGCACTCTCTACA	0.507													26	52	---	---	---	---	PASS
ACSM2B	348158	broad.mit.edu	37	16	20559758	20559758	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr16:20559758G>T	uc002dhj.3	-	8	1142	c.932C>A	c.(931-933)GCC>GAC	p.A311D	ACSM2B_uc002dhk.3_Missense_Mutation_p.A311D|ACSM2B_uc010bwf.1_Missense_Mutation_p.A311D	NM_182617	NP_872423	Q68CK6	ACS2B_HUMAN	acyl-CoA synthetase medium-chain family member	311					fatty acid metabolic process|xenobiotic metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|CoA-ligase activity|metal ion binding			skin(3)|ovary(1)|central_nervous_system(1)	5						AACAATAGGGGCACCCATCAT	0.507													33	106	---	---	---	---	PASS
ZKSCAN2	342357	broad.mit.edu	37	16	25255346	25255346	+	Missense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr16:25255346C>A	uc002dod.3	-	6	2148	c.1741G>T	c.(1741-1743)GCC>TCC	p.A581S	ZKSCAN2_uc010vcl.1_Missense_Mutation_p.A377S	NM_001012981	NP_001012999	Q63HK3	ZKSC2_HUMAN	zinc finger with KRAB and SCAN domains 2	581					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)|breast(1)	4				GBM - Glioblastoma multiforme(48;0.0378)		TTAATCAGGGCATCCATCTCC	0.527													40	107	---	---	---	---	PASS
GDPD3	79153	broad.mit.edu	37	16	30119569	30119569	+	Missense_Mutation	SNP	T	C	C			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr16:30119569T>C	uc002dwp.2	-	9	863	c.784A>G	c.(784-786)AGT>GGT	p.S262G	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|GDPD3_uc002dwq.2_Missense_Mutation_p.S200G	NM_024307	NP_077283	Q7L5L3	GDPD3_HUMAN	glycerophosphodiester phosphodiesterase domain	262	GDPD.|Cytoplasmic (Potential).				glycerol metabolic process|lipid metabolic process	integral to membrane	glycerophosphodiester phosphodiesterase activity|metal ion binding				0						CGGATCAGACTCTTCCTCATG	0.542													26	60	---	---	---	---	PASS
TBC1D10B	26000	broad.mit.edu	37	16	30369819	30369819	+	Missense_Mutation	SNP	G	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr16:30369819G>A	uc002dxu.2	-	9	1891	c.1873C>T	c.(1873-1875)CGG>TGG	p.R625W	TBC1D10B_uc002dxt.2_Missense_Mutation_p.R50W	NM_015527	NP_056342	Q4KMP7	TB10B_HUMAN	TBC1 domain family, member 10B	625						cytoplasm	Rab GTPase activator activity				0			Colorectal(24;0.193)			AGCTCCCCCCGCGTTTCCCGC	0.652													5	4	---	---	---	---	PASS
FANCA	2175	broad.mit.edu	37	16	89882355	89882355	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr16:89882355G>T	uc002fou.1	-	2	161	c.119C>A	c.(118-120)GCA>GAA	p.A40E	FANCA_uc010vpn.1_Missense_Mutation_p.A40E|FANCA_uc002fov.1_Missense_Mutation_p.A23E|FANCA_uc002fow.1_Missense_Mutation_p.A40E|FANCA_uc002fox.1_Missense_Mutation_p.A40E|FANCA_uc010ciu.1_Missense_Mutation_p.A40E|FANCA_uc002foy.2_Missense_Mutation_p.A40E	NM_000135	NP_000126	O15360	FANCA_HUMAN	Fanconi anemia, complementation group A isoform	40					DNA repair|protein complex assembly	cytoplasm|nucleoplasm	protein binding			ovary(2)|breast(2)|central_nervous_system(1)|skin(1)	6		Lung NSC(15;8.48e-06)|all_lung(18;1.31e-05)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.028)		TAATTTCTGTGCCCTTTCAGG	0.542			D|Mis|N|F|S			AML|leukemia		Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				7	113	---	---	---	---	PASS
TRPV3	162514	broad.mit.edu	37	17	3417929	3417929	+	Missense_Mutation	SNP	C	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr17:3417929C>T	uc002fvt.1	-	17	2558	c.2236G>A	c.(2236-2238)GTC>ATC	p.V746I	SPATA22_uc010vrg.1_5'Flank|TRPV3_uc002fvs.1_RNA|TRPV3_uc010vrh.1_Missense_Mutation_p.V730I|TRPV3_uc010vri.1_Missense_Mutation_p.V701I|TRPV3_uc010vrj.1_Missense_Mutation_p.V730I|TRPV3_uc010vrk.1_RNA|TRPV3_uc010vrl.1_Missense_Mutation_p.V730I|TRPV3_uc010vrm.1_RNA|TRPV3_uc002fvr.2_Missense_Mutation_p.V746I|TRPV3_uc002fvu.2_Missense_Mutation_p.V746I	NM_145068	NP_659505	Q8NET8	TRPV3_HUMAN	transient receptor potential cation channel,	746	Cytoplasmic (Potential).					integral to membrane	calcium channel activity			ovary(4)	4					Menthol(DB00825)	AGGAAGGAGACGTGCGTCTTC	0.453													16	22	---	---	---	---	PASS
TP53	7157	broad.mit.edu	37	17	7577538	7577538	+	Missense_Mutation	SNP	C	T	T	rs11540652		TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr17:7577538C>T	uc002gim.2	-	7	937	c.743G>A	c.(742-744)CGG>CAG	p.R248Q	TP53_uc002gig.1_Missense_Mutation_p.R248Q|TP53_uc002gih.2_Missense_Mutation_p.R248Q|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R116Q|TP53_uc010cng.1_Missense_Mutation_p.R116Q|TP53_uc002gii.1_Missense_Mutation_p.R116Q|TP53_uc010cnh.1_Missense_Mutation_p.R248Q|TP53_uc010cni.1_Missense_Mutation_p.R248Q|TP53_uc002gij.2_Missense_Mutation_p.R248Q|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.R155Q|TP53_uc002gio.2_Missense_Mutation_p.R116Q	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	248	|Interaction with HIPK1 (By similarity).|Interacts with the 53BP2 SH3 domain.|Interaction with AXIN1 (By similarity).		R -> W (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> P (in sporadic cancers; somatic mutation).|R -> G (in sporadic cancers; somatic mutation).|R -> L (in sporadic cancers; somatic mutation).|NR -> KW (in sporadic cancers; somatic mutation).|R -> C (in a sporadic cancer; somatic mutation).|NR -> IP (in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R248Q(523)|p.R248W(443)|p.R248L(63)|p.R248P(12)|p.R248G(11)|p.R248R(10)|p.0?(7)|p.R155Q(4)|p.N247_R248delNR(2)|p.N247_R248>KW(2)|p.M246_P250delMNRRP(2)|p.R248fs*97(2)|p.R248_P250delRRP(1)|p.N247_R249delNRR(1)|p.N247_P250delNRRP(1)|p.R249fs*96(1)|p.R248C(1)|p.G245fs*14(1)|p.N247_R248>IP(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		GATGGGCCTCCGGTTCATGCC	0.572	R248Q(KASUMI1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(HS683_CENTRAL_NERVOUS_SYSTEM)|R248Q(NAMALWA_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(HCC1143_BREAST)|R248Q(BL41_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(SKUT1_SOFT_TISSUE)|R248Q(HSC4_UPPER_AERODIGESTIVE_TRACT)|R248Q(HEC1A_ENDOMETRIUM)|R248Q(SF295_CENTRAL_NERVOUS_SYSTEM)|R248Q(KOPN8_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(NUDHL1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(WSUDLCL2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(NCIN87_STOMACH)|R248Q(P12ICHIKAWA_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(DB_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(RT112_URINARY_TRACT)|R248Q(PF382_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(PANC0203_PANCREAS)|R248Q(EM2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(SEM_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(CI1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(MOLM6_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(NIHOVCAR3_OVARY)|R248Q(CA46_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(SUPT1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(SW1463_LARGE_INTESTINE)|R248Q(HCC70_BREAST)|R248Q(KYSE150_OESOPHAGUS)|R248Q(NB4_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(NCIH211_LUNG)|R248Q(KYO1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(PC14_LUNG)	111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			25	31	---	---	---	---	PASS
MYH8	4626	broad.mit.edu	37	17	10304656	10304656	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr17:10304656G>T	uc002gmm.2	-	24	3139	c.3044C>A	c.(3043-3045)GCA>GAA	p.A1015E	uc002gml.1_Intron	NM_002472	NP_002463	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle,	1015	Potential.				muscle filament sliding	cytosol|muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			skin(6)|ovary(3)|breast(2)	11						GTCCTCCTCTGCCTGCAGGTC	0.458									Trismus-Pseudocamptodactyly_Syndrome_with_Cardiac_Myxoma_and_Freckling				86	112	---	---	---	---	PASS
DNAH9	1770	broad.mit.edu	37	17	11687649	11687649	+	Silent	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr17:11687649G>T	uc002gne.2	+	41	7922	c.7854G>T	c.(7852-7854)CCG>CCT	p.P2618P	DNAH9_uc010coo.2_Silent_p.P1912P	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	2618	AAA 3 (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		TCTCCTTCCCGGGGGCAGATG	0.532													138	163	---	---	---	---	PASS
TRIM16L	147166	broad.mit.edu	37	17	18638308	18638308	+	Silent	SNP	C	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr17:18638308C>T	uc002gug.1	+	10	1269	c.582C>T	c.(580-582)AGC>AGT	p.S194S	TRIM16L_uc010vyf.1_Silent_p.S248S|TRIM16L_uc002guh.1_Silent_p.S194S|TRIM16L_uc010cqg.1_Silent_p.S296S|TRIM16L_uc002gui.1_Silent_p.S194S|TRIM16L_uc010vyg.1_Silent_p.S194S|TRIM16L_uc010vyh.1_Missense_Mutation_p.A107V	NM_001037330	NP_001032407	Q309B1	TR16L_HUMAN	tripartite motif-containing 16-like	194	B30.2/SPRY.					cytoplasm					0						ACCTCCCCAGCAGGTTCCTGC	0.612													15	18	---	---	---	---	PASS
AMAC1	146861	broad.mit.edu	37	17	33520841	33520841	+	Silent	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr17:33520841C>A	uc002hjd.2	-	1	572	c.486G>T	c.(484-486)CTG>CTT	p.L162L		NM_152462	NP_689675	Q8N808	AMAC1_HUMAN	acyl-malonyl condensing enzyme 1	162	DUF6 1.|Helical; (Potential).					integral to membrane					0				BRCA - Breast invasive adenocarcinoma(366;0.0917)		TGCAGCCCAACAGTCCACACC	0.592													58	164	---	---	---	---	PASS
TBC1D3B	414059	broad.mit.edu	37	17	34493456	34493456	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr17:34493456G>T	uc002hky.2	-	14	1719	c.1569C>A	c.(1567-1569)GAC>GAA	p.D523E		NM_001001417	NP_001001417	Q8IZP1	TBC3A_HUMAN	TBC1 domain family, member 3B	523						intracellular	Rab GTPase activator activity				0		Breast(25;0.102)|Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		actgctgttcgTCCCTAGCTC	0.448													60	53	---	---	---	---	PASS
HNF1B	6928	broad.mit.edu	37	17	36093605	36093605	+	Silent	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr17:36093605G>T	uc002hok.3	-	3	975	c.754C>A	c.(754-756)CGG>AGG	p.R252R	HNF1B_uc010wdi.1_Silent_p.R226R|HNF1B_uc010cve.1_Silent_p.R60R	NM_000458	NP_000449	P35680	HNF1B_HUMAN	hepatocyte nuclear factor 1-beta isoform 1	252	Homeobox; HNF1-type.				endocrine pancreas development|genitalia development|kidney development|positive regulation of transcription initiation from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|pronephric nephron tubule development|regulation of pronephros size	nucleus	DNA binding|protein homodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)	3		Breast(25;0.00765)|Ovarian(249;0.15)	STAD - Stomach adenocarcinoma(1;0.0142)			TTCTTTTGCCGATCGTAGGCC	0.572									Hereditary_Prostate_Cancer				82	177	---	---	---	---	PASS
KRT23	25984	broad.mit.edu	37	17	39087664	39087664	+	Missense_Mutation	SNP	A	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr17:39087664A>T	uc002hvm.1	-	3	1029	c.440T>A	c.(439-441)ATT>AAT	p.I147N	KRT23_uc010wfl.1_Missense_Mutation_p.I10N|KRT23_uc010cxf.1_Translation_Start_Site|KRT23_uc010cxg.2_Missense_Mutation_p.I147N|KRT23_uc002hvn.1_Missense_Mutation_p.I147N	NM_015515	NP_056330	Q9C075	K1C23_HUMAN	keratin 23	147	Rod.|Coil 1B.					intermediate filament	structural molecule activity			ovary(1)	1		Breast(137;0.000301)|Ovarian(249;0.15)				GGCATTGTCAATGAGAAGAAT	0.408													39	86	---	---	---	---	PASS
TBX21	30009	broad.mit.edu	37	17	45822456	45822456	+	Silent	SNP	G	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr17:45822456G>A	uc002ilv.1	+	6	1543	c.1332G>A	c.(1330-1332)CCG>CCA	p.P444P		NM_013351	NP_037483	Q9UL17	TBX21_HUMAN	T-box 21	444					lymphocyte migration|multicellular organismal development|positive regulation of transcription, DNA-dependent|response to virus	nucleus	sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding				0						AGATGGGCCCGGCCAGCTGGT	0.692													22	46	---	---	---	---	PASS
KIF2B	84643	broad.mit.edu	37	17	51901693	51901693	+	Silent	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr17:51901693G>T	uc002iua.2	+	1	1455	c.1299G>T	c.(1297-1299)CTG>CTT	p.L433L	uc010wna.1_RNA	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	433	Kinesin-motor.				blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						AGATCATCCTGAAGTCAGGAC	0.512													13	65	---	---	---	---	PASS
AKAP1	8165	broad.mit.edu	37	17	55183423	55183423	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr17:55183423G>T	uc002iux.2	+	2	829	c.598G>T	c.(598-600)GGT>TGT	p.G200C	AKAP1_uc010wnl.1_Missense_Mutation_p.G200C|AKAP1_uc002iuy.2_RNA|AKAP1_uc010dcm.2_Missense_Mutation_p.G200C	NM_003488	NP_003479	Q92667	AKAP1_HUMAN	A-kinase anchor protein 1 precursor	200					blood coagulation	cytosol|integral to membrane|mitochondrial outer membrane	protein binding|RNA binding			ovary(1)	1	Breast(9;5.46e-08)					AAGAGAGACAGGTGGGGCCGA	0.592													37	83	---	---	---	---	PASS
USP32	84669	broad.mit.edu	37	17	58256732	58256732	+	Nonsense_Mutation	SNP	G	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr17:58256732G>A	uc002iyo.1	-	34	4985	c.4699C>T	c.(4699-4701)CAG>TAG	p.Q1567*	USP32_uc002iyn.1_Nonsense_Mutation_p.Q1237*	NM_032582	NP_115971	Q8NFA0	UBP32_HUMAN	ubiquitin specific protease 32	1567					protein deubiquitination|ubiquitin-dependent protein catabolic process	Golgi apparatus|membrane	calcium ion binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|breast(2)|large_intestine(1)	5	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;2.02e-11)|all cancers(12;5.23e-10)|Colorectal(3;0.198)			TCTATCCCCTGCTGCTCATAG	0.413													57	113	---	---	---	---	PASS
BPTF	2186	broad.mit.edu	37	17	65850849	65850849	+	Missense_Mutation	SNP	A	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr17:65850849A>T	uc002jgf.2	+	2	1468	c.1407A>T	c.(1405-1407)AAA>AAT	p.K469N	BPTF_uc002jge.2_Missense_Mutation_p.K469N|BPTF_uc010wqm.1_Missense_Mutation_p.K469N	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	469					brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			ovary(2)|skin(2)	4	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)			GTCGGAGGAAATACTGGTTCT	0.358													16	40	---	---	---	---	PASS
GPRC5C	55890	broad.mit.edu	37	17	72436491	72436491	+	Silent	SNP	C	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr17:72436491C>T	uc002jks.2	+	1	615	c.576C>T	c.(574-576)AGC>AGT	p.S192S	GPRC5C_uc002jkp.2_Silent_p.S237S|GPRC5C_uc002jkq.2_Intron|GPRC5C_uc002jkr.2_Silent_p.S204S|GPRC5C_uc002jkt.2_Silent_p.S192S|GPRC5C_uc002jku.2_5'Flank	NM_018653	NP_061123	Q9NQ84	GPC5C_HUMAN	G protein-coupled receptor family C, group 5,	192	Extracellular (Potential).					cytoplasmic vesicle membrane|integral to plasma membrane	G-protein coupled receptor activity|protein binding			ovary(2)|prostate(1)|central_nervous_system(1)|pancreas(1)	5						AGGGCAACAGCAGCGCAGGCT	0.622													20	28	---	---	---	---	PASS
GRIN2C	2905	broad.mit.edu	37	17	72843596	72843596	+	Missense_Mutation	SNP	C	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr17:72843596C>T	uc002jlt.1	-	9	2008	c.1852G>A	c.(1852-1854)GAG>AAG	p.E618K	GRIN2C_uc010wrh.1_RNA|GRIN2C_uc002jlu.1_Missense_Mutation_p.E618K	NM_000835	NP_000826	Q14957	NMDE3_HUMAN	N-methyl-D-aspartate receptor subunit 2C	618	Cytoplasmic (Potential).				glutamate signaling pathway	cell junction|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|N-methyl-D-aspartate selective glutamate receptor activity			ovary(2)|breast(2)	4	all_lung(278;0.172)|Lung NSC(278;0.207)				Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)	CGCGGGTTCTCGATGGGCACT	0.627													4	65	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	17	76497289	76497289	+	RNA	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr17:76497289C>A	uc002jvt.1	+	2		c.2748C>A								Homo sapiens cDNA FLJ45552 fis, clone BRTHA2038279.																		GGGTGATGACCAGCCGCGGCG	0.562													26	80	---	---	---	---	PASS
RNF213	57674	broad.mit.edu	37	17	78320176	78320176	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr17:78320176G>T	uc002jyh.1	+	4	2483	c.2260G>T	c.(2260-2262)GTC>TTC	p.V754F		NM_020914	NP_065965	Q9HCF4	ALO17_HUMAN	ring finger protein 213	Error:Variant_position_missing_in_Q9HCF4_after_alignment										ovary(8)|lung(6)|breast(3)|large_intestine(2)|central_nervous_system(1)|pancreas(1)	21	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			GAGAGATCCCGTCCTCTGGTC	0.522													5	66	---	---	---	---	PASS
APCDD1	147495	broad.mit.edu	37	18	10487919	10487919	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr18:10487919G>T	uc002kom.3	+	5	1783	c.1429G>T	c.(1429-1431)GCA>TCA	p.A477S		NM_153000	NP_694545	Q8J025	APCD1_HUMAN	adenomatosis polyposis coli down-regulated 1	477	Extracellular (Potential).				hair follicle development|negative regulation of Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to plasma membrane	Wnt-protein binding				0				READ - Rectum adenocarcinoma(15;0.08)		AGAGGACCTCGCAGAAGACAG	0.647													41	87	---	---	---	---	PASS
DTNA	1837	broad.mit.edu	37	18	32374114	32374114	+	Missense_Mutation	SNP	A	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr18:32374114A>G	uc010dmn.1	+	3	263	c.262A>G	c.(262-264)ATT>GTT	p.I88V	DTNA_uc002kxu.2_Missense_Mutation_p.I88V|DTNA_uc010xbx.1_Missense_Mutation_p.I88V|DTNA_uc002kxv.3_Missense_Mutation_p.I88V|DTNA_uc002kxw.2_Missense_Mutation_p.I88V|DTNA_uc002kxx.2_Missense_Mutation_p.I88V|DTNA_uc010dmj.2_Missense_Mutation_p.I88V|DTNA_uc002kxz.2_Missense_Mutation_p.I88V|DTNA_uc002kxy.2_Missense_Mutation_p.I88V|DTNA_uc010dmk.1_RNA|DTNA_uc010dml.2_Missense_Mutation_p.I88V|DTNA_uc002kyb.3_Missense_Mutation_p.I88V|DTNA_uc010dmm.2_Missense_Mutation_p.I88V	NM_001390	NP_001381	Q9Y4J8	DTNA_HUMAN	dystrobrevin alpha isoform 1	88	Interaction with MAGEE1 (By similarity).				neuromuscular synaptic transmission|signal transduction|striated muscle contraction	cell junction|cytoplasm|synapse	calcium ion binding|protein binding|zinc ion binding				0						GCTCTCCACTATTTTTTACCA	0.488													34	100	---	---	---	---	PASS
CELF4	56853	broad.mit.edu	37	18	34839211	34839211	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr18:34839211G>T	uc002lae.2	-	11	1662	c.1266C>A	c.(1264-1266)AAC>AAA	p.N422K	CELF4_uc010dnd.1_Missense_Mutation_p.N420K|CELF4_uc002lag.2_Intron|CELF4_uc002laf.2_Missense_Mutation_p.N416K|CELF4_uc002lai.2_Missense_Mutation_p.N406K	NM_020180	NP_064565	Q9BZC1	CELF4_HUMAN	bruno-like 4, RNA binding protein isoform 1	422	RRM 3.				embryo development|germ cell development|regulation of alternative nuclear mRNA splicing, via spliceosome	cytoplasm|nucleus	BRE binding|nucleotide binding|translation repressor activity, nucleic acid binding			ovary(2)	2						AGATGAACAGGTTACAGCCCT	0.348													18	49	---	---	---	---	PASS
SLC14A1	6563	broad.mit.edu	37	18	43316432	43316432	+	Nonsense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr18:43316432C>A	uc010xcn.1	+	7	801	c.482C>A	c.(481-483)TCA>TAA	p.S161*	SLC14A1_uc010dnk.2_Nonsense_Mutation_p.S217*|SLC14A1_uc002lbf.3_Nonsense_Mutation_p.S161*|SLC14A1_uc002lbg.3_Intron|SLC14A1_uc010xco.1_Nonsense_Mutation_p.S56*|SLC14A1_uc002lbh.3_Nonsense_Mutation_p.S53*|SLC14A1_uc002lbi.3_Nonsense_Mutation_p.S29*|SLC14A1_uc002lbj.3_Nonsense_Mutation_p.S217*|SLC14A1_uc002lbk.3_Nonsense_Mutation_p.S161*	NM_001146036	NP_001139508	Q13336	UT1_HUMAN	solute carrier family 14 (urea transporter),	161	Helical; (Potential).					integral to plasma membrane	urea transmembrane transporter activity			central_nervous_system(1)|pancreas(1)	2						CCAATTTTCTCAAGTGCATTG	0.468													51	137	---	---	---	---	PASS
DSEL	92126	broad.mit.edu	37	18	65181475	65181475	+	Missense_Mutation	SNP	T	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr18:65181475T>G	uc002lke.1	-	2	1625	c.401A>C	c.(400-402)AAT>ACT	p.N134T		NM_032160	NP_115536	Q8IZU8	DSEL_HUMAN	dermatan sulfate epimerase-like	124						integral to membrane	isomerase activity|sulfotransferase activity	p.N134N(1)		ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	6		Esophageal squamous(42;0.129)				AGGAGGCAGATTGTTACCATA	0.418													43	98	---	---	---	---	PASS
CTDP1	9150	broad.mit.edu	37	18	77470345	77470345	+	Splice_Site	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr18:77470345G>T	uc002lnh.1	+	6	920	c.773_splice	c.e6-1	p.G258_splice	CTDP1_uc002lni.1_Splice_Site_p.G258_splice|CTDP1_uc010drd.1_Splice_Site_p.G258_splice	NM_004715	NP_004706	Q9Y5B0	CTDP1_HUMAN	CTD (carboxy-terminal domain, RNA polymerase II,						positive regulation of viral transcription|protein dephosphorylation|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	CTD phosphatase activity|DNA-directed RNA polymerase activity				0		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;5.2e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0277)		TCTTTTCCAAGGCTTTTTAGA	0.403													93	242	---	---	---	---	PASS
MARCH2	51257	broad.mit.edu	37	19	8491529	8491529	+	Silent	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr19:8491529G>T	uc002mjv.2	+	4	654	c.213G>T	c.(211-213)GCG>GCT	p.A71A	MARCH2_uc002mjw.2_Silent_p.A71A|MARCH2_uc002mjx.2_Silent_p.A71A	NM_016496	NP_057580	Q9P0N8	MARH2_HUMAN	membrane-associated ring finger (C3HC4) 2	71	RING-CH-type.				endocytosis	cytoplasmic vesicle|endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosomal membrane	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						ATGAGGGAGCGAACGGGGAGT	0.562													32	163	---	---	---	---	PASS
MYO1F	4542	broad.mit.edu	37	19	8586456	8586456	+	Missense_Mutation	SNP	C	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr19:8586456C>T	uc002mkg.2	-	28	3367	c.3253G>A	c.(3253-3255)GGC>AGC	p.G1085S		NM_012335	NP_036467	O00160	MYO1F_HUMAN	myosin IF	1085	SH3.					unconventional myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(1)	3						CCCTCCTGGCCGTGAAGCCGG	0.622													6	128	---	---	---	---	PASS
MUC16	94025	broad.mit.edu	37	19	8993514	8993514	+	Missense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr19:8993514C>A	uc002mkp.2	-	66	41779	c.41575G>T	c.(41575-41577)GAT>TAT	p.D13859Y	MUC16_uc010dwi.2_RNA|MUC16_uc010dwj.2_Missense_Mutation_p.D676Y|MUC16_uc010xki.1_RNA	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	13862	Extracellular (Potential).|SEA 12.			Missing (in Ref. 3; AAK74120).	cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CAGATGGCATCCACTCCGGTG	0.582													23	57	---	---	---	---	PASS
MUC16	94025	broad.mit.edu	37	19	9020773	9020773	+	Silent	SNP	G	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr19:9020773G>A	uc002mkp.2	-	20	37533	c.37329C>T	c.(37327-37329)ACC>ACT	p.T12443T		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	12445	Extracellular (Potential).|SEA 3.				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						ACCTGAGAGAGGTCAGTCTGC	0.537													67	95	---	---	---	---	PASS
MUC16	94025	broad.mit.edu	37	19	9058508	9058508	+	Silent	SNP	G	C	C			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr19:9058508G>C	uc002mkp.2	-	3	29142	c.28938C>G	c.(28936-28938)ACC>ACG	p.T9646T		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	9648	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TAGACAGCCTGGTGACAACTT	0.502													17	88	---	---	---	---	PASS
MUC16	94025	broad.mit.edu	37	19	9085067	9085067	+	Missense_Mutation	SNP	C	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr19:9085067C>G	uc002mkp.2	-	1	6952	c.6748G>C	c.(6748-6750)GTC>CTC	p.V2250L		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	2250	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GAAAAGGAGACAGTGGGAATA	0.458													14	70	---	---	---	---	PASS
DCAF15	90379	broad.mit.edu	37	19	14065389	14065389	+	Silent	SNP	C	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr19:14065389C>G	uc002mxt.2	+	3	288	c.282C>G	c.(280-282)ACC>ACG	p.T94T	PODNL1_uc010xnj.1_5'Flank|PODNL1_uc002mxs.2_5'Flank	NM_138353	NP_612362	Q66K64	DCA15_HUMAN	DDB1 and CUL4 associated factor 15	94										central_nervous_system(1)	1						TCTCCTACACCAGCAGCAGTG	0.582													55	74	---	---	---	---	PASS
RFX1	5989	broad.mit.edu	37	19	14080949	14080949	+	Silent	SNP	G	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr19:14080949G>A	uc002mxv.2	-	10	1625	c.1353C>T	c.(1351-1353)GGC>GGT	p.G451G	RFX1_uc010dzi.2_Silent_p.G451G	NM_002918	NP_002909	P22670	RFX1_HUMAN	regulatory factor X1	451	RFX-type winged-helix.				immune response	nucleus	DNA binding|protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			lung(1)|pancreas(1)	2			OV - Ovarian serous cystadenocarcinoma(19;6.67e-23)			GCAGACTCACGCCCTCAGCCG	0.622													11	49	---	---	---	---	PASS
NOTCH3	4854	broad.mit.edu	37	19	15281167	15281167	+	Missense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr19:15281167C>A	uc002nan.2	-	27	5165	c.5089G>T	c.(5089-5091)GTG>TTG	p.V1697L		NM_000435	NP_000426	Q9UM47	NOTC3_HUMAN	Notch homolog 3 precursor	1697	Cytoplasmic (Potential).				Notch receptor processing|Notch signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			lung(8)|ovary(5)|skin(4)|prostate(2)|central_nervous_system(1)|breast(1)	21			OV - Ovarian serous cystadenocarcinoma(3;2.6e-20)|Epithelial(3;1.34e-16)|all cancers(3;5.13e-15)			TCCTGGCCCACGGGTTCCCGC	0.667													11	61	---	---	---	---	PASS
ZNF536	9745	broad.mit.edu	37	19	30934517	30934517	+	Missense_Mutation	SNP	A	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr19:30934517A>T	uc002nsu.1	+	2	186	c.48A>T	c.(46-48)GAA>GAT	p.E16D	ZNF536_uc010edd.1_Missense_Mutation_p.E16D	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	16					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					CGGAGCCGGAAGCTGAGCCCC	0.627													54	154	---	---	---	---	PASS
TSHZ3	57616	broad.mit.edu	37	19	31770074	31770074	+	Missense_Mutation	SNP	T	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr19:31770074T>A	uc002nsy.3	-	2	690	c.625A>T	c.(625-627)ACG>TCG	p.T209S		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	209					negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(2)|pancreas(1)|lung(1)	8	Esophageal squamous(110;0.226)					CTGGCCCCCGTGAAGATGGAG	0.627													28	118	---	---	---	---	PASS
SLC7A10	56301	broad.mit.edu	37	19	33703209	33703209	+	Silent	SNP	A	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr19:33703209A>T	uc002num.2	-	5	924	c.777T>A	c.(775-777)GTT>GTA	p.V259V	SLC7A10_uc002nul.2_5'Flank|SLC7A10_uc010xrq.1_Silent_p.V232V	NM_019849	NP_062823	Q9NS82	AAA1_HUMAN	solute carrier family 7, member 10	259					blood coagulation|cellular nitrogen compound metabolic process|ion transport|leukocyte migration	integral to plasma membrane	L-serine transmembrane transporter activity			ovary(1)|central_nervous_system(1)	2	Esophageal squamous(110;0.137)					TTCGGGCGTCAACCATCTCCT	0.662													15	15	---	---	---	---	PASS
GPI	2821	broad.mit.edu	37	19	34869911	34869911	+	Splice_Site	SNP	G	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr19:34869911G>A	uc002nvg.1	+	7	808	c.705_splice	c.e7+1	p.D235_splice	GPI_uc002nvf.2_Splice_Site_p.D274_splice|GPI_uc010xrv.1_Splice_Site_p.D246_splice|GPI_uc010xrw.1_Splice_Site_p.D207_splice|GPI_uc010edl.1_Splice_Site_p.D235_splice	NM_000175	NP_000166	P06744	G6PI_HUMAN	glucose phosphate isomerase						angiogenesis|gluconeogenesis|glycolysis|hemostasis|humoral immune response	cytosol|extracellular space|nucleus|plasma membrane	cytokine activity|glucose-6-phosphate isomerase activity|growth factor activity			ovary(1)|kidney(1)	2	Esophageal squamous(110;0.162)					GGCCAAGGATGTGAGTGGGCT	0.582													79	93	---	---	---	---	PASS
KIRREL2	84063	broad.mit.edu	37	19	36353460	36353460	+	Missense_Mutation	SNP	A	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr19:36353460A>T	uc002ocb.3	+	12	1788	c.1576A>T	c.(1576-1578)ATC>TTC	p.I526F	KIRREL2_uc002obz.3_Missense_Mutation_p.I526F|KIRREL2_uc002oca.3_Missense_Mutation_p.I476F|KIRREL2_uc002occ.3_Missense_Mutation_p.I473F|KIRREL2_uc002ocd.3_Intron	NM_199180	NP_954649	Q6UWL6	KIRR2_HUMAN	kin of IRRE-like 2 isoform c	526	Helical; (Potential).				cell adhesion	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)|skin(1)	3	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CCTTATGGTCATCACTGGGGT	0.682													93	102	---	---	---	---	PASS
BCKDHA	593	broad.mit.edu	37	19	41903744	41903744	+	Silent	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr19:41903744G>T	uc002oqq.2	+	1	41	c.12G>T	c.(10-12)GCG>GCT	p.A4A	CYP2F1_uc010xvw.1_Intron|BCKDHA_uc002oqm.3_Intron|EXOSC5_uc002oqo.2_5'Flank|BCKDHA_uc002oqp.1_5'UTR|BCKDHA_uc002oqr.2_Silent_p.A4A|BCKDHA_uc010xvz.1_Silent_p.A4A	NM_000709	NP_000700	P12694	ODBA_HUMAN	branched chain keto acid dehydrogenase E1, alpha	4					branched chain family amino acid catabolic process	mitochondrial alpha-ketoglutarate dehydrogenase complex	3-methyl-2-oxobutanoate dehydrogenase (2-methylpropanoyl-transferring) activity|alpha-ketoacid dehydrogenase activity|carboxy-lyase activity|metal ion binding|protein binding				0						TGGCGGTAGCGATCGCTGCAG	0.622													13	28	---	---	---	---	PASS
CEACAM21	90273	broad.mit.edu	37	19	42092216	42092216	+	Missense_Mutation	SNP	A	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr19:42092216A>G	uc002ore.3	+	6	970	c.874A>G	c.(874-876)ATC>GTC	p.I292V	CEACAM21_uc002orc.1_RNA|CEACAM21_uc002ord.1_Intron|CEACAM21_uc002orf.2_RNA|CEACAM21_uc002org.3_Missense_Mutation_p.I291V	NM_001098506	NP_001091976	Q3KPI0	CEA21_HUMAN	carcinoembryonic antigen-related cell adhesion	292	Cytoplasmic (Potential).					integral to membrane				ovary(1)	1						TGACAGCTCCATCTCCTAGGT	0.597													9	6	---	---	---	---	PASS
FBXO46	23403	broad.mit.edu	37	19	46216747	46216747	+	Missense_Mutation	SNP	G	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr19:46216747G>A	uc002pcy.2	-	2	132	c.7C>T	c.(7-9)CGT>TGT	p.R3C	FBXO46_uc002pcz.2_Missense_Mutation_p.R3C	NM_001080469	NP_001073938	Q6PJ61	FBX46_HUMAN	F-box protein 46	3							protein binding			ovary(1)|lung(1)|breast(1)	3		Ovarian(192;0.179)|all_neural(266;0.224)		OV - Ovarian serous cystadenocarcinoma(262;0.00568)|GBM - Glioblastoma multiforme(486;0.0844)|Epithelial(262;0.201)		AGGCTCCCACGGTCCATGCTG	0.647													6	14	---	---	---	---	PASS
LRRC4B	94030	broad.mit.edu	37	19	51021727	51021727	+	Missense_Mutation	SNP	C	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr19:51021727C>T	uc002pss.2	-	3	1380	c.1243G>A	c.(1243-1245)GTC>ATC	p.V415I		NM_001080457	NP_001073926	Q9NT99	LRC4B_HUMAN	leucine rich repeat containing 4B precursor	415	Extracellular (Potential).|Ig-like C2-type.					cell junction|integral to membrane|presynaptic membrane				central_nervous_system(1)|skin(1)	2		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00284)|GBM - Glioblastoma multiforme(134;0.0188)		TCATGCAGGACGGAGATGCGC	0.637													20	71	---	---	---	---	PASS
ZNF350	59348	broad.mit.edu	37	19	52468196	52468196	+	Missense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr19:52468196C>A	uc002pyd.2	-	5	1738	c.1510G>T	c.(1510-1512)GCA>TCA	p.A504S	uc002pyb.2_Intron|uc002pyc.2_Intron	NM_021632	NP_067645	Q9GZX5	ZN350_HUMAN	zinc finger protein 350	504					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear matrix|transcriptional repressor complex	DNA binding|protein binding|zinc ion binding			breast(1)	1		all_neural(266;0.0505)		GBM - Glioblastoma multiforme(134;0.00124)|OV - Ovarian serous cystadenocarcinoma(262;0.0179)		CTGTCCTGTGCAAATCCTCTG	0.453													26	88	---	---	---	---	PASS
PRKCG	5582	broad.mit.edu	37	19	54403943	54403943	+	Missense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr19:54403943C>A	uc002qcq.1	+	14	1797	c.1515C>A	c.(1513-1515)AAC>AAA	p.N505K	PRKCG_uc010yeg.1_Missense_Mutation_p.N505K|PRKCG_uc010yeh.1_Missense_Mutation_p.N392K	NM_002739	NP_002730	P05129	KPCG_HUMAN	protein kinase C, gamma	505	Protein kinase.				activation of phospholipase C activity|cell death|intracellular signal transduction|negative regulation of protein catabolic process|negative regulation of protein ubiquitination|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of mismatch repair|synaptic transmission	cytosol	ATP binding|protein kinase C activity|zinc ion binding			lung(4)|ovary(2)|pancreas(2)|large_intestine(1)	9	all_cancers(19;0.0462)|all_epithelial(19;0.0258)|all_lung(19;0.185)|Ovarian(34;0.19)|Lung NSC(19;0.218)			GBM - Glioblastoma multiforme(134;0.0521)		GTAAGGAGAACGTCTTCCCCG	0.587													138	433	---	---	---	---	PASS
LILRA6	79168	broad.mit.edu	37	19	54744980	54744980	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr19:54744980G>T	uc002qeu.1	-	5	806	c.682C>A	c.(682-684)CTG>ATG	p.L228M	LILRB3_uc002qeh.1_Intron|LILRB3_uc002qeg.1_Intron|LILRB3_uc002qei.1_Intron|LILRA6_uc002qek.1_Missense_Mutation_p.L228M|LILRB3_uc010erh.1_Intron|LILRB3_uc002qej.1_Intron|LILRA6_uc002qel.1_Missense_Mutation_p.L228M|LILRA6_uc002qem.1_RNA|LILRB3_uc002qen.1_RNA|LILRB3_uc002qeo.1_Missense_Mutation_p.L228M|LILRB3_uc002qep.1_Intron|LILRB3_uc002qeq.1_Missense_Mutation_p.L228M|LILRB3_uc002qer.1_RNA|LILRB3_uc002qes.1_Intron|LILRA6_uc010yep.1_Missense_Mutation_p.L228M|LILRA6_uc010yeq.1_Missense_Mutation_p.L228M|LILRA6_uc002qet.3_RNA|LILRA6_uc002qev.1_Missense_Mutation_p.L89M	NM_024318	NP_077294	Q6PI73	LIRA6_HUMAN	leukocyte immunoglobulin-like receptor,	228	Extracellular (Potential).|Ig-like C2-type 1.					integral to membrane	receptor activity			skin(2)	2	all_cancers(19;0.00723)|all_epithelial(19;0.00389)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		TGCAGGGTCAGGAGGGAGGGC	0.637													14	48	---	---	---	---	PASS
LENG8	114823	broad.mit.edu	37	19	54969376	54969376	+	Missense_Mutation	SNP	G	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr19:54969376G>A	uc002qfv.1	+	13	2030	c.1886G>A	c.(1885-1887)CGA>CAA	p.R629Q	LENG8_uc002qfw.2_Missense_Mutation_p.R666Q			Q96PV6	LENG8_HUMAN	RecName: Full=Leukocyte receptor cluster member 8;	629							protein binding			central_nervous_system(1)|pancreas(1)	2	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.139)		ACTGCCTACCGAATCCTCTAC	0.567													72	85	---	---	---	---	PASS
ZNF549	256051	broad.mit.edu	37	19	58050032	58050032	+	Nonsense_Mutation	SNP	G	T	T	rs140955096		TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr19:58050032G>T	uc002qpb.1	+	4	1909	c.1660G>T	c.(1660-1662)GAA>TAA	p.E554*	ZNF547_uc002qpm.3_Intron|ZNF549_uc010eud.1_Intron|ZNF549_uc002qpa.1_Nonsense_Mutation_p.E541*	NM_153263	NP_694995	Q6P9A3	ZN549_HUMAN	zinc finger protein 549	554					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		TCACACTGGCGAAAAGCCCTG	0.448													34	102	---	---	---	---	PASS
PRND	23627	broad.mit.edu	37	20	4705465	4705465	+	Missense_Mutation	SNP	C	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr20:4705465C>G	uc002wkz.2	+	2	339	c.268C>G	c.(268-270)CAC>GAC	p.H90D		NM_012409	NP_036541	Q9UKY0	PRND_HUMAN	prion-like protein doppel preproprotein	90	Globular.				protein homooligomerization	anchored to membrane|plasma membrane					0						CGATGGCATCCACTACAACGG	0.592													18	9	---	---	---	---	PASS
RRBP1	6238	broad.mit.edu	37	20	17594839	17594839	+	Silent	SNP	G	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr20:17594839G>A	uc002wpv.1	-	26	3276	c.2922C>T	c.(2920-2922)GGC>GGT	p.G974G	RRBP1_uc010zrp.1_Silent_p.G147G|RRBP1_uc002wpt.1_Silent_p.G343G|RRBP1_uc002wpu.2_Silent_p.G748G|RRBP1_uc002wpw.1_Silent_p.G974G|RRBP1_uc010gcl.1_Silent_p.G748G	NM_001042576	NP_001036041	Q9P2E9	RRBP1_HUMAN	ribosome binding protein 1	1407	Cytoplasmic (Potential).				protein transport|translation|transmembrane transport	integral to endoplasmic reticulum membrane|ribosome	receptor activity			ovary(1)	1						AGACAGAGGTGCCCTCCTTTG	0.532													16	61	---	---	---	---	PASS
SPAG4	6676	broad.mit.edu	37	20	34203979	34203979	+	Silent	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr20:34203979C>A	uc002xdb.1	+	1	171	c.54C>A	c.(52-54)CCC>CCA	p.P18P	SPAG4_uc010zvi.1_5'UTR	NM_003116	NP_003107	Q9NPE6	SPAG4_HUMAN	sperm associated antigen 4	18					spermatogenesis	cilium|flagellar axoneme|integral to membrane	structural molecule activity				0	Lung NSC(9;0.0053)|all_lung(11;0.00785)		BRCA - Breast invasive adenocarcinoma(18;0.0127)			AGCACACGCCCAACTTTTTCA	0.672													15	20	---	---	---	---	PASS
SLA2	84174	broad.mit.edu	37	20	35242818	35242818	+	Nonsense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr20:35242818G>T	uc002xfv.2	-	7	917	c.555C>A	c.(553-555)TGC>TGA	p.C185*	SLA2_uc002xfu.2_Intron	NM_032214	NP_115590	Q9H6Q3	SLAP2_HUMAN	Src-like-adaptor 2 isoform a	185	SH2.				antigen receptor-mediated signaling pathway|B cell mediated immunity|intracellular receptor mediated signaling pathway|negative regulation of B cell activation|negative regulation of calcium-mediated signaling|negative regulation of transcription from RNA polymerase II promoter|T cell activation	cytoplasmic membrane-bounded vesicle|endosome membrane|plasma membrane	protein N-terminus binding|SH3/SH2 adaptor activity				0	Breast(12;0.114)	Myeloproliferative disorder(115;0.00878)				CCTTGAGTAGGCAGCAGATGT	0.592													50	66	---	---	---	---	PASS
DIDO1	11083	broad.mit.edu	37	20	61513191	61513191	+	Missense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr20:61513191C>A	uc002ydr.1	-	16	4381	c.4117G>T	c.(4117-4119)GAT>TAT	p.D1373Y	DIDO1_uc002yds.1_Missense_Mutation_p.D1373Y	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	1373					apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					AGAGCCTTATCTTTTGAGAAC	0.607													81	87	---	---	---	---	PASS
ADAMTS5	11096	broad.mit.edu	37	21	28338313	28338313	+	Missense_Mutation	SNP	C	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr21:28338313C>T	uc002ymg.2	-	1	1127	c.398G>A	c.(397-399)CGG>CAG	p.R133Q		NM_007038	NP_008969	Q9UNA0	ATS5_HUMAN	ADAM metallopeptidase with thrombospondin type 1	133					proteolysis	proteinaceous extracellular matrix	integrin binding|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4						CACTGTGCCCCGATAGAAGCA	0.652													5	17	---	---	---	---	PASS
KRTAP26-1	388818	broad.mit.edu	37	21	31692350	31692350	+	Missense_Mutation	SNP	A	C	C			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr21:31692350A>C	uc002ynw.2	-	1	258	c.4T>G	c.(4-6)TCT>GCT	p.S2A		NM_203405	NP_981950	Q6PEX3	KR261_HUMAN	keratin associated protein 26-1	2						intermediate filament				ovary(1)	1						TTGGGGCAAGACATAGTGAGG	0.507													5	14	---	---	---	---	PASS
DOPEY2	9980	broad.mit.edu	37	21	37618123	37618123	+	Missense_Mutation	SNP	T	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr21:37618123T>G	uc002yvg.2	+	19	3924	c.3845T>G	c.(3844-3846)CTC>CGC	p.L1282R	DOPEY2_uc011aeb.1_Missense_Mutation_p.L1231R|DOPEY2_uc002yvh.2_Missense_Mutation_p.L133R	NM_005128	NP_005119	Q9Y3R5	DOP2_HUMAN	pad-1-like	1282					endoplasmic reticulum organization|Golgi to endosome transport|multicellular organismal development|protein transport	Golgi membrane				ovary(1)|central_nervous_system(1)	2						TCCAACCTCCTCGCTCGCCAC	0.592													48	38	---	---	---	---	PASS
DYRK1A	1859	broad.mit.edu	37	21	38862669	38862669	+	Missense_Mutation	SNP	G	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr21:38862669G>A	uc002ywk.2	+	6	932	c.857G>A	c.(856-858)TGT>TAT	p.C286Y	DYRK1A_uc002ywi.2_Missense_Mutation_p.C286Y|DYRK1A_uc002ywj.2_Missense_Mutation_p.C277Y|DYRK1A_uc002ywl.2_Missense_Mutation_p.C286Y|DYRK1A_uc002ywm.2_Missense_Mutation_p.C286Y|DYRK1A_uc011aei.1_Missense_Mutation_p.C47Y	NM_001396	NP_001387	Q13627	DYR1A_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	286	Protein kinase.				nervous system development|peptidyl-tyrosine phosphorylation|protein autophosphorylation	nuclear speck	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding|protein self-association|protein serine/threonine kinase activity			ovary(2)|lung(1)|breast(1)	4						ATCATTCACTGTGATCTAAAA	0.438													47	49	---	---	---	---	PASS
RIPK4	54101	broad.mit.edu	37	21	43161625	43161625	+	Nonsense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr21:43161625G>T	uc002yzn.1	-	8	1776	c.1728C>A	c.(1726-1728)TAC>TAA	p.Y576*		NM_020639	NP_065690	P57078	RIPK4_HUMAN	ankyrin repeat domain 3	576						cytoplasm|nucleus	ATP binding|protein serine/threonine kinase activity			ovary(2)|central_nervous_system(2)|large_intestine(1)|lung(1)|skin(1)	7						GCCAGGCAGCGTAGTGCAGTG	0.672													30	40	---	---	---	---	PASS
LOC96610	96610	broad.mit.edu	37	22	23165557	23165557	+	RNA	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr22:23165557G>T	uc011aim.1	+	287		c.13119G>T								Parts of antibodies, mostly variable regions.												0						TCCTGCACTGGAACCAGCAGT	0.572													154	323	---	---	---	---	PASS
APOL5	80831	broad.mit.edu	37	22	36124888	36124888	+	Silent	SNP	A	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr22:36124888A>T	uc003aof.2	+	4	1245	c.1245A>T	c.(1243-1245)CCA>CCT	p.P415P		NM_030642	NP_085145	Q9BWW9	APOL5_HUMAN	apolipoprotein L5	415					lipid metabolic process|lipid transport|lipoprotein metabolic process	cytoplasm|extracellular region	high-density lipoprotein particle binding|lipid binding|protein binding				0						GCCACCAGCCAGCCCCACCAG	0.627													11	33	---	---	---	---	PASS
ELFN2	114794	broad.mit.edu	37	22	37769709	37769709	+	Silent	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr22:37769709C>A	uc003asq.3	-	3	2652	c.1866G>T	c.(1864-1866)GCG>GCT	p.A622A		NM_052906	NP_443138	Q5R3F8	LRFN6_HUMAN	leucine rich repeat containing 62	622	Cytoplasmic (Potential).					cell surface|integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2	Melanoma(58;0.0574)					GGGTCACGGCCGCGTCGGCGC	0.687													5	11	---	---	---	---	PASS
CBX6	23466	broad.mit.edu	37	22	39262445	39262445	+	Silent	SNP	G	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr22:39262445G>A	uc003awl.2	-	5	1071	c.1008C>T	c.(1006-1008)GCC>GCT	p.A336A		NM_014292	NP_055107	O95503	CBX6_HUMAN	chromobox homolog 6	336					chromatin modification|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	PcG protein complex					0	Melanoma(58;0.04)					GTGCCGGGCCGGCAGCAGCTG	0.746													7	9	---	---	---	---	PASS
SHOX	6473	broad.mit.edu	37	X	601563	601563	+	Missense_Mutation	SNP	T	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chrX:601563T>A	uc004cph.1	+	4	1185	c.494T>A	c.(493-495)TTC>TAC	p.F165Y	SHOX_uc004cpi.2_Missense_Mutation_p.F165Y	NM_000451	NP_000442	O15266	SHOX_HUMAN	short stature homeobox isoform SHOXa	165	Homeobox.				skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				AAGGTTTGGTTCCAGAACCGG	0.582													39	58	---	---	---	---	PASS
ASMT	438	broad.mit.edu	37	X	1742166	1742166	+	Silent	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chrX:1742166G>T	uc004cqd.2	+	3	349	c.204G>T	c.(202-204)GTG>GTT	p.V68V	ASMT_uc010ncy.2_Silent_p.V68V|ASMT_uc004cqe.2_Silent_p.V68V	NM_004043	NP_004034	P46597	HIOM_HUMAN	acetylserotonin O-methyltransferase	68					melatonin biosynthetic process|translation	cytosol	acetylserotonin O-methyltransferase activity|S-methyltransferase activity			skin(1)	1		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				ACATCTGTGTGTCCCTGAAGC	0.607													13	24	---	---	---	---	PASS
SHROOM2	357	broad.mit.edu	37	X	9905279	9905279	+	Nonsense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chrX:9905279C>A	uc004csu.1	+	7	3783	c.3693C>A	c.(3691-3693)TGC>TGA	p.C1231*	SHROOM2_uc004csv.2_Nonsense_Mutation_p.C66*|SHROOM2_uc011mic.1_Nonsense_Mutation_p.C66*|SHROOM2_uc004csw.1_Nonsense_Mutation_p.C66*	NM_001649	NP_001640	Q13796	SHRM2_HUMAN	apical protein of Xenopus-like	1231					apical protein localization|brain development|cell migration|cell morphogenesis|cellular pigment accumulation|ear development|establishment of melanosome localization|eye pigment granule organization|lens morphogenesis in camera-type eye|melanosome organization	apical plasma membrane|cell-cell adherens junction|microtubule|tight junction	actin filament binding|beta-catenin binding|ligand-gated sodium channel activity			ovary(3)|skin(3)|upper_aerodigestive_tract(1)|breast(1)	8		Hepatocellular(5;0.000888)				GCCTGGCATGCCCCGCCGAGC	0.612													3	7	---	---	---	---	PASS
BCOR	54880	broad.mit.edu	37	X	39933802	39933802	+	Missense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chrX:39933802C>A	uc004den.3	-	4	1089	c.797G>T	c.(796-798)AGG>ATG	p.R266M	BCOR_uc004dep.3_Missense_Mutation_p.R266M|BCOR_uc004deo.3_Missense_Mutation_p.R266M|BCOR_uc004dem.3_Missense_Mutation_p.R266M|BCOR_uc004deq.3_Missense_Mutation_p.R266M	NM_001123385	NP_001116857	Q6W2J9	BCOR_HUMAN	BCL-6 interacting corepressor isoform c	266					heart development|histone H2A monoubiquitination|negative regulation of bone mineralization|negative regulation of histone H3-K36 methylation|negative regulation of histone H3-K4 methylation|negative regulation of tooth mineralization|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|palate development|specification of axis polarity|transcription, DNA-dependent	nucleus	heat shock protein binding|histone deacetylase binding|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4						TGTCGAGAGCCTCATGGGTGA	0.607													6	4	---	---	---	---	PASS
KDM6A	7403	broad.mit.edu	37	X	44970626	44970626	+	Splice_Site	SNP	G	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chrX:44970626G>A	uc004dge.3	+	29	4552	c.4177_splice	c.e29-1	p.A1393_splice	KDM6A_uc011mkz.1_Splice_Site_p.A1445_splice|KDM6A_uc011mla.1_Splice_Site_p.A1348_splice|KDM6A_uc011mlb.1_Splice_Site_p.A1400_splice|KDM6A_uc011mlc.1_Splice_Site_p.A1097_splice|KDM6A_uc011mld.1_Splice_Site_p.A1032_splice	NM_021140	NP_066963	O15550	KDM6A_HUMAN	ubiquitously transcribed tetratricopeptide						histone H3-K4 methylation		metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			kidney(24)|haematopoietic_and_lymphoid_tissue(23)|oesophagus(11)|large_intestine(7)|lung(5)|breast(4)|central_nervous_system(3)|urinary_tract(3)|endometrium(2)|pancreas(2)	84						TTTATTTTCAGGCTCCTCCAT	0.378			D|N|F|S		renal|oesophageal SCC|MM								41	28	---	---	---	---	PASS
SSX7	280658	broad.mit.edu	37	X	52677351	52677351	+	Silent	SNP	T	G	G			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chrX:52677351T>G	uc004dqx.1	-	6	585	c.426A>C	c.(424-426)CCA>CCC	p.P142P		NM_173358	NP_775494	Q7RTT5	SSX7_HUMAN	synovial sarcoma, X breakpoint 7	142					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding			skin(1)	1	Ovarian(276;0.236)					TTGGTTTTCCTGGAGGGCACA	0.493													92	67	---	---	---	---	PASS
WNK3	65267	broad.mit.edu	37	X	54337675	54337675	+	Missense_Mutation	SNP	T	C	C			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chrX:54337675T>C	uc004dtd.1	-	3	1026	c.587A>G	c.(586-588)GAG>GGG	p.E196G	WNK3_uc004dtc.1_Missense_Mutation_p.E196G	NM_001002838	NP_001002838	Q9BYP7	WNK3_HUMAN	WNK lysine deficient protein kinase 3 isoform 2	196	Protein kinase.				intracellular protein kinase cascade|positive regulation of establishment of protein localization in plasma membrane|positive regulation of peptidyl-threonine phosphorylation|positive regulation of rubidium ion transmembrane transporter activity|positive regulation of rubidium ion transport|positive regulation of sodium ion transmembrane transporter activity|positive regulation of sodium ion transport|protein autophosphorylation	adherens junction|tight junction	ATP binding|protein binding|protein serine/threonine kinase activity|rubidium ion transmembrane transporter activity|sodium ion transmembrane transporter activity			lung(4)|ovary(3)|kidney(2)|central_nervous_system(2)	11						CTTCAACATCTCTGCTTCTTC	0.363													26	29	---	---	---	---	PASS
SPIN4	139886	broad.mit.edu	37	X	62570236	62570236	+	Missense_Mutation	SNP	T	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chrX:62570236T>A	uc004dvf.2	-	1	983	c.463A>T	c.(463-465)ACC>TCC	p.T155S		NM_001012968	NP_001012986	Q56A73	SPIN4_HUMAN	spindlin family, member 4	155					gamete generation					ovary(1)|lung(1)	2						TTCTCGTAGGTGATGTAAAAC	0.453													66	50	---	---	---	---	PASS
MSN	4478	broad.mit.edu	37	X	64959616	64959616	+	Missense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chrX:64959616C>A	uc004dwf.2	+	13	1793	c.1595C>A	c.(1594-1596)GCC>GAC	p.A532D		NM_002444	NP_002435	P26038	MOES_HUMAN	moesin	532					leukocyte cell-cell adhesion|leukocyte migration|membrane to membrane docking	apical plasma membrane|cytoskeleton|extrinsic to membrane|microvillus membrane|nucleolus	cell adhesion molecule binding|receptor binding|structural constituent of cytoskeleton		MSN/ALK(6)	haematopoietic_and_lymphoid_tissue(6)|ovary(3)|lung(1)	10						CTGGCCAATGCCAGAGATGAG	0.527			T	ALK	ALCL								47	40	---	---	---	---	PASS
XIST	7503	broad.mit.edu	37	X	73063443	73063443	+	RNA	SNP	T	C	C			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chrX:73063443T>C	uc004ebm.1	-	1		c.9146A>G				NR_001564				Homo sapiens cDNA: FLJ21545 fis, clone COL06195.												0						CATTAATGCATATTAAGTCCA	0.403													18	18	---	---	---	---	PASS
DACH2	117154	broad.mit.edu	37	X	86068252	86068252	+	Missense_Mutation	SNP	A	C	C			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chrX:86068252A>C	uc004eew.2	+	9	1679	c.1509A>C	c.(1507-1509)AGA>AGC	p.R503S	DACH2_uc004eex.2_Missense_Mutation_p.R490S|DACH2_uc010nmq.2_Missense_Mutation_p.R369S|DACH2_uc011mra.1_Missense_Mutation_p.R336S|DACH2_uc010nmr.2_Missense_Mutation_p.R284S|DACH2_uc004eey.2_Missense_Mutation_p.R196S|DACH2_uc004eez.2_Missense_Mutation_p.R186S	NM_053281	NP_444511	Q96NX9	DACH2_HUMAN	dachshund 2 isoform a	503	Potential.|DACHbox-C.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|nucleotide binding			ovary(4)|pancreas(1)	5						ACCTTGAAAGACAACTTGCAG	0.373													12	7	---	---	---	---	PASS
DIAPH2	1730	broad.mit.edu	37	X	96173512	96173512	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chrX:96173512G>T	uc004efu.3	+	9	1270	c.874G>T	c.(874-876)GAT>TAT	p.D292Y	DIAPH2_uc004eft.3_Missense_Mutation_p.D292Y|DIAPH2_uc004efs.2_Missense_Mutation_p.D299Y	NM_006729	NP_006720	O60879	DIAP2_HUMAN	diaphanous 2 isoform 156	292	GBD/FH3.				cell differentiation|cytokinesis|multicellular organismal development|oogenesis	cytosol|early endosome|Golgi apparatus|mitochondrion|nucleolus	receptor binding|Rho GTPase binding			ovary(3)|lung(1)	4						CTACAGTCTAGATAAACTTTT	0.368													20	12	---	---	---	---	PASS
ZMAT1	84460	broad.mit.edu	37	X	101139358	101139358	+	Silent	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chrX:101139358G>T	uc004eim.2	-	2	4026	c.528C>A	c.(526-528)CCC>CCA	p.P176P	ZMAT1_uc011mrl.1_Silent_p.P347P|ZMAT1_uc004ein.2_Silent_p.P176P|ZMAT1_uc011mrm.1_Silent_p.P176P	NM_032441	NP_115817	Q5H9K5	ZMAT1_HUMAN	zinc finger, matrin type 1 isoform 3	176						nucleus	zinc ion binding			ovary(1)	1						TTCTTGATCTGGGTCCAGAAT	0.448													78	60	---	---	---	---	PASS
RGAG1	57529	broad.mit.edu	37	X	109695278	109695278	+	Missense_Mutation	SNP	C	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chrX:109695278C>T	uc004eor.1	+	3	1679	c.1433C>T	c.(1432-1434)ACA>ATA	p.T478I	RGAG1_uc011msr.1_Missense_Mutation_p.T478I	NM_020769	NP_065820	Q8NET4	RGAG1_HUMAN	retrotransposon gag domain containing 1	478										lung(2)|upper_aerodigestive_tract(1)|ovary(1)	4						GCAATGCCCACAGGCTCTATG	0.512													66	47	---	---	---	---	PASS
DCAF12L1	139170	broad.mit.edu	37	X	125685379	125685379	+	Missense_Mutation	SNP	C	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chrX:125685379C>A	uc004eul.2	-	1	1464	c.1213G>T	c.(1213-1215)GCC>TCC	p.A405S		NM_178470	NP_848565	Q5VU92	DC121_HUMAN	DDB1 and CUL4 associated factor 12-like 1	405										skin(3)|ovary(1)	4						CTGCCACAGGCAAGCCTGAGC	0.557													21	26	---	---	---	---	PASS
OR13H1	347468	broad.mit.edu	37	X	130678730	130678730	+	Missense_Mutation	SNP	G	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chrX:130678730G>A	uc011muw.1	+	1	683	c.683G>A	c.(682-684)CGC>CAC	p.R228H	IGSF1_uc004ewf.2_Intron	NM_001004486	NP_001004486	Q8NG92	O13H1_HUMAN	olfactory receptor, family 13, subfamily H,	228	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Acute lymphoblastic leukemia(192;0.000636)					ATAAGGATTCGCTCACTCCAG	0.468													98	66	---	---	---	---	PASS
SAGE1	55511	broad.mit.edu	37	X	134994064	134994064	+	Missense_Mutation	SNP	G	A	A			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chrX:134994064G>A	uc004ezh.2	+	18	2640	c.2473G>A	c.(2473-2475)GAT>AAT	p.D825N	SAGE1_uc010nry.1_Missense_Mutation_p.D794N|SAGE1_uc011mvv.1_Missense_Mutation_p.D449N	NM_018666	NP_061136	Q9NXZ1	SAGE1_HUMAN	sarcoma antigen 1	825										ovary(2)|skin(1)	3	Acute lymphoblastic leukemia(192;0.000127)					GAAAATTAATGATGATATAAA	0.378													35	31	---	---	---	---	PASS
GPR112	139378	broad.mit.edu	37	X	135431138	135431138	+	Missense_Mutation	SNP	G	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chrX:135431138G>T	uc004ezu.1	+	6	5564	c.5273G>T	c.(5272-5274)AGT>ATT	p.S1758I	GPR112_uc010nsb.1_Missense_Mutation_p.S1553I|GPR112_uc010nsc.1_Missense_Mutation_p.S1525I	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	1758	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					CATGCAGATAGTCTCCATACT	0.408													75	64	---	---	---	---	PASS
UBE2NL	389898	broad.mit.edu	37	X	142967473	142967473	+	Missense_Mutation	SNP	A	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chrX:142967473A>T	uc004fca.2	+	1	301	c.271A>T	c.(271-273)ATT>TTT	p.I91F		NM_001012989	NP_001013007	Q5JXB2	UE2NL_HUMAN	ubiquitin-conjugating enzyme E2N-like	91							acid-amino acid ligase activity				0	Acute lymphoblastic leukemia(192;6.56e-05)					AAGTTTAGATATTTTGAAAGA	0.408													38	33	---	---	---	---	PASS
FATE1	89885	broad.mit.edu	37	X	150891115	150891115	+	Missense_Mutation	SNP	C	T	T			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chrX:150891115C>T	uc004fex.2	+	5	520	c.436C>T	c.(436-438)CGG>TGG	p.R146W		NM_033085	NP_149076	Q969F0	FATE1_HUMAN	fetal and adult testis expressed transcript	146						endoplasmic reticulum|integral to membrane				ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)					TGCAGTCAACCGGCGTCTGCG	0.617													37	50	---	---	---	---	PASS
IQGAP2	10788	broad.mit.edu	37	5	75991401	75991403	+	In_Frame_Del	DEL	GAA	-	-			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr5:75991401_75991403delGAA	uc003kek.2	+	32	4338_4340	c.4116_4118delGAA	c.(4114-4119)AGGAAA>AGA	p.K1373del	IQGAP2_uc011csv.1_In_Frame_Del_p.K869del|IQGAP2_uc003kel.2_In_Frame_Del_p.K869del|IQGAP2_uc010izw.1_In_Frame_Del_p.K74del	NM_006633	NP_006624	Q13576	IQGA2_HUMAN	IQ motif containing GTPase activating protein 2	1373					small GTPase mediated signal transduction	actin cytoskeleton	actin binding|calmodulin binding|GTPase inhibitor activity|Ras GTPase activator activity			ovary(6)|central_nervous_system(1)	7		all_lung(232;0.000514)|Lung NSC(167;0.00135)|Prostate(461;0.00838)|Ovarian(174;0.0149)		all cancers(79;1.38e-36)		AGAAGAAGAGGAAAATCCAGAGG	0.438													59	30	---	---	---	---	
PEX1	5189	broad.mit.edu	37	7	92120632	92120632	+	Frame_Shift_Del	DEL	C	-	-			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr7:92120632delC	uc003uly.2	-	21	3488	c.3392delG	c.(3391-3393)GGAfs	p.G1131fs	PEX1_uc011khr.1_Frame_Shift_Del_p.G923fs|PEX1_uc010ley.2_Frame_Shift_Del_p.G1074fs|PEX1_uc011khs.1_Frame_Shift_Del_p.G809fs	NM_000466	NP_000457	O43933	PEX1_HUMAN	peroxin1	1131					microtubule-based peroxisome localization|protein import into peroxisome matrix	cytosol|nucleus|peroxisomal membrane	ATP binding|ATPase activity, coupled|protein C-terminus binding|protein complex binding			ovary(1)|central_nervous_system(1)	2	all_cancers(62;9.35e-11)|all_epithelial(64;4.59e-10)|Breast(17;0.00201)|all_lung(186;0.0438)|Lung NSC(181;0.0592)	Breast(660;0.000932)|all_neural(109;0.00391)|Myeloproliferative disorder(862;0.0122)|Ovarian(593;0.023)|Medulloblastoma(109;0.123)	GBM - Glioblastoma multiforme(5;4.06e-06)|STAD - Stomach adenocarcinoma(4;4.51e-05)|all cancers(6;5.32e-05)|LUSC - Lung squamous cell carcinoma(200;0.225)|Lung(22;0.23)			ATAAGAGCTTCCAAAGTAGAG	0.383													121	54	---	---	---	---	
ADAM2	2515	broad.mit.edu	37	8	39606830	39606830	+	Splice_Site	DEL	C	-	-	rs73676913	byFrequency	TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr8:39606830delC	uc003xnj.2	-	18	2089	c.2014_splice	c.e18+1	p.E672_splice	ADAM2_uc003xnk.2_Splice_Site_p.E653_splice|ADAM2_uc011lck.1_Splice_Site_p.E609_splice|ADAM2_uc003xnl.2_Splice_Site_p.E516_splice	NM_001464	NP_001455	Q99965	ADAM2_HUMAN	ADAM metallopeptidase domain 2 proprotein						cell adhesion|fusion of sperm to egg plasma membrane|proteolysis	integral to plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2		all_cancers(7;2.38e-28)|all_epithelial(6;8.85e-21)|all_lung(54;1.24e-07)|Lung NSC(58;1.94e-07)|Hepatocellular(245;0.00745)|Breast(189;0.00908)|Renal(179;0.0183)|Colorectal(162;0.246)	LUSC - Lung squamous cell carcinoma(45;0.000149)	READ - Rectum adenocarcinoma(644;0.0689)|Kidney(114;0.162)		ttaataCTTACCAGGGAGTCT	0.294													72	37	---	---	---	---	
SGK196	84197	broad.mit.edu	37	8	42977586	42977586	+	Frame_Shift_Del	DEL	G	-	-			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr8:42977586delG	uc003xpw.2	+	5	878	c.619delG	c.(619-621)GACfs	p.D207fs		NM_032237	NP_115613	Q9H5K3	SG196_HUMAN	protein kinase-like protein SgK196	207	Protein kinase.					integral to membrane	ATP binding|protein kinase activity				0						CGACTCCAACGACCTGCCGAA	0.552													49	32	---	---	---	---	
PRKG1	5592	broad.mit.edu	37	10	53893617	53893617	+	Frame_Shift_Del	DEL	C	-	-			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr10:53893617delC	uc001jjm.2	+	8	1102	c.908delC	c.(907-909)GCAfs	p.A303fs	PRKG1_uc001jjo.2_Frame_Shift_Del_p.A318fs|PRKG1_uc009xow.1_Frame_Shift_Del_p.A21fs	NM_001098512	NP_001091982	Q13976	KGP1_HUMAN	protein kinase, cGMP-dependent, type I isoform	303	cGMP 2.				actin cytoskeleton organization|platelet activation|signal transduction	cytosol	ATP binding|cGMP binding|cGMP-dependent protein kinase activity			lung(2)|stomach(1)|ovary(1)|central_nervous_system(1)|skin(1)	6		all_cancers(4;2.13e-08)|all_epithelial(4;2.44e-08)|all_lung(4;0.000173)		all cancers(4;1.18e-05)|GBM - Glioblastoma multiforme(4;0.000359)|Epithelial(53;0.00532)|Lung(62;0.0606)		GTGAGAACAGCAAACGTAATT	0.338													40	28	---	---	---	---	
BHLHE41	79365	broad.mit.edu	37	12	26275803	26275803	+	Frame_Shift_Del	DEL	G	-	-			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr12:26275803delG	uc001rhb.2	-	5	936	c.645delC	c.(643-645)GCCfs	p.A215fs		NM_030762	NP_110389	Q9C0J9	BHE41_HUMAN	basic helix-loop-helix domain containing, class	215					cell differentiation|cell proliferation|organ morphogenesis	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0						GCACGCAGTAGGCGAGGGGCT	0.746													5	3	---	---	---	---	
ZNF764	92595	broad.mit.edu	37	16	30567040	30567041	+	Frame_Shift_Del	DEL	CA	-	-			TCGA-33-4586-01A-01D-1441-08	TCGA-33-4586-11A-01D-1441-08									Somatic	Phase_I	Capture				Illumina GAIIx	e6bf4288-9fdd-4c56-b6d2-fa2f5ee542b6	c08fd64b-2ac6-4a08-bce1-30c6e7b870d0	g.chr16:30567040_30567041delCA	uc002dyq.2	-	3	782_783	c.701_702delTG	c.(700-702)CTGfs	p.L234fs	ZNF764_uc002dyr.1_Frame_Shift_Del_p.L233fs	NM_033410	NP_219363	Q96H86	ZN764_HUMAN	zinc finger protein 764	234	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						GGCCACACTCCAGACAGCGGTG	0.688													14	7	---	---	---	---