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
PRAMEF1	65121	broad.mit.edu	37	1	12855752	12855752	+	Silent	SNP	G	A	A	rs80197258	by1000genomes	TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr1:12855752G>A	uc001auj.1	+	4	1135	c.1032G>A	c.(1030-1032)CTG>CTA	p.L344L		NM_023013	NP_075389	O95521	PRAM1_HUMAN	PRAME family member 1	344											0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.0042)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		GAGCTCTGCTGGAGAAAATTG	0.557													7	630	---	---	---	---	PASS
INADL	10207	broad.mit.edu	37	1	62614008	62614008	+	Missense_Mutation	SNP	C	G	G			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr1:62614008C>G	uc001dab.2	+	42	5438	c.5324C>G	c.(5323-5325)TCT>TGT	p.S1775C	INADL_uc001dac.2_RNA|INADL_uc009wag.2_Missense_Mutation_p.S559C	NM_176877	NP_795352	Q8NI35	INADL_HUMAN	InaD-like	1775					intracellular signal transduction|tight junction assembly	apical plasma membrane|perinuclear region of cytoplasm|tight junction	protein binding			ovary(3)|skin(1)	4						GAAAACATGTCTACAGGCTAC	0.448													8	301	---	---	---	---	PASS
PSRC1	84722	broad.mit.edu	37	1	109823645	109823645	+	Missense_Mutation	SNP	C	T	T			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr1:109823645C>T	uc001dxg.2	-	5	870	c.748G>A	c.(748-750)GTC>ATC	p.V250I	PSRC1_uc001dxb.2_Missense_Mutation_p.V50I|PSRC1_uc001dxc.2_Missense_Mutation_p.V220I|PSRC1_uc001dxd.2_Missense_Mutation_p.V220I|PSRC1_uc001dxe.2_Missense_Mutation_p.V220I|PSRC1_uc001dxf.2_Intron|PSRC1_uc001dxh.2_Missense_Mutation_p.V220I|PSRC1_uc001dxi.2_Missense_Mutation_p.V220I|PSRC1_uc001dxj.2_Missense_Mutation_p.V250I	NM_001032290	NP_001027461	Q6PGN9	PSRC1_HUMAN	proline/serine-rich coiled-coil 1 isoform c	250	Pro/Ser-rich.				cell division|microtubule bundle formation|mitotic metaphase plate congression|negative regulation of cell growth|positive regulation of microtubule polymerization|positive regulation of transcription, DNA-dependent|regulation of mitotic spindle organization	cytosol|midbody|spindle pole	microtubule binding				0		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0286)|Lung(183;0.0658)|COAD - Colon adenocarcinoma(174;0.112)|Epithelial(280;0.188)|all cancers(265;0.213)		GGGGCCAGGACGGATCTGATG	0.612													24	42	---	---	---	---	PASS
TRAF3IP3	80342	broad.mit.edu	37	1	209948722	209948722	+	Missense_Mutation	SNP	T	A	A			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr1:209948722T>A	uc001hho.2	+	10	1093	c.803T>A	c.(802-804)GTA>GAA	p.V268E	TRAF3IP3_uc001hhl.2_Missense_Mutation_p.V248E|TRAF3IP3_uc001hhm.1_Missense_Mutation_p.V268E|TRAF3IP3_uc001hhn.2_Missense_Mutation_p.V248E|TRAF3IP3_uc009xcr.2_Missense_Mutation_p.V268E	NM_025228	NP_079504	Q9Y228	T3JAM_HUMAN	TRAF3-interacting JNK-activating modulator	268	Cytoplasmic (Potential).|Potential.					integral to membrane	protein binding			large_intestine(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.045)		ATGAAAAAAGTACTACTGGAG	0.313													10	35	---	---	---	---	PASS
OR2M3	127062	broad.mit.edu	37	1	248367150	248367150	+	Missense_Mutation	SNP	C	T	T	rs147728074	byFrequency	TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr1:248367150C>T	uc010pzg.1	+	1	781	c.781C>T	c.(781-783)CGG>TGG	p.R261W		NM_001004689	NP_001004689	Q8NG83	OR2M3_HUMAN	olfactory receptor, family 2, subfamily M,	261	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			CATGTACATACGGCCCACATC	0.502													61	385	---	---	---	---	PASS
PUM2	23369	broad.mit.edu	37	2	20490511	20490511	+	Missense_Mutation	SNP	T	C	C			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr2:20490511T>C	uc002rds.1	-	9	1216	c.1193A>G	c.(1192-1194)AAT>AGT	p.N398S	PUM2_uc002rdt.1_Missense_Mutation_p.N398S|PUM2_uc002rdr.2_Missense_Mutation_p.N337S|PUM2_uc010yjy.1_Missense_Mutation_p.N398S|PUM2_uc002rdu.1_Missense_Mutation_p.N398S|PUM2_uc010yjz.1_Missense_Mutation_p.N337S	NM_015317	NP_056132	Q8TB72	PUM2_HUMAN	pumilio homolog 2	398	Ala-rich.|Gln-rich.				regulation of translation	perinuclear region of cytoplasm|stress granule	protein binding|RNA binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CTGACCCTGATTGGGAGTAAG	0.443													10	123	---	---	---	---	PASS
HADHB	3032	broad.mit.edu	37	2	26508340	26508340	+	Missense_Mutation	SNP	T	G	G			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr2:26508340T>G	uc002rgz.2	+	15	1541	c.1290T>G	c.(1288-1290)TTT>TTG	p.F430L	HADHB_uc010ykv.1_Missense_Mutation_p.F408L|HADHB_uc010ykw.1_Missense_Mutation_p.F415L|HADHB_uc002rha.2_Missense_Mutation_p.F307L|HADHB_uc010ykx.1_Missense_Mutation_p.F356L	NM_000183	NP_000174	P55084	ECHB_HUMAN	mitochondrial trifunctional protein, beta	430					fatty acid beta-oxidation	mitochondrial nucleoid	3-hydroxyacyl-CoA dehydrogenase activity|acetyl-CoA C-acyltransferase activity|enoyl-CoA hydratase activity|protein binding			ovary(1)|breast(1)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GACACCCATTTGGAGCCACTG	0.532													9	104	---	---	---	---	PASS
CCDC93	54520	broad.mit.edu	37	2	118771566	118771566	+	Silent	SNP	C	A	A	rs11545372	byFrequency	TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr2:118771566C>A	uc002tlj.2	-	1	132	c.6G>T	c.(4-6)GGG>GGT	p.G2G	CCDC93_uc010fld.1_Silent_p.G2G	NM_019044	NP_061917	Q567U6	CCD93_HUMAN	coiled-coil domain containing 93	2										large_intestine(1)|ovary(1)	2						CCCTGGGCAACCCCATGATCC	0.692													6	7	---	---	---	---	PASS
EPC2	26122	broad.mit.edu	37	2	149526724	149526724	+	Missense_Mutation	SNP	T	G	G			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr2:149526724T>G	uc010zbt.1	+	8	1172	c.1145T>G	c.(1144-1146)TTG>TGG	p.L382W		NM_015630	NP_056445	Q52LR7	EPC2_HUMAN	enhancer of polycomb homolog 2	382					chromatin modification|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(1)|breast(1)|pancreas(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.0516)		GTCTAGGTATTGTCCCCAGTA	0.378													5	33	---	---	---	---	PASS
COL5A2	1290	broad.mit.edu	37	2	189918665	189918665	+	Missense_Mutation	SNP	C	A	A			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr2:189918665C>A	uc002uqk.2	-	37	2730	c.2455G>T	c.(2455-2457)GGT>TGT	p.G819C	COL5A2_uc010frx.2_Missense_Mutation_p.G395C	NM_000393	NP_000384	P05997	CO5A2_HUMAN	alpha 2 type V collagen preproprotein	819					axon guidance|collagen fibril organization|eye morphogenesis|skin development	collagen type V	extracellular matrix structural constituent			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.127)			CCTCGAGGACCAGGTTCACCC	0.423													3	50	---	---	---	---	PASS
SF3B1	23451	broad.mit.edu	37	2	198283305	198283305	+	Silent	SNP	T	C	C	rs788023	byFrequency	TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr2:198283305T>C	uc002uue.2	-	5	471	c.423A>G	c.(421-423)AAA>AAG	p.K141K	SF3B1_uc010fsk.1_RNA	NM_012433	NP_036565	O75533	SF3B1_HUMAN	splicing factor 3b, subunit 1 isoform 1	141					nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome|nuclear speck|U12-type spliceosomal complex	protein binding			pancreas(3)|ovary(1)|breast(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.246)			GATCAGGGGTTTTCCCTCCTG	0.358													3	160	---	---	---	---	PASS
PARD3B	117583	broad.mit.edu	37	2	206050517	206050517	+	Missense_Mutation	SNP	G	C	C			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr2:206050517G>C	uc002var.1	+	14	2161	c.1954G>C	c.(1954-1956)GAG>CAG	p.E652Q	PARD3B_uc010fub.1_Missense_Mutation_p.E652Q|PARD3B_uc002vao.1_Missense_Mutation_p.E652Q|PARD3B_uc002vap.1_Missense_Mutation_p.E590Q|PARD3B_uc002vaq.1_Missense_Mutation_p.E652Q	NM_152526	NP_689739	Q8TEW8	PAR3L_HUMAN	par-3 partitioning defective 3 homolog B isoform	652					cell cycle|cell division	endomembrane system|tight junction				skin(2)|ovary(1)|breast(1)	4		all_cancers(1;2.88e-06)|all_epithelial(1;3.23e-06)		Epithelial(149;0.0739)		CGGATGGGCCGAGAGTGAAGT	0.443													6	244	---	---	---	---	PASS
PASK	23178	broad.mit.edu	37	2	242079323	242079323	+	Missense_Mutation	SNP	C	G	G			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr2:242079323C>G	uc002wao.1	-	4	669	c.577G>C	c.(577-579)GCT>CCT	p.A193P	PASK_uc010zol.1_Intron|PASK_uc010zom.1_Missense_Mutation_p.A193P|PASK_uc010fzl.1_Missense_Mutation_p.A193P|PASK_uc010zon.1_Intron|PASK_uc002waq.2_Missense_Mutation_p.A193P	NM_015148	NP_055963	Q96RG2	PASK_HUMAN	PAS domain containing serine/threonine kinase	193					regulation of transcription, DNA-dependent	Golgi apparatus	ATP binding|identical protein binding|protein serine/threonine kinase activity|signal transducer activity			ovary(4)|lung(1)|skin(1)	6		all_cancers(19;4.46e-39)|all_epithelial(40;1.34e-17)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00481)|Lung NSC(271;0.017)|Ovarian(221;0.0228)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;1.34e-31)|all cancers(36;1e-28)|OV - Ovarian serous cystadenocarcinoma(60;3.53e-14)|Kidney(56;4.31e-09)|KIRC - Kidney renal clear cell carcinoma(57;4.35e-08)|BRCA - Breast invasive adenocarcinoma(100;5.64e-06)|Lung(119;0.000596)|LUSC - Lung squamous cell carcinoma(224;0.00481)|Colorectal(34;0.014)|COAD - Colon adenocarcinoma(134;0.0968)		ACCACCGCAGCGTGGCCGTCG	0.602													18	62	---	---	---	---	PASS
ULK4	54986	broad.mit.edu	37	3	41949428	41949428	+	Missense_Mutation	SNP	C	A	A			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr3:41949428C>A	uc003ckv.3	-	12	1292	c.1091G>T	c.(1090-1092)CGT>CTT	p.R364L	ULK4_uc003ckw.2_Missense_Mutation_p.R364L|ULK4_uc003ckx.1_Missense_Mutation_p.R364L	NM_017886	NP_060356	Q96C45	ULK4_HUMAN	unc-51-like kinase 4	364							ATP binding|protein serine/threonine kinase activity				0				KIRC - Kidney renal clear cell carcinoma(284;0.214)		GGGAGTAGGACGAGAACTGAA	0.408													29	83	---	---	---	---	PASS
CORIN	10699	broad.mit.edu	37	4	47679997	47679997	+	Missense_Mutation	SNP	C	T	T			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr4:47679997C>T	uc003gxm.2	-	9	1300	c.1207G>A	c.(1207-1209)GAG>AAG	p.E403K	CORIN_uc011bzf.1_Missense_Mutation_p.E264K|CORIN_uc011bzg.1_Missense_Mutation_p.E336K|CORIN_uc011bzh.1_Missense_Mutation_p.E366K|CORIN_uc011bzi.1_Missense_Mutation_p.E366K	NM_006587	NP_006578	Q9Y5Q5	CORIN_HUMAN	corin	403	Extracellular (Potential).|LDL-receptor class A 4.				peptide hormone processing|regulation of systemic arterial blood pressure by atrial natriuretic peptide	integral to membrane|plasma membrane	scavenger receptor activity|serine-type endopeptidase activity|serine-type exopeptidase activity			ovary(1)|central_nervous_system(1)	2						TTGCAGTCCTCGTCACCATCA	0.512													5	157	---	---	---	---	PASS
DCHS2	54798	broad.mit.edu	37	4	155242138	155242138	+	Silent	SNP	C	T	T			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr4:155242138C>T	uc003inw.2	-	14	3048	c.3048G>A	c.(3046-3048)ACG>ACA	p.T1016T		NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	1016	Cadherin 8.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		AATGAGATGTCGTCTCATAAT	0.378													30	341	---	---	---	---	PASS
FAM13B	51306	broad.mit.edu	37	5	137277736	137277736	+	Splice_Site	SNP	T	C	C			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr5:137277736T>C	uc003lbz.2	-	22	3057	c.2523_splice	c.e22-1	p.M841_splice	FAM13B_uc003lcb.2_Splice_Site_p.M717_splice|FAM13B_uc003lca.2_Splice_Site_p.M813_splice|PKD2L2_uc003lby.2_Intron	NM_016603	NP_057687	Q9NYF5	FA13B_HUMAN	hypothetical protein LOC51306 isoform 1						regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity				0						AATTCAGGCCTAGAATTGAAA	0.294													3	118	---	---	---	---	PASS
PCDHB7	56129	broad.mit.edu	37	5	140554142	140554142	+	Missense_Mutation	SNP	T	G	G	rs13174866		TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr5:140554142T>G	uc003lit.2	+	1	1900	c.1726T>G	c.(1726-1728)TTG>GTG	p.L576V		NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	576	Cadherin 6.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CACCGAGCCGTTGCCCCGGGC	0.706													4	118	---	---	---	---	PASS
PCDHB8	56128	broad.mit.edu	37	5	140558062	140558062	+	Silent	SNP	T	A	A			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr5:140558062T>A	uc011dai.1	+	1	633	c.447T>A	c.(445-447)CCT>CCA	p.P149P	PCDHB16_uc003liv.2_5'Flank	NM_019120	NP_061993	Q9UN66	PCDB8_HUMAN	protocadherin beta 8 precursor	149	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GCAGTCCTCCTGGGACTGCGT	0.413													91	395	---	---	---	---	PASS
PCDHB10	56126	broad.mit.edu	37	5	140574103	140574103	+	Missense_Mutation	SNP	T	G	G	rs17844596		TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr5:140574103T>G	uc003lix.2	+	1	2152	c.1978T>G	c.(1978-1980)TTG>GTG	p.L660V		NM_018930	NP_061753	Q9UN67	PCDBA_HUMAN	protocadherin beta 10 precursor	660	Cadherin 6.|Extracellular (Potential).			L -> V (in Ref. 2; AAK51616).	calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CACGCTGCACTTGCTCCTGGT	0.701													6	63	---	---	---	---	PASS
PCDHGB7	56099	broad.mit.edu	37	5	140798265	140798265	+	Missense_Mutation	SNP	C	T	T			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr5:140798265C>T	uc003lkn.1	+	1	984	c.839C>T	c.(838-840)TCC>TTC	p.S280F	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkm.2_Missense_Mutation_p.S280F|PCDHGA11_uc003lko.1_5'Flank|PCDHGA11_uc003lkp.1_5'Flank|PCDHGA11_uc003lkq.1_5'Flank	NM_018927	NP_061750	Q9Y5F8	PCDGJ_HUMAN	protocadherin gamma subfamily B, 7 isoform 1	280	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ATCACTTATTCCTTCTTTGGT	0.493													30	43	---	---	---	---	PASS
TNXB	7148	broad.mit.edu	37	6	32018029	32018029	+	Missense_Mutation	SNP	C	T	T			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr6:32018029C>T	uc003nzl.2	-	27	9381	c.9179G>A	c.(9178-9180)CGC>CAC	p.R3060H		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	3107	Fibronectin type-III 23.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						CTCCCCCAGGCGAGGCTTGAT	0.627													42	85	---	---	---	---	PASS
COL11A2	1302	broad.mit.edu	37	6	33135619	33135619	+	Missense_Mutation	SNP	C	A	A			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr6:33135619C>A	uc003ocx.1	-	55	4199	c.3971G>T	c.(3970-3972)GGC>GTC	p.G1324V	COL11A2_uc010jul.1_Intron|COL11A2_uc003ocy.1_Missense_Mutation_p.G1238V|COL11A2_uc003ocz.1_Missense_Mutation_p.G1217V	NM_080680	NP_542411	P13942	COBA2_HUMAN	collagen, type XI, alpha 2 isoform 1	1324	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						ACCAGGCGAGCCAGCAGGACC	0.607													3	37	---	---	---	---	PASS
DAAM2	23500	broad.mit.edu	37	6	39828787	39828787	+	Silent	SNP	G	A	A			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr6:39828787G>A	uc003oow.2	+	3	408	c.252G>A	c.(250-252)AAG>AAA	p.K84K	DAAM2_uc010jxc.2_Silent_p.K84K|DAAM2_uc003oox.2_Silent_p.K84K|DAAM2_uc003oov.3_Silent_p.K84K|DAAM2_uc003ooy.3_Silent_p.K84K	NM_015345	NP_056160	Q86T65	DAAM2_HUMAN	dishevelled associated activator of	84	GBD/FH3.				actin cytoskeleton organization		actin binding|Rho GTPase binding			ovary(2)|skin(1)	3	Ovarian(28;0.0355)|Colorectal(47;0.196)					ACTGCAGCAAGAAGAAGGTGC	0.463													7	22	---	---	---	---	PASS
FIGNL1	63979	broad.mit.edu	37	7	50514034	50514034	+	Missense_Mutation	SNP	C	A	A			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr7:50514034C>A	uc003tpc.2	-	4	1329	c.952G>T	c.(952-954)GGG>TGG	p.G318W	FIGNL1_uc003tpb.2_Missense_Mutation_p.G207W|FIGNL1_uc003tpd.2_Missense_Mutation_p.G318W|FIGNL1_uc003tpe.2_Missense_Mutation_p.G318W|FIGNL1_uc010kyy.2_Missense_Mutation_p.G318W	NM_001042762	NP_001036227	Q6PIW4	FIGL1_HUMAN	fidgetin-like 1	318					ATP metabolic process|negative regulation of apoptosis|osteoblast differentiation|osteoblast proliferation|regulation of cell cycle	cytoplasm|nucleus	ATP binding|magnesium ion binding|nucleoside-triphosphatase activity			ovary(3)	3	Glioma(55;0.08)|all_neural(89;0.245)	Acute lymphoblastic leukemia(4;3.73e-08)|all_hematologic(4;7.51e-06)				TATGAAGACCCTGATGCACGC	0.453													4	182	---	---	---	---	PASS
DPP6	1804	broad.mit.edu	37	7	154667655	154667655	+	Silent	SNP	C	T	T			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr7:154667655C>T	uc003wlk.2	+	20	2052	c.1923C>T	c.(1921-1923)TTC>TTT	p.F641F	DPP6_uc003wli.2_Silent_p.F577F|DPP6_uc003wlm.2_Silent_p.F579F|DPP6_uc011kvq.1_Silent_p.F534F	NM_130797	NP_570629	P42658	DPP6_HUMAN	dipeptidyl-peptidase 6 isoform 1	641	Extracellular (Potential).				cell death|proteolysis	integral to membrane	dipeptidyl-peptidase activity|serine-type peptidase activity			pancreas(3)|breast(1)	4	all_neural(206;0.181)	all_hematologic(28;0.0044)|all_lung(21;0.0176)|Lung NSC(21;0.0204)	OV - Ovarian serous cystadenocarcinoma(82;0.0562)			CTGAGAAGTTCGAGGTGAGCT	0.652													4	19	---	---	---	---	PASS
NKX3-1	4824	broad.mit.edu	37	8	23539003	23539003	+	Missense_Mutation	SNP	G	C	C			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr8:23539003G>C	uc011kzx.1	-	2	484	c.436C>G	c.(436-438)CAG>GAG	p.Q146E	NKX3-1_uc003xdv.1_Intron	NM_006167	NP_006158	Q99801	NKX31_HUMAN	NK3 homeobox 1	146	Homeobox.				negative regulation of estrogen receptor binding|negative regulation of transcription, DNA-dependent|positive regulation of cell division|positive regulation of mitotic cell cycle|positive regulation of transcription from RNA polymerase II promoter	nucleus	estrogen receptor activity|estrogen receptor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region sequence-specific DNA binding				0		Prostate(55;0.114)		Colorectal(74;0.0146)|COAD - Colon adenocarcinoma(73;0.061)|BRCA - Breast invasive adenocarcinoma(99;0.0708)		AGGTACTTCTGATGGCTGAAC	0.572													5	308	---	---	---	---	PASS
CSPP1	79848	broad.mit.edu	37	8	68007736	68007736	+	Missense_Mutation	SNP	T	C	C			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr8:68007736T>C	uc003xxi.2	+	8	855	c.824T>C	c.(823-825)ATT>ACT	p.I275T	CSPP1_uc003xxg.1_Missense_Mutation_p.I267T|CSPP1_uc003xxh.1_RNA|CSPP1_uc003xxj.2_Missense_Mutation_p.I240T|CSPP1_uc003xxk.2_5'UTR	NM_001077204	NP_001070672	Q1MSJ5	CSPP1_HUMAN	centrosome spindle pole associated protein 1	275						centrosome|microtubule|spindle				ovary(3)|breast(2)	5	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.00145)|OV - Ovarian serous cystadenocarcinoma(28;0.00589)|all cancers(69;0.0069)|BRCA - Breast invasive adenocarcinoma(89;0.153)			AATAGAAGAATTATTAAAAAA	0.373													4	161	---	---	---	---	PASS
ZCCHC6	79670	broad.mit.edu	37	9	88903619	88903619	+	Silent	SNP	T	C	C			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr9:88903619T>C	uc004aoq.2	-	27	4676	c.4461A>G	c.(4459-4461)TCA>TCG	p.S1487S	ZCCHC6_uc010mqe.2_Silent_p.S387S|ZCCHC6_uc011ltf.1_RNA|ZCCHC6_uc004aor.2_RNA|ZCCHC6_uc004aos.2_RNA|ZCCHC6_uc004aot.2_Silent_p.S1251S|ZCCHC6_uc004aou.2_Silent_p.S1487S	NM_024617	NP_078893	Q5VYS8	TUT7_HUMAN	zinc finger, CCHC domain containing 6	1487					RNA 3'-end processing		nucleic acid binding|RNA uridylyltransferase activity|zinc ion binding			ovary(2)	2						TCCTCTTCGCTGAGGCTTTTC	0.438													3	178	---	---	---	---	PASS
TTC18	118491	broad.mit.edu	37	10	75072385	75072385	+	Missense_Mutation	SNP	C	T	T			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr10:75072385C>T	uc009xrc.2	-	11	1260	c.1139G>A	c.(1138-1140)AGC>AAC	p.S380N	TTC18_uc001jty.2_Missense_Mutation_p.S380N|TTC18_uc009xrd.1_Missense_Mutation_p.S188N	NM_145170	NP_660153	Q5T0N1	TTC18_HUMAN	tetratricopeptide repeat domain 18	380							binding			ovary(2)|central_nervous_system(1)	3	Prostate(51;0.0119)					CCGGAACAAGCTCAATAAACA	0.294													9	292	---	---	---	---	PASS
ZBTB3	79842	broad.mit.edu	37	11	62519844	62519844	+	Missense_Mutation	SNP	G	C	C			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr11:62519844G>C	uc001nuz.2	-	2	1565	c.1443C>G	c.(1441-1443)TTC>TTG	p.F481L		NM_024784	NP_079060	Q9H5J0	ZBTB3_HUMAN	zinc finger and BTB domain containing 3	481	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|ovary(1)	3						AAGAGCATGAGAAGGTCTTCC	0.552													16	106	---	---	---	---	PASS
TAF1D	79101	broad.mit.edu	37	11	93471531	93471531	+	Missense_Mutation	SNP	G	A	A			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr11:93471531G>A	uc001ped.2	-	3	405	c.203C>T	c.(202-204)TCA>TTA	p.S68L	SNORA8_uc001pec.2_5'Flank|TAF1D_uc001pdz.2_RNA|TAF1D_uc001pea.1_RNA	NM_024116	NP_077021	Q9H5J8	TAF1D_HUMAN	TATA box binding protein (TBP)-associated	68					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding				0						TTCAAAAGATGAGTCACTTGA	0.363													93	178	---	---	---	---	PASS
TMPRSS13	84000	broad.mit.edu	37	11	117789386	117789386	+	Silent	SNP	A	C	C			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr11:117789386A>C	uc001prs.1	-	2	282	c.189T>G	c.(187-189)GGT>GGG	p.G63G	TMPRSS13_uc009yzr.1_5'UTR|TMPRSS13_uc001prt.1_5'UTR|TMPRSS13_uc001pru.1_Silent_p.G63G	NM_001077263	NP_001070731	Q9BYE2	TMPSD_HUMAN	transmembrane protease, serine 13	63	4 X 5 AA repeats of T-P-P-G-R.|1-8.|12 X 5 AA repeats of A-S-P-A-[GLQR].|Cytoplasmic (Potential).|Ala-rich.				proteolysis	integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			pancreas(1)	1	all_hematologic(175;0.0487)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.78e-05)|Epithelial(105;0.00106)		CTGGAGGTGTACCAGCTGGAG	0.682													5	90	---	---	---	---	PASS
LOC653113	653113	broad.mit.edu	37	12	8386911	8386911	+	RNA	SNP	G	T	T	rs2968743	by1000genomes	TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr12:8386911G>T	uc010sgk.1	-	4		c.545C>A				NR_024254				Homo sapiens family with sequence similarity 86, member A pseudogene (LOC653113), non-coding RNA.												0						TCTGGGTTGCGGACGGTAAAG	0.657													4	66	---	---	---	---	PASS
KRT6C	286887	broad.mit.edu	37	12	52864359	52864359	+	Missense_Mutation	SNP	T	A	A			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr12:52864359T>A	uc001sal.3	-	6	1181	c.1133A>T	c.(1132-1134)AAG>ATG	p.K378M		NM_173086	NP_775109	P48668	K2C6C_HUMAN	keratin 6C	378	Rod.|Coil 2.				cytoskeleton organization	keratin filament	structural molecule activity			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(357;0.0828)		AATCTCCTGCTTGGTGTTGCG	0.552													18	181	---	---	---	---	PASS
SLC6A15	55117	broad.mit.edu	37	12	85266407	85266407	+	Missense_Mutation	SNP	A	T	T			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr12:85266407A>T	uc001szv.2	-	8	1769	c.1276T>A	c.(1276-1278)TGT>AGT	p.C426S	SLC6A15_uc010sul.1_Missense_Mutation_p.C319S|SLC6A15_uc001szw.1_Missense_Mutation_p.C134S	NM_182767	NP_877499	Q9H2J7	S6A15_HUMAN	solute carrier family 6, member 15 isoform 1	426	Extracellular (Potential).				cellular nitrogen compound metabolic process|leucine transport|proline transport	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity			pancreas(2)|ovary(1)	3						TCAATTTTACAGGAATTGAGA	0.318													4	159	---	---	---	---	PASS
TPCN1	53373	broad.mit.edu	37	12	113733848	113733848	+	Silent	SNP	A	T	T			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr12:113733848A>T	uc001tuw.2	+	28	2715	c.2418A>T	c.(2416-2418)CCA>CCT	p.P806P	TPCN1_uc001tux.2_Silent_p.P878P|TPCN1_uc010syu.1_RNA	NM_017901	NP_060371	Q9ULQ1	TPC1_HUMAN	two pore segment channel 1 isoform 2	806	Cytoplasmic (Potential).					endosome membrane|integral to membrane|lysosomal membrane	NAADP-sensitive calcium-release channel activity|voltage-gated ion channel activity			skin(2)|ovary(1)	3						AGCAGCCCCCAGGCAGCCGCC	0.597													23	41	---	---	---	---	PASS
TMEM132B	114795	broad.mit.edu	37	12	126068419	126068419	+	Missense_Mutation	SNP	C	T	T			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr12:126068419C>T	uc001uhe.1	+	5	1309	c.1301C>T	c.(1300-1302)GCC>GTC	p.A434V		NM_052907	NP_443139	Q14DG7	T132B_HUMAN	transmembrane protein 132B	434	Extracellular (Potential).					integral to membrane				skin(11)|ovary(5)|large_intestine(1)|pancreas(1)|breast(1)	19	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000423)|Epithelial(86;0.00394)|all cancers(50;0.0362)		TTGAACACTGCCATTCTCACT	0.542													8	476	---	---	---	---	PASS
GPR133	283383	broad.mit.edu	37	12	131471699	131471699	+	Missense_Mutation	SNP	G	A	A	rs61732860	byFrequency	TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr12:131471699G>A	uc001uit.3	+	6	1109	c.550G>A	c.(550-552)GTC>ATC	p.V184I	GPR133_uc010tbm.1_Missense_Mutation_p.V216I	NM_198827	NP_942122	Q6QNK2	GP133_HUMAN	G protein-coupled receptor 133 precursor	184	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(5)|ovary(3)|skin(2)	10	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.68e-06)|all cancers(50;2.71e-06)|Epithelial(86;6.75e-06)		GAAAGTCTACGTCAACGGGAC	0.517													7	178	---	---	---	---	PASS
IRS2	8660	broad.mit.edu	37	13	110436428	110436428	+	Missense_Mutation	SNP	G	T	T			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr13:110436428G>T	uc001vqv.2	-	1	2487	c.1973C>A	c.(1972-1974)CCC>CAC	p.P658H		NM_003749	NP_003740	Q9Y4H2	IRS2_HUMAN	insulin receptor substrate 2	658					fibroblast growth factor receptor signaling pathway|glucose metabolic process|insulin receptor signaling pathway|lipid homeostasis|negative regulation of B cell apoptosis|negative regulation of kinase activity|negative regulation of plasma membrane long-chain fatty acid transport|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of B cell proliferation|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of insulin secretion|response to glucose stimulus	cytosol|plasma membrane	insulin receptor binding|signal transducer activity			large_intestine(2)|lung(2)|upper_aerodigestive_tract(1)|skin(1)|ovary(1)|kidney(1)	8	all_cancers(4;7.57e-15)|all_epithelial(4;5.91e-09)|all_lung(23;7.64e-07)|Lung NSC(43;0.000183)|Colorectal(4;0.00159)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0155)	Breast(118;0.159)	all cancers(43;0.00815)|BRCA - Breast invasive adenocarcinoma(86;0.11)|Epithelial(84;0.127)|GBM - Glioblastoma multiforme(44;0.147)			GGCCGCGCCGGGCGTCATGGG	0.677													3	14	---	---	---	---	PASS
ADAM6	8755	broad.mit.edu	37	14	106478356	106478356	+	RNA	SNP	C	T	T			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr14:106478356C>T	uc010tyt.1	-	1857		c.35930G>A								Parts of antibodies, mostly variable regions.												0						ACAGGGTCTCCGAAGGCTTCA	0.627													5	82	---	---	---	---	PASS
SLC28A1	9154	broad.mit.edu	37	15	85447467	85447467	+	Missense_Mutation	SNP	G	T	T			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr15:85447467G>T	uc002blg.2	+	7	803	c.601G>T	c.(601-603)GCA>TCA	p.A201S	SLC28A1_uc010upd.1_Missense_Mutation_p.A123S|SLC28A1_uc010bnb.2_Missense_Mutation_p.A201S|SLC28A1_uc010upe.1_Missense_Mutation_p.A201S|SLC28A1_uc010upf.1_Missense_Mutation_p.A201S|SLC28A1_uc010upg.1_Missense_Mutation_p.A201S	NM_004213	NP_004204	O00337	S28A1_HUMAN	solute carrier family 28, member 1 isoform 1	201					nucleobase, nucleoside and nucleotide metabolic process	integral to plasma membrane|membrane fraction	nucleoside binding			skin(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(143;0.0587)			GCATCATTGCGCAGTGAGTGC	0.582													5	229	---	---	---	---	PASS
AMDHD2	51005	broad.mit.edu	37	16	2570856	2570856	+	Missense_Mutation	SNP	A	G	G			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr16:2570856A>G	uc002cqq.2	+	2	267	c.170A>G	c.(169-171)GAC>GGC	p.D57G	AMDHD2_uc002cqp.2_Missense_Mutation_p.D57G|AMDHD2_uc010uwc.1_Missense_Mutation_p.D57G|AMDHD2_uc010uwd.1_Intron	NM_015944	NP_057028	Q9Y303	NAGA_HUMAN	amidohydrolase domain containing 2 isoform 1	57					N-acetylglucosamine metabolic process		N-acetylglucosamine-6-phosphate deacetylase activity			skin(2)|large_intestine(1)|breast(1)	4						GAGCGGCGGGACTGCGGGGGC	0.692													5	21	---	---	---	---	PASS
CAPNS2	84290	broad.mit.edu	37	16	55601019	55601019	+	Silent	SNP	C	T	T			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr16:55601019C>T	uc002eid.1	+	1	436	c.351C>T	c.(349-351)GAC>GAT	p.D117D	LPCAT2_uc002eie.3_Intron|LPCAT2_uc002eic.2_Intron	NM_032330	NP_115706	Q96L46	CPNS2_HUMAN	calpain small subunit 2	117						cytoplasm|plasma membrane	calcium ion binding				0						TTAAGACTGACGGTTTTAGTC	0.448													7	333	---	---	---	---	PASS
BCMO1	53630	broad.mit.edu	37	16	81298375	81298375	+	Missense_Mutation	SNP	T	C	C			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr16:81298375T>C	uc002fgn.1	+	5	820	c.602T>C	c.(601-603)ATC>ACC	p.I201T	BCMO1_uc010vnp.1_Missense_Mutation_p.I132T	NM_017429	NP_059125	Q9HAY6	BCDO1_HUMAN	beta-carotene 15,15'-monooxygenase	201					retinoid metabolic process|steroid metabolic process	cytosol	beta-carotene 15,15'-monooxygenase activity|metal ion binding|monooxygenase activity				0						ATTTTTAAGATCCCTGCCACA	0.438													10	92	---	---	---	---	PASS
NXN	64359	broad.mit.edu	37	17	725622	725622	+	Nonsense_Mutation	SNP	C	A	A			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr17:725622C>A	uc002fsa.2	-	4	780	c.688G>T	c.(688-690)GAG>TAG	p.E230*	NXN_uc002fsb.1_Nonsense_Mutation_p.E117*|NXN_uc010vqd.1_5'UTR|NXN_uc002frz.2_5'UTR|NXN_uc010vqe.1_Nonsense_Mutation_p.E122*	NM_022463	NP_071908	Q6DKJ4	NXN_HUMAN	nucleoredoxin	230	Thioredoxin.				cell differentiation|cell redox homeostasis|multicellular organismal development|Wnt receptor signaling pathway	cytosol|nucleus	protein-disulfide reductase activity			ovary(2)|breast(1)|pancreas(1)	4				UCEC - Uterine corpus endometrioid carcinoma (25;0.0237)		AAGATGATCTCGAAGTTCTGG	0.512													3	107	---	---	---	---	PASS
SLC14A2	8170	broad.mit.edu	37	18	43262359	43262359	+	Missense_Mutation	SNP	G	A	A	rs3745009	byFrequency	TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr18:43262359G>A	uc010dnj.2	+	21	2959	c.2638G>A	c.(2638-2640)GCC>ACC	p.A880T	SLC14A2_uc002lbe.2_Missense_Mutation_p.A880T	NM_007163	NP_009094	Q15849	UT2_HUMAN	solute carrier family 14 (urea transporter),	880						apical plasma membrane|integral to membrane|membrane fraction	protein binding|urea transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|skin(1)	4						CAATAACCCCGCCATCTACAA	0.527													6	333	---	---	---	---	PASS
FAM108A1	81926	broad.mit.edu	37	19	1881408	1881408	+	Missense_Mutation	SNP	A	G	G			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr19:1881408A>G	uc002lug.2	-	2	564	c.158T>C	c.(157-159)TTG>TCG	p.L53S	FAM108A1_uc002lud.2_Missense_Mutation_p.L53S|FAM108A1_uc002lue.2_Missense_Mutation_p.L53S|FAM108A1_uc002luf.2_Missense_Mutation_p.L53S	NM_001130111	NP_001123583	Q96GS6	F18A1_HUMAN	hypothetical protein LOC81926 isoform 2	53						extracellular region	hydrolase activity				0		Ovarian(11;0.000137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CAGGGTCCCCAAGGGGGCGGC	0.736													4	47	---	---	---	---	PASS
MUC16	94025	broad.mit.edu	37	19	9063353	9063353	+	Silent	SNP	G	A	A			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr19:9063353G>A	uc002mkp.2	-	3	24297	c.24093C>T	c.(24091-24093)AGC>AGT	p.S8031S		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	8033	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						CTGAGGTGCTGCTCAAATTTG	0.468													4	181	---	---	---	---	PASS
LRFN3	79414	broad.mit.edu	37	19	36430858	36430858	+	Silent	SNP	C	A	A			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr19:36430858C>A	uc002oco.2	+	2	983	c.531C>A	c.(529-531)GGC>GGA	p.G177G		NM_024509	NP_078785	Q9BTN0	LRFN3_HUMAN	leucine rich repeat and fibronectin type III	177	Extracellular (Potential).|LRR 5.				cell adhesion	axon|cell junction|dendrite|integral to membrane|postsynaptic membrane|presynaptic membrane					0	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			AGGCCCTGGGCCGCCTGGGCA	0.677													13	172	---	---	---	---	PASS
FOXA3	3171	broad.mit.edu	37	19	46375689	46375689	+	Missense_Mutation	SNP	A	T	T			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr19:46375689A>T	uc002pdr.2	+	2	623	c.426A>T	c.(424-426)GAA>GAT	p.E142D		NM_004497	NP_004488	P55318	FOXA3_HUMAN	forkhead box A3	142	Fork-head.				brain development|cellular glucose homeostasis|cellular response to starvation|chromatin modification|embryo development|endocrine pancreas development|negative regulation of cell proliferation|neural plate anterior/posterior regionalization|neuron fate specification|positive regulation of hepatocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|spermatogenesis	transcription factor complex	DNA bending activity|double-stranded DNA binding|protein domain specific binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|transcription regulatory region DNA binding			breast(1)	1		Ovarian(192;0.0308)|all_neural(266;0.0476)		OV - Ovarian serous cystadenocarcinoma(262;0.00453)|GBM - Glioblastoma multiforme(486;0.0518)|Epithelial(262;0.236)		CCTTGAGTGAAATCTACCAGT	0.567													18	257	---	---	---	---	PASS
ZNF534	147658	broad.mit.edu	37	19	52937267	52937267	+	Silent	SNP	G	A	A			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr19:52937267G>A	uc002pzk.2	+	2	136	c.75G>A	c.(73-75)CTG>CTA	p.L25L	ZNF534_uc002pzj.1_Silent_p.L25L|ZNF534_uc010epo.1_Silent_p.L25L|ZNF534_uc002pzl.2_Silent_p.L25L	NM_001143939	NP_001137411	Q76KX8	ZN534_HUMAN	zinc finger protein 534 isoform 2	25	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GGAAATGCCTGGACCCTGGGC	0.478													57	116	---	---	---	---	PASS
FOXA2	3170	broad.mit.edu	37	20	22562683	22562683	+	Missense_Mutation	SNP	G	C	C			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr20:22562683G>C	uc002wsn.2	-	3	1369	c.1179C>G	c.(1177-1179)CAC>CAG	p.H393Q	FOXA2_uc002wsm.2_Missense_Mutation_p.H399Q	NM_153675	NP_710141	Q9Y261	FOXA2_HUMAN	forkhead box A2 isoform 2	393	Transactivation domain 2 (By similarity).				cell differentiation in hindbrain|central nervous system myelin formation|chromatin modification|dorsal/ventral neural tube patterning|ectoderm formation|endocrine pancreas development|endoderm development|epithelial tube branching involved in lung morphogenesis|in utero embryonic development|lung epithelial cell differentiation|negative regulation of neuron differentiation|neuron fate specification|oligodendrocyte cell fate commitment|positive regulation of embryonic development|positive regulation of gastrulation|positive regulation of neuron differentiation|primitive streak formation|regulation of blood coagulation|regulation of sequence-specific DNA binding transcription factor activity|response to interleukin-6	cytoplasm|transcription factor complex	DNA bending activity|double-stranded DNA binding|protein domain specific binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			ovary(2)|kidney(1)|central_nervous_system(1)	4	Lung NSC(19;0.188)					GTtggtggtggtggtggctgt	0.532													3	91	---	---	---	---	PASS
FAM182B	728882	broad.mit.edu	37	20	25848606	25848606	+	RNA	SNP	G	A	A			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr20:25848606G>A	uc002wvd.1	-	1		c.181C>T								Homo sapiens cDNA FLJ30282 fis, clone BRACE2002803.												0						atcaccgtccgggcaggcctg	0.000													4	8	---	---	---	---	PASS
TPTE	7179	broad.mit.edu	37	21	10908828	10908828	+	Missense_Mutation	SNP	T	G	G			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr21:10908828T>G	uc002yip.1	-	23	1885	c.1517A>C	c.(1516-1518)AAC>ACC	p.N506T	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Missense_Mutation_p.N488T|TPTE_uc002yir.1_Missense_Mutation_p.N468T|TPTE_uc010gkv.1_Missense_Mutation_p.N368T	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	506	C2 tensin-type.				signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		TTCATACCTGTTATTTTCAAT	0.294													4	129	---	---	---	---	PASS
POM121L9P	29774	broad.mit.edu	37	22	24659809	24659809	+	RNA	SNP	G	A	A			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr22:24659809G>A	uc002zzs.3	+	7		c.3541G>A			uc011ajp.1_5'Flank	NR_003714				Homo sapiens mRNA; cDNA DKFZp434P211 (from clone DKFZp434P211).												0						CCCTATCTGCGCACCCGGAGG	0.612													3	13	---	---	---	---	PASS
KREMEN1	83999	broad.mit.edu	37	22	29534804	29534804	+	Missense_Mutation	SNP	G	A	A			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr22:29534804G>A	uc011akm.1	+	7	1170	c.1157G>A	c.(1156-1158)GGA>GAA	p.G386E	KREMEN1_uc003ael.2_Intron|KREMEN1_uc011akn.1_Missense_Mutation_p.G269E	NM_032045	NP_114434	Q96MU8	KREM1_HUMAN	kringle-containing transmembrane protein 1	384	Extracellular (Potential).				cell communication|regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to membrane|membrane fraction	protein binding			ovary(3)|lung(2)	5						ATGGGGGCTGGAAGCCACAGA	0.552													11	45	---	---	---	---	PASS
PRR5-ARHGAP8	553158	broad.mit.edu	37	22	45128196	45128196	+	Silent	SNP	G	C	C			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr22:45128196G>C	uc003bfd.2	+	6	752	c.480G>C	c.(478-480)GTG>GTC	p.V160V	PRR5_uc003bew.1_Silent_p.V151V|PRR5_uc003bex.1_Silent_p.V65V|PRR5_uc010gzt.1_Silent_p.V183V|PRR5_uc010gzu.1_Silent_p.V124V|PRR5_uc003bey.1_Silent_p.V151V|PRR5_uc003bez.1_Silent_p.V65V|PRR5-ARHGAP8_uc003bfc.2_Intron|PRR5-ARHGAP8_uc011aqi.1_Intron|PRR5-ARHGAP8_uc011aqj.1_Intron|PRR5_uc003bfa.1_Silent_p.V53V|PRR5_uc003bfb.1_Silent_p.V160V|PRR5_uc003bfe.1_RNA|PRR5-ARHGAP8_uc003bfg.1_Intron|PRR5_uc003bfh.1_Silent_p.V59V	NM_181335	NP_851852			Rho GTPase activating protein 8 isoform 2											skin(2)	2						CCCTCAGTGTGAAGCTAGAGG	0.682													3	120	---	---	---	---	PASS
USP9X	8239	broad.mit.edu	37	X	41000651	41000651	+	Silent	SNP	G	A	A			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chrX:41000651G>A	uc004dfb.2	+	9	1761	c.1128G>A	c.(1126-1128)GAG>GAA	p.E376E	USP9X_uc004dfc.2_Silent_p.E376E	NM_001039590	NP_001034679	Q93008	USP9X_HUMAN	ubiquitin specific protease 9, X-linked isoform	376					BMP signaling pathway|cell division|chromosome segregation|female gamete generation|mitosis|protein deubiquitination|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent protein catabolic process	cytoplasm	co-SMAD binding|cysteine-type endopeptidase activity|ubiquitin thiolesterase activity			lung(3)|breast(2)|ovary(1)	6						GTAATCCTGAGGAGGAAGAGT	0.363													13	36	---	---	---	---	PASS
FAM127A	8933	broad.mit.edu	37	X	134166693	134166693	+	Missense_Mutation	SNP	T	A	A			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chrX:134166693T>A	uc004eyd.2	+	1	361	c.280T>A	c.(280-282)TAC>AAC	p.Y94N	uc004eye.1_RNA	NM_001078171	NP_001071639	A6ZKI3	F127A_HUMAN	family with sequence similarity 127, member A	94											0	Acute lymphoblastic leukemia(192;0.000127)					CCTCAATGATTACCGGGGCTT	0.642													29	16	---	---	---	---	PASS
AIM2	9447	broad.mit.edu	37	1	159033322	159033322	+	Frame_Shift_Del	DEL	T	-	-			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr1:159033322delT	uc001ftj.1	-	5	1204	c.959delA	c.(958-960)AATfs	p.N320fs		NM_004833	NP_004824	O14862	AIM2_HUMAN	absent in melanoma 2	320	HIN-200.				cellular response to drug|immune response|interleukin-1 beta secretion	mitochondrion|nucleus				ovary(2)|pancreas(1)	3	all_hematologic(112;0.0429)					TTTTTCTCCATTTTTTGACAG	0.408													379	209	---	---	---	---	
TPR	7175	broad.mit.edu	37	1	186307316	186307316	+	Frame_Shift_Del	DEL	T	-	-			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr1:186307316delT	uc001grv.2	-	31	4508	c.4211delA	c.(4210-4212)AATfs	p.N1404fs		NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR	1404	Potential.				carbohydrate metabolic process|glucose transport|mitotic cell cycle spindle assembly checkpoint|mRNA transport|protein import into nucleus|regulation of glucose transport|seryl-tRNA aminoacylation|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytoplasm|nuclear membrane|nuclear pore|nucleoplasm	ATP binding|protein binding|serine-tRNA ligase activity			ovary(2)|lung(2)|urinary_tract(1)|central_nervous_system(1)|skin(1)	7		Breast(1374;0.000659)|Lung SC(1967;0.0262)|Prostate(1639;0.157)		Colorectal(1306;1.12e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00553)		TCTTACTTTATTTAGATCTTC	0.294			T	NTRK1	papillary thyroid								195	27	---	---	---	---	
CNTN6	27255	broad.mit.edu	37	3	1262421	1262422	+	Frame_Shift_Ins	INS	-	T	T			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr3:1262421_1262422insT	uc003boz.2	+	3	373_374	c.106_107insT	c.(106-108)ATTfs	p.I36fs	CNTN6_uc010hbo.2_Frame_Shift_Ins_p.I31fs|CNTN6_uc011asj.1_5'UTR|CNTN6_uc003bpa.2_Frame_Shift_Ins_p.I36fs	NM_014461	NP_055276	Q9UQ52	CNTN6_HUMAN	contactin 6 precursor	36	Ig-like C2-type 1.				axon guidance|cell adhesion|central nervous system development|Notch signaling pathway	anchored to membrane|plasma membrane				skin(3)|lung(2)|breast(2)|pancreas(1)	8		all_cancers(2;0.000164)|all_epithelial(2;0.107)		Epithelial(13;0.000233)|all cancers(10;0.0013)|OV - Ovarian serous cystadenocarcinoma(96;0.0139)		ACATGATGTCATTTTTCCTTTG	0.401													324	8	---	---	---	---	
SLC22A4	6583	broad.mit.edu	37	5	131676278	131676278	+	Frame_Shift_Del	DEL	C	-	-			TCGA-EJ-5517-01A-01D-1576-08	TCGA-EJ-5517-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	087a7f17-690b-460f-a9ce-ab90d316a64c	3a863bfc-2b84-4a57-8049-f41ebba5ab1c	g.chr5:131676278delC	uc003kwq.2	+	9	1630	c.1465delC	c.(1465-1467)CCCfs	p.P489fs	uc003kwr.3_Intron	NM_003059	NP_003050	Q9H015	S22A4_HUMAN	solute carrier family 22 member 4	489	Helical; Name=12; (Potential).				body fluid secretion|sodium ion transport	apical plasma membrane|integral to plasma membrane|mitochondrion	ATP binding|carnitine transporter activity|cation:cation antiporter activity|PDZ domain binding|secondary active organic cation transmembrane transporter activity|symporter activity				0		all_cancers(142;0.0752)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)		L-Carnitine(DB00583)	CAGAATGCTGCCCTACATCGT	0.458													665	15	---	---	---	---	
