Hugo_Symbol	Entrez_Gene_Id	Center	NCBI_Build	Chromosome	Start_position	End_position	Strand	Variant_Classification	Variant_Type	Reference_Allele	Tumor_Seq_Allele1	Tumor_Seq_Allele2	dbSNP_RS	dbSNP_Val_Status	Tumor_Sample_Barcode	Matched_Norm_Sample_Barcode	Match_Norm_Seq_Allele1	Match_Norm_Seq_Allele2	Tumor_Validation_Allele1	Tumor_Validation_Allele2	Match_Norm_Validation_Allele1	Match_Norm_Validation_Allele2	Verification_Status	Validation_Status	Mutation_Status	Sequencing_Phase	Sequence_Source	Validation_Method	Score	BAM_file	Sequencer	Genome_Change	Annotation_Transcript	Transcript_Strand	Transcript_Exon	Transcript_Position	cDNA_Change	Codon_Change	Protein_Change	Other_Transcripts	Refseq_mRNA_Id	Refseq_prot_Id	SwissProt_acc_Id	SwissProt_entry_Id	Description	UniProt_AApos	UniProt_Region	UniProt_Site	UniProt_Natural_Variations	UniProt_Experimental_Info	GO_Biological_Process	GO_Cellular_Component	GO_Molecular_Function	COSMIC_overlapping_mutations	COSMIC_fusion_genes	COSMIC_tissue_types_affected	COSMIC_total_alterations_in_gene	Tumorscape_Amplification_Peaks	Tumorscape_Deletion_Peaks	TCGAscape_Amplification_Peaks	TCGAscape_Deletion_Peaks	DrugBank	ref_context	gc_content	CCLE_ONCOMAP_overlapping_mutations	CCLE_ONCOMAP_total_mutations_in_gene	CGC_Mutation_Type	CGC_Translocation_Partner	CGC_Tumor_Types_Somatic	CGC_Tumor_Types_Germline	CGC_Other_Diseases	DNARepairGenes_Role	FamilialCancerDatabase_Syndromes	MUTSIG_Published_Results	OREGANNO_ID	OREGANNO_Values	t_alt_count	t_ref_count	validation_status	validation_method	validation_tumor_sample	validation_alt_allele	filter
CAMTA1	23261	broad.mit.edu	37	1	7724016	7724016	+	Missense_Mutation	SNP	T	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:7724016T>A	uc001aoi.2	+	9	1616	c.1409T>A	c.(1408-1410)CTC>CAC	p.L470H		NM_015215	NP_056030	Q9Y6Y1	CMTA1_HUMAN	calmodulin-binding transcription activator 1	470					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calmodulin binding			ovary(5)|central_nervous_system(2)|breast(1)|pancreas(1)	9	Ovarian(185;0.0634)	all_epithelial(116;8.38e-23)|all_lung(118;5.87e-07)|Lung NSC(185;3.43e-06)|Renal(390;0.000219)|Breast(487;0.000307)|Colorectal(325;0.000615)|Hepatocellular(190;0.0088)|Myeloproliferative disorder(586;0.0303)|Ovarian(437;0.0388)		UCEC - Uterine corpus endometrioid carcinoma (279;0.101)|Colorectal(212;1.33e-05)|COAD - Colon adenocarcinoma(227;0.000235)|BRCA - Breast invasive adenocarcinoma(304;0.000864)|Kidney(185;0.00244)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0179)|READ - Rectum adenocarcinoma(331;0.133)		TCCACCACCCTCGACGGTGGC	0.597													35	104	---	---	---	---	PASS
FBXO2	26232	broad.mit.edu	37	1	11708778	11708778	+	Silent	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:11708778G>A	uc001asj.2	-	6	1206	c.864C>T	c.(862-864)ACC>ACT	p.T288T	FBXO2_uc009vna.2_Silent_p.T291T	NM_012168	NP_036300	Q9UK22	FBX2_HUMAN	F-box only protein 2	288	FBA.				glycoprotein catabolic process|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	cytosol|endoplasmic reticulum|membrane|microsome|SCF ubiquitin ligase complex	sugar binding|ubiquitin-protein ligase activity				0	Ovarian(185;0.249)	Lung NSC(185;9.37e-06)|all_lung(284;1.39e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|BRCA - Breast invasive adenocarcinoma(304;1.88e-06)|Colorectal(212;4.88e-06)|COAD - Colon adenocarcinoma(227;0.000241)|Kidney(185;0.000722)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.0072)|Lung(427;0.0146)|LUSC - Lung squamous cell carcinoma(448;0.0228)|READ - Rectum adenocarcinoma(331;0.0649)		CGCTGCTGTTGGTCACCCGGG	0.652													35	50	---	---	---	---	PASS
CSMD2	114784	broad.mit.edu	37	1	34076665	34076665	+	Missense_Mutation	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:34076665G>T	uc001bxn.1	-	41	6228	c.6199C>A	c.(6199-6201)CCA>ACA	p.P2067T	CSMD2_uc001bxm.1_Missense_Mutation_p.P2107T|CSMD2_uc001bxo.1_Missense_Mutation_p.P980T	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	2067	CUB 12.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				TTGAATCCTGGCCGATTCTGG	0.562													26	74	---	---	---	---	PASS
ATPAF1	64756	broad.mit.edu	37	1	47110897	47110897	+	Missense_Mutation	SNP	T	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:47110897T>A	uc001cqh.2	-	7	725	c.620A>T	c.(619-621)TAT>TTT	p.Y207F	ATPAF1_uc001cqg.2_Intron|ATPAF1_uc009vyk.2_Missense_Mutation_p.Y56F|ATPAF1_uc010omg.1_Missense_Mutation_p.Y119F|ATPAF1_uc001cqi.2_Intron	NM_022745	NP_073582	Q5TC12	ATPF1_HUMAN	ATP synthase mitochondrial F1 complex assembly	207					protein complex assembly	mitochondrion	protein binding				0	Acute lymphoblastic leukemia(166;0.155)					AAAAAACTCATAACCTTCCCT	0.403													90	291	---	---	---	---	PASS
ZFYVE9	9372	broad.mit.edu	37	1	52729506	52729506	+	Missense_Mutation	SNP	C	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:52729506C>G	uc001cto.2	+	5	2412	c.2240C>G	c.(2239-2241)GCT>GGT	p.A747G	ZFYVE9_uc001ctn.2_Missense_Mutation_p.A747G|ZFYVE9_uc001ctp.2_Missense_Mutation_p.A747G	NM_004799	NP_004790	O95405	ZFYV9_HUMAN	zinc finger, FYVE domain containing 9 isoform 3	747	FYVE-type.				endocytosis|SMAD protein complex assembly|SMAD protein import into nucleus|transforming growth factor beta receptor signaling pathway	early endosome membrane	metal ion binding|protein binding|receptor activity|serine-type peptidase activity			ovary(2)|lung(2)|central_nervous_system(2)|skin(2)	8						AGAAAGGAAGCTAGAGTGTGT	0.408													6	10	---	---	---	---	PASS
ZYG11B	79699	broad.mit.edu	37	1	53282232	53282232	+	Missense_Mutation	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:53282232G>T	uc001cuj.2	+	13	2170	c.1975G>T	c.(1975-1977)GGC>TGC	p.G659C	ZYG11B_uc009vzg.2_RNA|ZYG11B_uc010onj.1_Missense_Mutation_p.G580C|ZYG11B_uc009vzh.2_Missense_Mutation_p.G81C	NM_024646	NP_078922	Q9C0D3	ZY11B_HUMAN	zyg-11 homolog B	659							protein binding	p.G659S(1)		upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4						CCCATTACTTGGCTGTTTCAC	0.378													130	145	---	---	---	---	PASS
MYSM1	114803	broad.mit.edu	37	1	59133586	59133586	+	Missense_Mutation	SNP	T	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:59133586T>A	uc009wab.1	-	15	1798	c.1775A>T	c.(1774-1776)CAT>CTT	p.H592L	MYSM1_uc009waa.1_5'UTR|MYSM1_uc001czc.2_RNA	NM_001085487	NP_001078956	Q5VVJ2	MYSM1_HUMAN	Myb-like, SWIRM and MPN domains 1	592	MPN.				histone deubiquitination|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromatin remodeling complex	DNA binding|histone binding|metal ion binding|metallopeptidase activity|transcription coactivator activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			skin(1)	1	all_cancers(7;9.36e-06)					CATAGAAACATGAGCATGCTA	0.343													43	128	---	---	---	---	PASS
LEPR	3953	broad.mit.edu	37	1	66062217	66062217	+	Missense_Mutation	SNP	C	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:66062217C>T	uc001dci.2	+	7	992	c.790C>T	c.(790-792)CCA>TCA	p.P264S	LEPR_uc001dcg.2_Missense_Mutation_p.P264S|LEPR_uc001dch.2_Missense_Mutation_p.P264S|LEPR_uc009waq.2_Intron|LEPR_uc001dcj.2_Missense_Mutation_p.P264S|LEPR_uc001dck.2_Missense_Mutation_p.P264S	NM_002303	NP_002294	P48357	LEPR_HUMAN	leptin receptor isoform 1	264	Extracellular (Potential).|Fibronectin type-III 1.				energy reserve metabolic process|multicellular organismal development	extracellular region|integral to membrane|plasma membrane	cytokine receptor activity			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(397;0.00722)|KIRC - Kidney renal clear cell carcinoma(1967;0.094)		ACCATTGGTACCATTTCCACT	0.333													46	52	---	---	---	---	PASS
TNNI3K	51086	broad.mit.edu	37	1	74835185	74835185	+	Missense_Mutation	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:74835185G>T	uc001dgf.1	+	16	1634	c.1583G>T	c.(1582-1584)TGC>TTC	p.C528F	TNNI3K_uc001dgc.1_Missense_Mutation_p.C629F|TNNI3K_uc001dgd.2_Missense_Mutation_p.C629F|TNNI3K_uc001dge.1_Missense_Mutation_p.C629F	NM_015978	NP_057062	Q59H18	TNI3K_HUMAN	TNNI3 interacting kinase isoform b	528	Protein kinase.					cytoplasm|nucleus	ATP binding|metal ion binding|protein C-terminus binding|protein serine/threonine kinase activity|troponin I binding			large_intestine(4)|lung(3)|ovary(2)|upper_aerodigestive_tract(1)	10						GTGGGTGCTTGCTTGAATGAT	0.468													177	206	---	---	---	---	PASS
TNNI3K	51086	broad.mit.edu	37	1	74836041	74836041	+	Missense_Mutation	SNP	C	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:74836041C>G	uc001dgf.1	+	17	1788	c.1737C>G	c.(1735-1737)AAC>AAG	p.N579K	TNNI3K_uc001dgc.1_Missense_Mutation_p.N680K|TNNI3K_uc001dgd.2_Missense_Mutation_p.N680K|TNNI3K_uc001dge.1_Missense_Mutation_p.N680K	NM_015978	NP_057062	Q59H18	TNI3K_HUMAN	TNNI3 interacting kinase isoform b	579	Protein kinase.					cytoplasm|nucleus	ATP binding|metal ion binding|protein C-terminus binding|protein serine/threonine kinase activity|troponin I binding			large_intestine(4)|lung(3)|ovary(2)|upper_aerodigestive_tract(1)	10						ACCTTCACAACCTGACACAGC	0.343													72	97	---	---	---	---	PASS
TNNI3K	51086	broad.mit.edu	37	1	74929212	74929212	+	Missense_Mutation	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:74929212G>T	uc001dgf.1	+	21	2150	c.2099G>T	c.(2098-2100)CGA>CTA	p.R700L	TNNI3K_uc001dgd.2_Missense_Mutation_p.R801L|TNNI3K_uc001dge.1_Missense_Mutation_p.R801L	NM_015978	NP_057062	Q59H18	TNI3K_HUMAN	TNNI3 interacting kinase isoform b	700	Protein kinase.					cytoplasm|nucleus	ATP binding|metal ion binding|protein C-terminus binding|protein serine/threonine kinase activity|troponin I binding			large_intestine(4)|lung(3)|ovary(2)|upper_aerodigestive_tract(1)	10						CTGCTGATACGAGGGTGGAAC	0.438													98	245	---	---	---	---	PASS
USP33	23032	broad.mit.edu	37	1	78207376	78207376	+	Missense_Mutation	SNP	C	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:78207376C>T	uc001dht.2	-	3	447	c.100G>A	c.(100-102)GCT>ACT	p.A34T	USP33_uc001dhu.2_Missense_Mutation_p.A3T|USP33_uc001dhv.2_5'Flank|USP33_uc001dhw.2_Missense_Mutation_p.A34T	NM_015017	NP_055832	Q8TEY7	UBP33_HUMAN	ubiquitin specific protease 33 isoform 1	34					axon guidance|cell migration|endocytosis|protein K48-linked deubiquitination|protein K63-linked deubiquitination|regulation of G-protein coupled receptor protein signaling pathway|ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm|VCB complex	cysteine-type endopeptidase activity|G-protein-coupled receptor binding|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			lung(2)|ovary(1)	3						TTTCGAAAAGCTGACATTTTG	0.303													11	42	---	---	---	---	PASS
CCBL2	56267	broad.mit.edu	37	1	89418830	89418830	+	Silent	SNP	G	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:89418830G>C	uc001dmp.2	-	10	1247	c.870C>G	c.(868-870)GGC>GGG	p.G290G	CCBL2_uc001dmq.2_Silent_p.G256G|CCBL2_uc001dmr.2_Silent_p.G126G	NM_001008661	NP_001008661	Q6YP21	KAT3_HUMAN	kynurenine aminotransferase III isoform 1	290					biosynthetic process|kynurenine metabolic process|tryptophan catabolic process		cysteine-S-conjugate beta-lyase activity|kynurenine-glyoxylate transaminase activity|kynurenine-oxoglutarate transaminase activity|pyridoxal phosphate binding			ovary(1)	1		Lung NSC(277;0.123)		all cancers(265;0.0117)|Epithelial(280;0.0341)	L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	CAATGGACCAGCCAAGCTGGG	0.308													47	27	---	---	---	---	PASS
BARHL2	343472	broad.mit.edu	37	1	91182202	91182202	+	Missense_Mutation	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:91182202G>T	uc001dns.2	-	1	593	c.551C>A	c.(550-552)CCA>CAA	p.P184Q		NM_020063	NP_064447	Q9NY43	BARH2_HUMAN	BarH-like homeobox 2	184						nucleus	sequence-specific DNA binding			ovary(1)	1		all_lung(203;0.0263)|Lung SC(238;0.128)		all cancers(265;0.000897)|Epithelial(280;0.00516)|OV - Ovarian serous cystadenocarcinoma(397;0.211)		CTCGAGCTTTGGCCTGAAGCT	0.617													14	49	---	---	---	---	PASS
GSTM5	2949	broad.mit.edu	37	1	110260013	110260013	+	Silent	SNP	T	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:110260013T>C	uc001dyn.2	+	8	693	c.622T>C	c.(622-624)TTG>CTG	p.L208L	GSTM5_uc010ovu.1_3'UTR	NM_000851	NP_000842	P46439	GSTM5_HUMAN	glutathione S-transferase mu 5	208					xenobiotic metabolic process	endoplasmic reticulum membrane	glutathione transferase activity			central_nervous_system(6)	6		all_epithelial(167;2.5e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)|Breast(1374;0.244)		Colorectal(144;0.0131)|all cancers(265;0.0252)|Epithelial(280;0.0265)|Lung(183;0.0425)|COAD - Colon adenocarcinoma(174;0.0474)|LUSC - Lung squamous cell carcinoma(189;0.228)	Glutathione(DB00143)	CCGAGGTCTTTTGTTTGGAAA	0.552													119	108	---	---	---	---	PASS
RHOC	389	broad.mit.edu	37	1	113245681	113245681	+	Missense_Mutation	SNP	A	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:113245681A>C	uc001ecp.1	-	4	517	c.217T>G	c.(217-219)TCC>GCC	p.S73A	RHOC_uc001ecq.1_Missense_Mutation_p.S73A|RHOC_uc001ecr.1_Missense_Mutation_p.S73A|RHOC_uc009wgk.1_Missense_Mutation_p.S73A	NM_001042679	NP_001036144	P08134	RHOC_HUMAN	ras homolog gene family, member C precursor	73					axon guidance|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	GTP binding|GTPase activity|signal transducer activity			ovary(1)	1	Lung SC(450;0.246)	all_cancers(81;1.44e-07)|all_epithelial(167;7.64e-07)|all_lung(203;2.16e-05)|Lung NSC(69;3.86e-05)		Lung(183;0.0234)|all cancers(265;0.0246)|Epithelial(280;0.0342)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		TCCGGGTAGGAGAGAGGCCGC	0.612													50	184	---	---	---	---	PASS
SPTA1	6708	broad.mit.edu	37	1	158617400	158617400	+	Silent	SNP	C	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:158617400C>T	uc001fst.1	-	27	4024	c.3825G>A	c.(3823-3825)CAG>CAA	p.Q1275Q		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1275	Spectrin 12.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					TTGTACGCCCCTGCAGGTCTT	0.557													78	197	---	---	---	---	PASS
OR6K3	391114	broad.mit.edu	37	1	158687140	158687140	+	Missense_Mutation	SNP	G	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:158687140G>C	uc010pip.1	-	1	814	c.814C>G	c.(814-816)CTC>GTC	p.L272V		NM_001005327	NP_001005327	Q8NGY3	OR6K3_HUMAN	olfactory receptor, family 6, subfamily K,	272	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	all_hematologic(112;0.0378)					AAGTACATGAGTGATACACTG	0.448													47	167	---	---	---	---	PASS
OR6K6	128371	broad.mit.edu	37	1	158724916	158724916	+	Missense_Mutation	SNP	C	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:158724916C>T	uc001fsw.1	+	1	311	c.311C>T	c.(310-312)ACC>ATC	p.T104I		NM_001005184	NP_001005184	Q8NGW6	OR6K6_HUMAN	olfactory receptor, family 6, subfamily K,	104	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_hematologic(112;0.0378)					TATACCACAACCACCATCCCC	0.493													83	324	---	---	---	---	PASS
ASTN1	460	broad.mit.edu	37	1	176999931	176999931	+	Intron	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:176999931G>T	uc001glc.2	-						ASTN1_uc001glb.1_Intron|ASTN1_uc001gld.1_Intron|ASTN1_uc009wwx.1_Intron|ASTN1_uc001gle.3_Intron|MIR488_hsa-mir-488|MI0003123_5'Flank	NM_004319	NP_004310	O14525	ASTN1_HUMAN	astrotactin isoform 1						cell migration|neuron cell-cell adhesion	integral to membrane				ovary(6)|skin(5)|central_nervous_system(2)|large_intestine(1)|lung(1)	15						CCTAATGTCAGACATGCATAC	0.433													71	78	---	---	---	---	PASS
TDRD5	163589	broad.mit.edu	37	1	179609107	179609107	+	Missense_Mutation	SNP	G	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:179609107G>C	uc001gnf.1	+	10	1904	c.1654G>C	c.(1654-1656)GAG>CAG	p.E552Q	TDRD5_uc010pnp.1_Missense_Mutation_p.E552Q|TDRD5_uc001gnh.1_Missense_Mutation_p.E107Q	NM_173533	NP_775804	Q8NAT2	TDRD5_HUMAN	tudor domain containing 5	552	Tudor.				DNA methylation involved in gamete generation|P granule organization|spermatid development	chromatoid body|pi-body	nucleic acid binding			ovary(2)|skin(2)|central_nervous_system(1)	5						TCGAGTCCTTGAGAAACAGGA	0.413													274	317	---	---	---	---	PASS
NCF2	4688	broad.mit.edu	37	1	183525256	183525256	+	Silent	SNP	G	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:183525256G>C	uc001gqj.3	-	15	1853	c.1578C>G	c.(1576-1578)GTC>GTG	p.V526V	NCF2_uc010pod.1_Silent_p.V481V|NCF2_uc010poe.1_Silent_p.V445V|NCF2_uc001gqk.3_Silent_p.V526V	NM_000433	NP_000424	P19878	NCF2_HUMAN	neutrophil cytosolic factor 2	526					cellular defense response|innate immune response|respiratory burst|superoxide anion generation	NADPH oxidase complex|nucleolus	electron carrier activity|protein C-terminus binding			ovary(3)	3						AAACATCCTAGACTTCTCTCC	0.423													34	119	---	---	---	---	PASS
CFHR3	10878	broad.mit.edu	37	1	196757463	196757463	+	Missense_Mutation	SNP	A	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:196757463A>G	uc001gtl.2	+	4	635	c.548A>G	c.(547-549)GAT>GGT	p.D183G	CFHR3_uc001gtk.2_Missense_Mutation_p.D183G|CFHR3_uc010poy.1_Intron|CFHR1_uc001gtm.2_Intron	NM_021023	NP_066303	Q02985	FHR3_HUMAN	complement factor H-related 3 precursor	183	Sushi 3.					extracellular space					0						GCAACAGCAGATGGAAATTCT	0.294													78	276	---	---	---	---	PASS
LHX9	56956	broad.mit.edu	37	1	197886948	197886948	+	5'UTR	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:197886948G>T	uc001guk.1	+	1					LHX9_uc009wzc.1_Intron|LHX9_uc001gui.1_Intron|LHX9_uc001guj.1_Intron	NM_020204	NP_064589	Q9NQ69	LHX9_HUMAN	LIM homeobox 9 isoform 1						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						CCCCGGGCGTGTGTATATGGA	0.607													51	174	---	---	---	---	PASS
CR2	1380	broad.mit.edu	37	1	207646142	207646142	+	Silent	SNP	T	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:207646142T>A	uc001hfw.2	+	10	1690	c.1596T>A	c.(1594-1596)GTT>GTA	p.V532V	CR2_uc001hfv.2_Silent_p.V532V|CR2_uc009xch.2_Silent_p.V532V|CR2_uc009xci.1_Silent_p.V17V	NM_001877	NP_001868	P20023	CR2_HUMAN	complement component (3d/Epstein Barr virus)	532	Sushi 9.|Extracellular (Potential).				complement activation, classical pathway|innate immune response	integral to membrane|plasma membrane	complement receptor activity|protein homodimerization activity			upper_aerodigestive_tract(3)|skin(3)|urinary_tract(1)|ovary(1)	8						CACCCCCTGTTATCTACAATG	0.448													64	84	---	---	---	---	PASS
USH2A	7399	broad.mit.edu	37	1	216373338	216373338	+	Missense_Mutation	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:216373338G>T	uc001hku.1	-	17	3829	c.3442C>A	c.(3442-3444)CCA>ACA	p.P1148T	USH2A_uc001hkv.2_Missense_Mutation_p.P1148T	NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	1148	Extracellular (Potential).|Fibronectin type-III 2.				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TTTCCCTCTGGGACCCCTGGT	0.418										HNSCC(13;0.011)			132	221	---	---	---	---	PASS
GPATCH2	55105	broad.mit.edu	37	1	217793767	217793767	+	Missense_Mutation	SNP	C	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:217793767C>T	uc001hlf.1	-	2	227	c.131G>A	c.(130-132)CGA>CAA	p.R44Q	GPATCH2_uc001hlg.3_Missense_Mutation_p.R44Q	NM_018040	NP_060510	Q9NW75	GPTC2_HUMAN	G patch domain containing 2	44						intracellular	nucleic acid binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0397)|all cancers(67;0.0744)|GBM - Glioblastoma multiforme(131;0.0872)		AAATCCACCTCGAGCTTGCTC	0.453													137	227	---	---	---	---	PASS
DISP1	84976	broad.mit.edu	37	1	223177328	223177328	+	Missense_Mutation	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:223177328G>T	uc001hnu.1	+	8	2736	c.2589G>T	c.(2587-2589)CAG>CAT	p.Q863H		NM_032890	NP_116279	Q96F81	DISP1_HUMAN	dispatched A	863					diaphragm development|protein homotrimerization|regulation of protein secretion|smoothened signaling pathway	basolateral plasma membrane|integral to membrane	hedgehog receptor activity|peptide transporter activity				0				GBM - Glioblastoma multiforme(131;0.102)		TGGAAAACCAGGACTGTGATG	0.463													79	125	---	---	---	---	PASS
NID1	4811	broad.mit.edu	37	1	236189372	236189372	+	Missense_Mutation	SNP	C	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:236189372C>T	uc001hxo.2	-	8	1910	c.1808G>A	c.(1807-1809)CGC>CAC	p.R603H	NID1_uc009xgd.2_Missense_Mutation_p.R603H	NM_002508	NP_002499	P14543	NID1_HUMAN	nidogen 1 precursor	603	Nidogen G2 beta-barrel.				cell-matrix adhesion	basement membrane	calcium ion binding			large_intestine(1)|pancreas(1)	2	Ovarian(103;0.0544)|Breast(184;0.23)	all_cancers(173;0.00491)|Prostate(94;0.184)|Acute lymphoblastic leukemia(190;0.229)	OV - Ovarian serous cystadenocarcinoma(106;0.00162)		Becaplermin(DB00102)|Urokinase(DB00013)	AGTGTAGATGCGTGAAGGAGA	0.622													111	184	---	---	---	---	PASS
RYR2	6262	broad.mit.edu	37	1	237947185	237947185	+	Missense_Mutation	SNP	A	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:237947185A>T	uc001hyl.1	+	90	12293	c.12173A>T	c.(12172-12174)TAC>TTC	p.Y4058F	RYR2_uc010pya.1_Missense_Mutation_p.Y473F	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	4058	EF-hand.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			CATAAGCACTACACGCAGTCA	0.478													26	43	---	---	---	---	PASS
RYR2	6262	broad.mit.edu	37	1	237947838	237947838	+	Missense_Mutation	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:237947838G>T	uc001hyl.1	+	90	12946	c.12826G>T	c.(12826-12828)GTG>TTG	p.V4276L	RYR2_uc010pya.1_Missense_Mutation_p.V691L	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	4276					cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			AAAGATGACCGTGAAGGACAT	0.468													44	80	---	---	---	---	PASS
FMN2	56776	broad.mit.edu	37	1	240370901	240370901	+	Missense_Mutation	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:240370901G>T	uc010pyd.1	+	5	3014	c.2789G>T	c.(2788-2790)GGC>GTC	p.G930V	FMN2_uc010pye.1_Missense_Mutation_p.G934V	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	930	Pro-rich.|FH1.				actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			CCCGGAGCAGGCATACTCCCT	0.697													86	131	---	---	---	---	PASS
RGS7	6000	broad.mit.edu	37	1	241146429	241146429	+	Missense_Mutation	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:241146429C>A	uc001hyv.2	-	4	506	c.176G>T	c.(175-177)GGT>GTT	p.G59V	RGS7_uc010pyh.1_Missense_Mutation_p.G33V|RGS7_uc010pyj.1_5'UTR|RGS7_uc001hyu.2_Missense_Mutation_p.G59V|RGS7_uc009xgn.1_Missense_Mutation_p.G59V|RGS7_uc001hyw.2_Missense_Mutation_p.G59V	NM_002924	NP_002915	P49802	RGS7_HUMAN	regulator of G-protein signaling 7	59	DEP.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|protein binding|signal transducer activity			ovary(4)|skin(2)|kidney(1)	7		all_cancers(173;0.0131)	OV - Ovarian serous cystadenocarcinoma(106;0.027)			AATGTCTGAACCTAGAAAAAG	0.289													16	19	---	---	---	---	PASS
RGS7	6000	broad.mit.edu	37	1	241146430	241146430	+	Splice_Site	SNP	C	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:241146430C>T	uc001hyv.2	-	4	506	c.176_splice	c.e4-1	p.G59_splice	RGS7_uc010pyh.1_Splice_Site_p.G33_splice|RGS7_uc010pyj.1_Splice_Site|RGS7_uc001hyu.2_Splice_Site_p.G59_splice|RGS7_uc009xgn.1_Splice_Site_p.G59_splice|RGS7_uc001hyw.2_Splice_Site_p.G59_splice	NM_002924	NP_002915	P49802	RGS7_HUMAN	regulator of G-protein signaling 7						G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|protein binding|signal transducer activity			ovary(4)|skin(2)|kidney(1)	7		all_cancers(173;0.0131)	OV - Ovarian serous cystadenocarcinoma(106;0.027)			ATGTCTGAACCTAGAAAAAGA	0.294													16	17	---	---	---	---	PASS
FH	2271	broad.mit.edu	37	1	241663881	241663881	+	Missense_Mutation	SNP	C	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:241663881C>G	uc001hyx.2	-	9	1278	c.1246G>C	c.(1246-1248)GTG>CTG	p.V416L		NM_000143	NP_000134	P07954	FUMH_HUMAN	fumarate hydratase precursor	416					fumarate metabolic process|tricarboxylic acid cycle	cell junction|mitochondrial matrix|tricarboxylic acid cycle enzyme complex	fumarate hydratase activity	p.V416M(1)		lung(3)|ovary(1)|skin(1)	5	Ovarian(103;0.103)	all_cancers(173;2.37e-314)|all_epithelial(177;5.17e-286)|Breast(1374;1.06e-10)|Acute lymphoblastic leukemia(190;4.93e-10)|all_neural(198;0.00118)	OV - Ovarian serous cystadenocarcinoma(106;0.0214)	Colorectal(1306;2.33e-53)|COAD - Colon adenocarcinoma(196;1.05e-44)|KIRC - Kidney renal clear cell carcinoma(1967;0.000109)		GAGTGTAACACATTTTTAATC	0.308			Mis|N|F			lieomyomatosis|renal			Hereditary_Leiomyomatosis_and_Renal_Cell_Cancer				80	125	---	---	---	---	PASS
CHML	1122	broad.mit.edu	37	1	241798599	241798599	+	Missense_Mutation	SNP	T	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:241798599T>G	uc001hzd.2	-	1	634	c.470A>C	c.(469-471)CAC>CCC	p.H157P	OPN3_uc001hza.2_Intron|OPN3_uc001hzb.2_Intron|OPN3_uc001hzc.2_Intron	NM_001821	NP_001812	P26374	RAE2_HUMAN	choroideremia-like Rab escort protein 2	157					intracellular protein transport|visual perception	Rab-protein geranylgeranyltransferase complex	GTPase activator activity|Rab geranylgeranyltransferase activity			ovary(4)|skin(2)	6	Ovarian(103;0.103)|all_lung(81;0.23)	all_cancers(173;0.0231)	OV - Ovarian serous cystadenocarcinoma(106;0.0125)			TTTCTGAGTGTGTTTTGCAGG	0.388													101	513	---	---	---	---	PASS
EXO1	9156	broad.mit.edu	37	1	242045216	242045216	+	Splice_Site	SNP	A	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:242045216A>G	uc001hzh.2	+	14	2650	c.2110_splice	c.e14-2	p.E704_splice	EXO1_uc001hzi.2_Splice_Site_p.E704_splice|EXO1_uc001hzj.2_Splice_Site_p.E704_splice|EXO1_uc009xgq.2_Splice_Site_p.E703_splice	NM_130398	NP_569082	Q9UQ84	EXO1_HUMAN	exonuclease 1 isoform b						meiosis|mismatch repair	nucleus	double-stranded DNA specific 5'-3' exodeoxyribonuclease activity|flap endonuclease activity|metal ion binding|protein binding|protein binding|ribonuclease H activity|single-stranded DNA specific 5'-3' exodeoxyribonuclease activity			ovary(2)|lung(2)|skin(1)	5	Ovarian(103;0.103)	all_cancers(173;0.0555)	OV - Ovarian serous cystadenocarcinoma(106;0.0107)			TGGGGACTCTAGGAATCTGAT	0.303								Direct_reversal_of_damage|Editing_and_processing_nucleases					45	63	---	---	---	---	PASS
EFCAB2	84288	broad.mit.edu	37	1	245245373	245245373	+	Intron	SNP	T	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:245245373T>C	uc001ibd.2	+						EFCAB2_uc001ibc.2_Intron|EFCAB2_uc010pyo.1_Intron|EFCAB2_uc010pyp.1_Intron|EFCAB2_uc001ibe.2_Intron	NR_026586		Q5VUJ9	EFCB2_HUMAN	RecName: Full=EF-hand calcium-binding domain-containing protein 2;								calcium ion binding				0	all_cancers(71;2.93e-06)|all_epithelial(71;2.13e-05)|all_lung(81;0.0337)|Lung NSC(105;0.0472)|Ovarian(71;0.0584)|Breast(184;0.0716)|all_neural(11;0.0982)		OV - Ovarian serous cystadenocarcinoma(106;0.015)			TATTTACTTATTGAATGTTTA	0.199													76	71	---	---	---	---	PASS
NLRP3	114548	broad.mit.edu	37	1	247599422	247599422	+	Missense_Mutation	SNP	G	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:247599422G>C	uc001icr.2	+	8	2787	c.2649G>C	c.(2647-2649)CAG>CAC	p.Q883H	NLRP3_uc001ics.2_Intron|NLRP3_uc001icu.2_Missense_Mutation_p.Q883H|NLRP3_uc001icw.2_Missense_Mutation_p.Q826H|NLRP3_uc001icv.2_Intron|NLRP3_uc010pyw.1_Missense_Mutation_p.Q861H	NM_001079821	NP_001073289	Q96P20	NALP3_HUMAN	NLR family, pyrin domain containing 3 isoform a	883					detection of biotic stimulus|induction of apoptosis|inflammatory response|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|positive regulation of interleukin-1 beta secretion|protein oligomerization|signal transduction	cytoplasm	ATP binding|peptidoglycan binding|protein binding			lung(8)|skin(8)|ovary(7)|upper_aerodigestive_tract(1)|breast(1)|pancreas(1)	26	all_cancers(71;9.66e-05)|all_epithelial(71;1.85e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.0172)	OV - Ovarian serous cystadenocarcinoma(106;0.0141)			AGAATCCACAGTGTAACCTGC	0.448													57	87	---	---	---	---	PASS
OR2M3	127062	broad.mit.edu	37	1	248366559	248366559	+	Missense_Mutation	SNP	A	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:248366559A>T	uc010pzg.1	+	1	190	c.190A>T	c.(190-192)AGC>TGC	p.S64C		NM_001004689	NP_001004689	Q8NG83	OR2M3_HUMAN	olfactory receptor, family 2, subfamily M,	64	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			CCTCCTCCTCAGCCAACTGTC	0.547													394	505	---	---	---	---	PASS
OR2T4	127074	broad.mit.edu	37	1	248525095	248525095	+	Missense_Mutation	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:248525095G>T	uc001ieh.1	+	1	213	c.213G>T	c.(211-213)TTG>TTT	p.L71F		NM_001004696	NP_001004696	Q8NH00	OR2T4_HUMAN	olfactory receptor, family 2, subfamily T,	71	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TGATGGCGTTGTCTGGAAATG	0.473													284	478	---	---	---	---	PASS
OR2T1	26696	broad.mit.edu	37	1	248569700	248569700	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:248569700C>A	uc010pzm.1	+	1	405	c.405C>A	c.(403-405)TAC>TAA	p.Y135*		NM_030904	NP_112166	O43869	OR2T1_HUMAN	olfactory receptor, family 2, subfamily T,	135	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TGGTTAATTACCTGCTGGATC	0.468													219	389	---	---	---	---	PASS
OR2T2	401992	broad.mit.edu	37	1	248616203	248616203	+	Missense_Mutation	SNP	C	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:248616203C>G	uc001iek.1	+	1	105	c.105C>G	c.(103-105)ATC>ATG	p.I35M		NM_001004136	NP_001004136	Q6IF00	OR2T2_HUMAN	olfactory receptor, family 2, subfamily T,	35	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TCTTCTCCATCTTTGTGGTGG	0.532													112	488	---	---	---	---	PASS
IFT172	26160	broad.mit.edu	37	2	27706745	27706745	+	Missense_Mutation	SNP	T	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:27706745T>A	uc002rku.2	-	5	447	c.396A>T	c.(394-396)GAA>GAT	p.E132D	IFT172_uc002rkw.2_Missense_Mutation_p.E132D|IFT172_uc010yls.1_Missense_Mutation_p.E111D|IFT172_uc010ezc.2_Missense_Mutation_p.E132D|IFT172_uc002rkv.2_Missense_Mutation_p.E132D	NM_015662	NP_056477	Q9UG01	IF172_HUMAN	selective LIM binding factor homolog	132	WD 3.				cilium assembly	cilium	binding			large_intestine(1)|ovary(1)	2	Acute lymphoblastic leukemia(172;0.155)					TTACCTTCCCTTCAGCCAGTC	0.468													66	85	---	---	---	---	PASS
FSHR	2492	broad.mit.edu	37	2	49195829	49195829	+	Intron	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:49195829G>T	uc002rww.2	-						FSHR_uc002rwx.2_Intron|FSHR_uc010fbn.2_Intron	NM_000145	NP_000136	P23945	FSHR_HUMAN	follicle stimulating hormone receptor isoform 1						female gamete generation|male gonad development|spermatogenesis	integral to membrane|plasma membrane	follicle-stimulating hormone receptor activity|protein binding			ovary(4)|lung(2)|central_nervous_system(1)|skin(1)	8		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.181)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Choriogonadotropin alfa(DB00097)|Follitropin beta(DB00066)|Menotropins(DB00032)|Urofollitropin(DB00094)	CTTAAAGGATGGACTCACATT	0.493									Gonadal_Dysgenesis_46_XX				61	58	---	---	---	---	PASS
USP34	9736	broad.mit.edu	37	2	61463468	61463468	+	Silent	SNP	T	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:61463468T>C	uc002sbe.2	-	54	6856	c.6834A>G	c.(6832-6834)ACA>ACG	p.T2278T	USP34_uc002sbf.2_Silent_p.T428T	NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	2278					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			ACCCAAAATATGTATGTTCAA	0.239													10	27	---	---	---	---	PASS
TGFA	7039	broad.mit.edu	37	2	70742029	70742029	+	Missense_Mutation	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:70742029G>A	uc002sgs.3	-	2	262	c.56C>T	c.(55-57)GCG>GTG	p.A19V	TGFA_uc010fdq.2_Missense_Mutation_p.A25V|TGFA_uc010fdr.2_Missense_Mutation_p.A25V|TGFA_uc002sgt.3_Missense_Mutation_p.A19V|TGFA_uc002sgu.2_Missense_Mutation_p.A19V|TGFA_uc002sgv.2_Missense_Mutation_p.A19V|TGFA_uc002sgw.2_Missense_Mutation_p.A19V	NM_003236	NP_003227	P01135	TGFA_HUMAN	transforming growth factor, alpha isoform 1	19					activation of MAPK activity|cell proliferation|positive regulation of cell division|positive regulation of epidermal growth factor receptor activity|positive regulation of epithelial cell proliferation|positive regulation of mitosis	cell surface|extracellular space|integral to membrane|plasma membrane	epidermal growth factor receptor binding|growth factor activity|MAP kinase kinase activity|signal transducer activity			prostate(1)	1						GGCCTGGCACGCAGCCAACAC	0.597													13	40	---	---	---	---	PASS
ALMS1	7840	broad.mit.edu	37	2	73677452	73677452	+	Silent	SNP	A	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:73677452A>T	uc002sje.1	+	10	3912	c.3801A>T	c.(3799-3801)TCA>TCT	p.S1267S	ALMS1_uc002sjf.1_Silent_p.S1223S|ALMS1_uc002sjg.2_Silent_p.S653S|ALMS1_uc002sjh.1_Silent_p.S653S	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	1265	16.|34 X 47 AA approximate tandem repeat.				G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						TGAAAATTTCAGTTGCCTCTG	0.453													72	170	---	---	---	---	PASS
REG1B	5968	broad.mit.edu	37	2	79314031	79314031	+	Silent	SNP	A	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:79314031A>T	uc002sny.2	-	3	202	c.90T>A	c.(88-90)CCT>CCA	p.P30P	REG1B_uc010ffv.1_Silent_p.P30P|REG1B_uc010ffw.2_Silent_p.P30P	NM_006507	NP_006498	P48304	REG1B_HUMAN	regenerating islet-derived 1 beta precursor	30					cell proliferation	extracellular region	sugar binding			central_nervous_system(1)|skin(1)	2						TTCGGGGATTAGGCAGCTCTG	0.498													49	305	---	---	---	---	PASS
REG1B	5968	broad.mit.edu	37	2	79314032	79314032	+	Missense_Mutation	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:79314032G>T	uc002sny.2	-	3	201	c.89C>A	c.(88-90)CCT>CAT	p.P30H	REG1B_uc010ffv.1_Missense_Mutation_p.P30H|REG1B_uc010ffw.2_Missense_Mutation_p.P30H	NM_006507	NP_006498	P48304	REG1B_HUMAN	regenerating islet-derived 1 beta precursor	30					cell proliferation	extracellular region	sugar binding			central_nervous_system(1)|skin(1)	2						TCGGGGATTAGGCAGCTCTGT	0.493													55	305	---	---	---	---	PASS
REG1B	5968	broad.mit.edu	37	2	79314033	79314033	+	Missense_Mutation	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:79314033G>A	uc002sny.2	-	3	200	c.88C>T	c.(88-90)CCT>TCT	p.P30S	REG1B_uc010ffv.1_Missense_Mutation_p.P30S|REG1B_uc010ffw.2_Missense_Mutation_p.P30S	NM_006507	NP_006498	P48304	REG1B_HUMAN	regenerating islet-derived 1 beta precursor	30					cell proliferation	extracellular region	sugar binding			central_nervous_system(1)|skin(1)	2						CGGGGATTAGGCAGCTCTGTC	0.498													51	300	---	---	---	---	PASS
RNF103	7844	broad.mit.edu	37	2	86831828	86831828	+	Missense_Mutation	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:86831828G>T	uc002srn.2	-	4	2165	c.1196C>A	c.(1195-1197)ACA>AAA	p.T399K	VPS24_uc010ytl.1_Intron|RNF103_uc002srm.2_Missense_Mutation_p.T260K|uc002sro.2_Intron	NM_005667	NP_005658	O00237	RN103_HUMAN	ring finger protein 103	399					central nervous system development|ER-associated protein catabolic process	endoplasmic reticulum membrane|integral to membrane	protein binding|ubiquitin-protein ligase activity|zinc ion binding			central_nervous_system(1)	1						CAGTGTGGTTGTATTGGAATA	0.383													31	107	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	2	90139450	90139450	+	RNA	SNP	C	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:90139450C>G	uc010fhm.2	+	18		c.2243C>G								Parts of antibodies, mostly variable regions.																		TATGCTGCATCCAGTTTGCAA	0.522													86	285	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	2	90193270	90193270	+	RNA	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:90193270C>A	uc010fhm.2	+	22		c.2860C>A								Parts of antibodies, mostly variable regions.																		GGGAAAGCTCCTAAGCTCCTG	0.527													71	331	---	---	---	---	PASS
TMEM87B	84910	broad.mit.edu	37	2	112858218	112858218	+	Missense_Mutation	SNP	A	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:112858218A>G	uc002thm.2	+	15	1765	c.1396A>G	c.(1396-1398)ATA>GTA	p.I466V		NM_032824	NP_116213	Q96K49	TM87B_HUMAN	transmembrane protein 87B precursor	466						integral to membrane					0						CATGCCCTTAATAGATGATTC	0.279													27	88	---	---	---	---	PASS
PSD4	23550	broad.mit.edu	37	2	113943638	113943638	+	Silent	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:113943638C>A	uc002tjc.2	+	5	1617	c.1434C>A	c.(1432-1434)GGC>GGA	p.G478G	PSD4_uc002tjd.2_Silent_p.G99G|PSD4_uc002tje.2_Silent_p.G449G|PSD4_uc002tjf.2_Silent_p.G99G	NM_012455	NP_036587	Q8NDX1	PSD4_HUMAN	pleckstrin and Sec7 domain containing 4	478					regulation of ARF protein signal transduction	cytoplasm|plasma membrane	ARF guanyl-nucleotide exchange factor activity			ovary(2)	2						ACAGCTCAGGCATTTTGCCCA	0.592													73	82	---	---	---	---	PASS
DPP10	57628	broad.mit.edu	37	2	116548755	116548755	+	Nonsense_Mutation	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:116548755G>T	uc002tla.1	+	18	2087	c.1630G>T	c.(1630-1632)GAA>TAA	p.E544*	DPP10_uc002tlb.1_Nonsense_Mutation_p.E494*|DPP10_uc002tlc.1_Nonsense_Mutation_p.E540*|DPP10_uc002tle.2_Nonsense_Mutation_p.E548*|DPP10_uc002tlf.1_Nonsense_Mutation_p.E537*	NM_020868	NP_065919	Q8N608	DPP10_HUMAN	dipeptidyl peptidase 10 isoform long	544	Extracellular (Potential).				proteolysis	integral to membrane|membrane fraction	serine-type peptidase activity			ovary(5)|large_intestine(2)|skin(2)|breast(1)	10						TGACGACTATGGTAAAATTTT	0.323													20	70	---	---	---	---	PASS
PTPN18	26469	broad.mit.edu	37	2	131130789	131130789	+	Missense_Mutation	SNP	C	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:131130789C>T	uc002trc.2	+	15	1476	c.1375C>T	c.(1375-1377)CGG>TGG	p.R459W	PTPN18_uc002trd.2_Missense_Mutation_p.R438W|PTPN18_uc002trb.2_Missense_Mutation_p.R352W|PTPN18_uc002tre.2_Missense_Mutation_p.R110W	NM_014369	NP_055184	Q99952	PTN18_HUMAN	protein tyrosine phosphatase, non-receptor type	459						cytoplasm|nucleus	non-membrane spanning protein tyrosine phosphatase activity			ovary(3)|kidney(1)	4	Colorectal(110;0.1)					TGAGTGGACCCGGGTGTAAGT	0.622													12	25	---	---	---	---	PASS
LRP1B	53353	broad.mit.edu	37	2	140990892	140990892	+	Missense_Mutation	SNP	T	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:140990892T>C	uc002tvj.1	-	91	14635	c.13663A>G	c.(13663-13665)ACA>GCA	p.T4555A		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	4555	Cytoplasmic (Potential).				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		GAGTAATTTGTTGGCTGAAGG	0.328										TSP Lung(27;0.18)			16	45	---	---	---	---	PASS
LRP1B	53353	broad.mit.edu	37	2	141202129	141202129	+	Intron	SNP	T	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:141202129T>A	uc002tvj.1	-							NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B						protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		TTTAATCACCTACCACAGTTG	0.388										TSP Lung(27;0.18)			88	128	---	---	---	---	PASS
KCNJ3	3760	broad.mit.edu	37	2	155711826	155711826	+	3'UTR	SNP	C	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:155711826C>G	uc002tyv.1	+	3					KCNJ3_uc010zce.1_3'UTR	NM_002239	NP_002230	P48549	IRK3_HUMAN	potassium inwardly-rectifying channel J3						synaptic transmission	voltage-gated potassium channel complex	G-protein activated inward rectifier potassium channel activity|protein binding			upper_aerodigestive_tract(1)|pancreas(1)	2					Halothane(DB01159)	CTTCACATAACAAAGCACTCC	0.388													7	7	---	---	---	---	PASS
SLC4A10	57282	broad.mit.edu	37	2	162820642	162820642	+	Intron	SNP	T	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:162820642T>C	uc002ubx.3	+						SLC4A10_uc002uby.3_Intron|SLC4A10_uc010zcs.1_Intron	NM_022058	NP_071341	Q6U841	S4A10_HUMAN	solute carrier family 4, sodium bicarbonate						bicarbonate transport|chloride transport|sodium ion transport	integral to membrane|plasma membrane	inorganic anion exchanger activity|symporter activity			ovary(2)|lung(2)|pancreas(1)	5						TTTAATCTTTTAGTTCTTTGA	0.348													9	21	---	---	---	---	PASS
KCNH7	90134	broad.mit.edu	37	2	163693071	163693071	+	Missense_Mutation	SNP	C	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:163693071C>T	uc002uch.1	-	2	495	c.283G>A	c.(283-285)GAG>AAG	p.E95K	KCNH7_uc002uci.2_Missense_Mutation_p.E95K	NM_033272	NP_150375	Q9NS40	KCNH7_HUMAN	potassium voltage-gated channel, subfamily H,	95	Cytoplasmic (Potential).|PAC.				regulation of transcription, DNA-dependent	integral to membrane	protein binding|signal transducer activity			ovary(3)|skin(2)	5					Ibutilide(DB00308)	TAGGTGACCTCCACTTTCCTC	0.418													24	90	---	---	---	---	PASS
TTC21B	79809	broad.mit.edu	37	2	166773802	166773802	+	Missense_Mutation	SNP	C	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:166773802C>G	uc002udk.2	-	14	1997	c.1864G>C	c.(1864-1866)GAA>CAA	p.E622Q		NM_024753	NP_079029	Q7Z4L5	TT21B_HUMAN	tetratricopeptide repeat domain 21B	622	TPR 8.					cilium axoneme|cytoplasm|cytoskeleton	binding			ovary(2)|pancreas(2)|breast(1)	5						TCTATCAATTCAAGAAAGATC	0.358													77	139	---	---	---	---	PASS
XIRP2	129446	broad.mit.edu	37	2	168100236	168100236	+	Silent	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:168100236G>T	uc002udx.2	+	8	2352	c.2334G>T	c.(2332-2334)CCG>CCT	p.P778P	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Silent_p.P603P|XIRP2_uc010fpq.2_Silent_p.P556P|XIRP2_uc010fpr.2_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	603	Xin 7.				actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						AAACACAGCCGTTGGACACAA	0.413													83	40	---	---	---	---	PASS
WDR75	84128	broad.mit.edu	37	2	190340027	190340027	+	Missense_Mutation	SNP	C	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:190340027C>G	uc002uql.1	+	21	2437	c.2377C>G	c.(2377-2379)CAG>GAG	p.Q793E	WDR75_uc002uqm.1_Missense_Mutation_p.Q729E|WDR75_uc002uqn.1_Missense_Mutation_p.Q571E|WDR75_uc002uqo.1_Missense_Mutation_p.Q571E	NM_032168	NP_115544	Q8IWA0	WDR75_HUMAN	WD repeat domain 75	793						nucleolus				ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.00105)|Epithelial(96;0.0129)|all cancers(119;0.0456)			CGAAAAAGTCCAGGATACAAG	0.318													90	17	---	---	---	---	PASS
STK36	27148	broad.mit.edu	37	2	219540970	219540970	+	Missense_Mutation	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:219540970G>A	uc002viu.2	+	6	919	c.653G>A	c.(652-654)CGC>CAC	p.R218H	STK36_uc002viv.2_Missense_Mutation_p.R218H	NM_015690	NP_056505	Q9NRP7	STK36_HUMAN	serine/threonine kinase 36	218	Protein kinase.				cilium assembly|positive regulation of hh target transcription factor activity|positive regulation of smoothened signaling pathway|post-embryonic development	aggresome|cytoplasm|focal adhesion|intermediate filament cytoskeleton|nucleus	ATP binding|protein serine/threonine kinase activity|transcription factor binding			ovary(4)|stomach(2)|lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)	11		Renal(207;0.0915)		Epithelial(149;9.65e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.00813)|Lung(261;0.00984)		GACCCTGTGCGCTGGCCCTCA	0.458													61	33	---	---	---	---	PASS
FAM124B	79843	broad.mit.edu	37	2	225266379	225266379	+	Missense_Mutation	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:225266379C>A	uc002vnx.2	-	1	333	c.107G>T	c.(106-108)TGC>TTC	p.C36F	FAM124B_uc002vnw.2_Missense_Mutation_p.C36F	NM_001122779	NP_001116251	Q9H5Z6	F124B_HUMAN	hypothetical protein LOC79843 isoform a	36							protein binding			ovary(2)	2		Renal(207;0.0112)|all_lung(227;0.0126)|Lung NSC(271;0.0161)|all_hematologic(139;0.138)		Epithelial(121;4.4e-10)|all cancers(144;2.02e-07)|Lung(261;0.00766)|LUSC - Lung squamous cell carcinoma(224;0.00825)		GACCTCTGGGCAAATGCAATC	0.577													25	26	---	---	---	---	PASS
COL4A4	1286	broad.mit.edu	37	2	227907909	227907909	+	Intron	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:227907909G>T	uc010zlt.1	-							NM_000092	NP_000083	P53420	CO4A4_HUMAN	alpha 4 type IV collagen precursor						axon guidance|glomerular basement membrane development	basal lamina|collagen type IV	extracellular matrix structural constituent|protein binding			ovary(5)|central_nervous_system(3)|pancreas(1)|breast(1)|skin(1)	11		Renal(207;0.00844)|all_lung(227;0.0187)|Lung NSC(271;0.0879)|all_hematologic(139;0.21)|Esophageal squamous(248;0.242)		Epithelial(121;6.7e-11)|all cancers(144;5.39e-08)|Lung(261;0.0132)|LUSC - Lung squamous cell carcinoma(224;0.0181)		CCCTAAAGAAGGAAAGATCAA	0.473													27	18	---	---	---	---	PASS
USP40	55230	broad.mit.edu	37	2	234407258	234407258	+	Missense_Mutation	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:234407258C>A	uc010zmr.1	-	22	2684	c.2684G>T	c.(2683-2685)GGA>GTA	p.G895V	USP40_uc010zms.1_5'UTR|USP40_uc002vun.2_Missense_Mutation_p.G59V|USP40_uc002vuo.1_Missense_Mutation_p.G59V	NM_018218	NP_060688	Q9NVE5	UBP40_HUMAN	ubiquitin thioesterase 40	883					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(1)|lung(1)|breast(1)	3		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0179)|Acute lymphoblastic leukemia(138;0.0326)|Lung NSC(271;0.0539)		Epithelial(121;1.71e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000407)|Lung(119;0.00277)|LUSC - Lung squamous cell carcinoma(224;0.00646)		CCAGGCATCTCCTATAAAGGA	0.373													22	17	---	---	---	---	PASS
ITIH3	3699	broad.mit.edu	37	3	52842629	52842629	+	Missense_Mutation	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:52842629G>A	uc003dfv.2	+	22	2641	c.2605G>A	c.(2605-2607)GTC>ATC	p.V869I	ITIH3_uc011bek.1_Missense_Mutation_p.V677I	NM_002217	NP_002208	Q06033	ITIH3_HUMAN	inter-alpha (globulin) inhibitor H3	869					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|liver(1)	3				BRCA - Breast invasive adenocarcinoma(193;7e-05)|Kidney(197;0.000656)|KIRC - Kidney renal clear cell carcinoma(197;0.000794)|OV - Ovarian serous cystadenocarcinoma(275;0.0496)		CTGCTGGTTCGTCCACAACAA	0.537													29	70	---	---	---	---	PASS
TMF1	7110	broad.mit.edu	37	3	69101202	69101202	+	Silent	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:69101202G>A	uc003dnn.2	-	1	283	c.36C>T	c.(34-36)TTC>TTT	p.F12F	TMF1_uc011bfx.1_Silent_p.F12F	NM_007114	NP_009045	P82094	TMF1_HUMAN	TATA element modulatory factor 1	12					regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	Golgi membrane|nucleus	DNA binding|protein binding|transcription cofactor activity				0		Lung NSC(201;0.0193)|Prostate(884;0.174)		BRCA - Breast invasive adenocarcinoma(55;4.48e-05)|Epithelial(33;0.000274)|LUSC - Lung squamous cell carcinoma(21;0.0123)|KIRC - Kidney renal clear cell carcinoma(39;0.211)|Kidney(39;0.247)		CCTGCTTAGCGAAGCTGGAGA	0.637													29	87	---	---	---	---	PASS
TRAT1	50852	broad.mit.edu	37	3	108568055	108568055	+	Missense_Mutation	SNP	C	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:108568055C>G	uc003dxi.1	+	5	401	c.257C>G	c.(256-258)CCA>CGA	p.P86R	TRAT1_uc010hpx.1_Missense_Mutation_p.P49R	NM_016388	NP_057472	Q6PIZ9	TRAT1_HUMAN	T-cell receptor interacting molecule	86	Cytoplasmic (Potential).				cellular defense response|negative regulation of receptor recycling|negative regulation of transport|positive regulation of calcium-mediated signaling|positive regulation of T cell receptor signaling pathway|T cell receptor signaling pathway	integral to plasma membrane|T cell receptor complex	phosphatidylinositol-4,5-bisphosphate 3-kinase activity|transmembrane receptor protein tyrosine kinase adaptor activity			skin(1)	1						AAAGCCCGACCAGAGAAATCT	0.348													43	163	---	---	---	---	PASS
SLC9A10	285335	broad.mit.edu	37	3	111927157	111927157	+	Silent	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:111927157G>A	uc003dyu.2	-	16	2076	c.1854C>T	c.(1852-1854)TAC>TAT	p.Y618Y	SLC9A10_uc011bhu.1_Intron|SLC9A10_uc010hqc.2_Silent_p.Y570Y	NM_183061	NP_898884	Q4G0N8	S9A10_HUMAN	sperm-specific sodium proton exchanger	618	Helical; (Potential).|Ion transport-like.				cell differentiation|multicellular organismal development|sodium ion transport|spermatogenesis	cilium|flagellar membrane|integral to membrane	solute:hydrogen antiporter activity			ovary(3)|breast(2)	5						ATATCACAAGGTATCCAACAT	0.294													40	138	---	---	---	---	PASS
PLA1A	51365	broad.mit.edu	37	3	119348282	119348282	+	Silent	SNP	T	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:119348282T>A	uc003ecu.2	+	11	1377	c.1338T>A	c.(1336-1338)ACT>ACA	p.T446T	PLA1A_uc003ecv.2_Silent_p.T430T|PLA1A_uc003ecw.2_RNA|PLA1A_uc011bjc.1_Silent_p.T273T	NM_015900	NP_056984	Q53H76	PLA1A_HUMAN	phospholipase A1 member A precursor	446	Involved in the recognition of diacyl- phospholipids.				lipid catabolic process|phosphatidylserine metabolic process	extracellular region	phospholipase A1 activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3						CAAGTGTGACTGTTTCCTGTG	0.463													160	121	---	---	---	---	PASS
PLXND1	23129	broad.mit.edu	37	3	129290355	129290355	+	Silent	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:129290355G>A	uc003emx.2	-	17	3433	c.3333C>T	c.(3331-3333)CCC>CCT	p.P1111P		NM_015103	NP_055918	Q9Y4D7	PLXD1_HUMAN	plexin D1 precursor	1111	Extracellular (Potential).|IPT/TIG 3.				axon guidance	integral to membrane|intracellular|plasma membrane				large_intestine(1)	1						GCCTCACCGTGGGCTCCCGGC	0.662													39	66	---	---	---	---	PASS
CEP63	80254	broad.mit.edu	37	3	134256052	134256052	+	Missense_Mutation	SNP	A	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:134256052A>T	uc003eqo.1	+	7	946	c.497A>T	c.(496-498)CAG>CTG	p.Q166L	CEP63_uc003eql.1_Missense_Mutation_p.Q166L|CEP63_uc003eqm.2_Missense_Mutation_p.Q166L|CEP63_uc003eqn.1_Missense_Mutation_p.Q166L	NM_025180	NP_079456	Q96MT8	CEP63_HUMAN	centrosomal protein 63 isoform a	166	Potential.				cell division|DNA damage checkpoint|G2/M transition of mitotic cell cycle|mitosis|signal transduction in response to DNA damage|spindle assembly	centrosome|cytosol|spindle pole	protein binding			ovary(1)	1						TATCAGCAACAGGTATCTTCA	0.428													40	178	---	---	---	---	PASS
GRK7	131890	broad.mit.edu	37	3	141497223	141497223	+	Silent	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:141497223C>A	uc011bnd.1	+	1	181	c.97C>A	c.(97-99)CGG>AGG	p.R33R		NM_139209	NP_631948	Q8WTQ7	GRK7_HUMAN	G-protein-coupled receptor kinase 7 precursor	33					visual perception	membrane	ATP binding|G-protein coupled receptor kinase activity|signal transducer activity			lung(2)|stomach(1)|ovary(1)|skin(1)	5						GCTGCAGCGGCGGCGGCGTAG	0.687													26	57	---	---	---	---	PASS
PLSCR1	5359	broad.mit.edu	37	3	146234826	146234826	+	Missense_Mutation	SNP	C	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:146234826C>G	uc003evx.3	-	8	1255	c.867G>C	c.(865-867)ATG>ATC	p.M289I	PLSCR1_uc003evy.3_Missense_Mutation_p.M282I|PLSCR1_uc011bnn.1_Missense_Mutation_p.M208I|PLSCR1_uc003evz.3_RNA	NM_021105	NP_066928	O15162	PLS1_HUMAN	phospholipid scramblase 1	289	Helical; (Potential).				phospholipid scrambling|platelet activation|response to virus	integral to membrane|plasma membrane	calcium ion binding|phospholipid scramblase activity|SH3 domain binding			ovary(2)	2						TTACAGCTTTCATTTTAACAT	0.363													129	117	---	---	---	---	PASS
CPA3	1359	broad.mit.edu	37	3	148597563	148597563	+	Intron	SNP	A	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:148597563A>C	uc003ewm.2	+							NM_001870	NP_001861	P15088	CBPA3_HUMAN	carboxypeptidase A3 precursor						proteolysis	stored secretory granule|transport vesicle	metallocarboxypeptidase activity|zinc ion binding			breast(1)|skin(1)	2			LUSC - Lung squamous cell carcinoma(72;0.0934)|Lung(72;0.115)			TCTCAAGTTTACTTTTAAATA	0.378													27	154	---	---	---	---	PASS
CPA3	1359	broad.mit.edu	37	3	148597569	148597569	+	Intron	SNP	A	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:148597569A>G	uc003ewm.2	+							NM_001870	NP_001861	P15088	CBPA3_HUMAN	carboxypeptidase A3 precursor						proteolysis	stored secretory granule|transport vesicle	metallocarboxypeptidase activity|zinc ion binding			breast(1)|skin(1)	2			LUSC - Lung squamous cell carcinoma(72;0.0934)|Lung(72;0.115)			GTTTACTTTTAAATAGATTGG	0.378													31	159	---	---	---	---	PASS
HLTF	6596	broad.mit.edu	37	3	148752709	148752709	+	Missense_Mutation	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:148752709G>A	uc003ewq.1	-	24	3091	c.2873C>T	c.(2872-2874)ACA>ATA	p.T958I	HLTF_uc003ewr.1_Missense_Mutation_p.T958I|HLTF_uc003ews.1_Missense_Mutation_p.T957I|HLTF_uc010hve.1_Missense_Mutation_p.T957I	NM_139048	NP_620636	Q14527	HLTF_HUMAN	helicase-like transcription factor	958	Helicase C-terminal.|Interaction with SP1 and SP3.				chromatin modification|transcription, DNA-dependent	nucleus	ATP binding|DNA binding|helicase activity|ligase activity|zinc ion binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)			ACTCACTTTTGTGATGATAAC	0.338													18	120	---	---	---	---	PASS
MED12L	116931	broad.mit.edu	37	3	151112454	151112454	+	Silent	SNP	A	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:151112454A>G	uc003eyp.2	+	37	5552	c.5514A>G	c.(5512-5514)AGA>AGG	p.R1838R	MED12L_uc011bnz.1_Silent_p.R1698R	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	1838					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex				ovary(4)|large_intestine(1)|central_nervous_system(1)|skin(1)	7			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			GTGGCTCCAGATTGGACCCTG	0.463													156	165	---	---	---	---	PASS
SI	6476	broad.mit.edu	37	3	164712050	164712050	+	Missense_Mutation	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:164712050C>A	uc003fei.2	-	41	4898	c.4836G>T	c.(4834-4836)TTG>TTT	p.L1612F		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	1612	Sucrase.|Lumenal.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|brush border|Golgi apparatus|integral to membrane	carbohydrate binding|oligo-1,6-glucosidase activity|sucrose alpha-glucosidase activity			ovary(7)|upper_aerodigestive_tract(4)|skin(2)|pancreas(1)	14		Prostate(884;0.00314)|Melanoma(1037;0.0153)|all_neural(597;0.0199)			Acarbose(DB00284)	CTTACTCATGCAAAAGGGGTC	0.313										HNSCC(35;0.089)			53	77	---	---	---	---	PASS
SLITRK3	22865	broad.mit.edu	37	3	164907547	164907547	+	Missense_Mutation	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:164907547G>A	uc003fej.3	-	2	1516	c.1072C>T	c.(1072-1074)CCT>TCT	p.P358S	SLITRK3_uc003fek.2_Missense_Mutation_p.P358S	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	358	Extracellular (Potential).					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						GCAATGGGAGGCTGGTTTGGA	0.498										HNSCC(40;0.11)			112	800	---	---	---	---	PASS
WDR49	151790	broad.mit.edu	37	3	167246922	167246922	+	Missense_Mutation	SNP	G	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:167246922G>C	uc003fev.1	-	10	1574	c.1268C>G	c.(1267-1269)TCG>TGG	p.S423W	WDR49_uc003feu.1_Missense_Mutation_p.S248W|WDR49_uc011bpd.1_Missense_Mutation_p.S487W|WDR49_uc003few.1_Intron	NM_178824	NP_849146	Q8IV35	WDR49_HUMAN	WD repeat domain 49	423	WD 7.									large_intestine(1)|ovary(1)|skin(1)	3						CATAATAATCGATCCAACTCC	0.363													40	220	---	---	---	---	PASS
EIF4G1	1981	broad.mit.edu	37	3	184039232	184039232	+	Missense_Mutation	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:184039232G>A	uc003fnp.2	+	10	1058	c.860G>A	c.(859-861)GGG>GAG	p.G287E	EIF4G1_uc003fno.1_Missense_Mutation_p.G228E|EIF4G1_uc010hxw.1_Missense_Mutation_p.G123E|EIF4G1_uc003fnt.2_5'UTR|EIF4G1_uc003fnq.2_Missense_Mutation_p.G200E|EIF4G1_uc003fnr.2_Missense_Mutation_p.G123E|EIF4G1_uc010hxx.2_Missense_Mutation_p.G294E|EIF4G1_uc003fns.2_Missense_Mutation_p.G247E|EIF4G1_uc010hxy.2_Missense_Mutation_p.G294E|EIF4G1_uc003fnv.3_Missense_Mutation_p.G287E|EIF4G1_uc003fnu.3_Missense_Mutation_p.G287E|EIF4G1_uc003fnw.2_Missense_Mutation_p.G294E|EIF4G1_uc003fnx.2_Missense_Mutation_p.G91E|EIF4G1_uc003fny.3_Missense_Mutation_p.G91E	NM_198241	NP_937884	Q04637	IF4G1_HUMAN	eukaryotic translation initiation factor 4	287					insulin receptor signaling pathway|interspecies interaction between organisms|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			lung(2)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			TCTATTCCTGGGGACACTATG	0.542													82	265	---	---	---	---	PASS
CLCN2	1181	broad.mit.edu	37	3	184075171	184075171	+	Missense_Mutation	SNP	C	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:184075171C>T	uc003foi.2	-	8	1001	c.877G>A	c.(877-879)GCA>ACA	p.A293T	CLCN2_uc003foh.2_5'Flank|CLCN2_uc010hya.1_Missense_Mutation_p.A293T|CLCN2_uc011brl.1_Missense_Mutation_p.A293T|CLCN2_uc011brm.1_Missense_Mutation_p.A249T|CLCN2_uc011brn.1_Missense_Mutation_p.A293T	NM_004366	NP_004357	P51788	CLCN2_HUMAN	chloride channel 2	293	Helical; (By similarity).					chloride channel complex	voltage-gated chloride channel activity				0	all_cancers(143;6.66e-11)|Ovarian(172;0.0339)		Epithelial(37;2.22e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)		Lubiprostone(DB01046)	TTCCAGACTGCCAAGACCCGG	0.637													143	495	---	---	---	---	PASS
OSTN	344901	broad.mit.edu	37	3	190936711	190936711	+	Missense_Mutation	SNP	G	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:190936711G>C	uc011bsn.1	+	2	278	c.278G>C	c.(277-279)AGA>ACA	p.R93T		NM_198184	NP_937827	P61366	OSTN_HUMAN	osteocrin precursor	93					cell differentiation|multicellular organismal development|ossification		hormone activity			pancreas(1)|skin(1)	2	all_cancers(143;6.79e-09)|Ovarian(172;0.103)		LUSC - Lung squamous cell carcinoma(58;2.42e-06)|Lung(62;2.86e-06)	GBM - Glioblastoma multiforme(46;0.000254)		CCCCTTGACAGACTCTCAGCT	0.373													60	452	---	---	---	---	PASS
TACC3	10460	broad.mit.edu	37	4	1746429	1746429	+	Intron	SNP	A	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:1746429A>T	uc003gdo.2	+						TACC3_uc003gdp.2_Intron|TACC3_uc010ica.2_Intron	NM_006342	NP_006333	Q9Y6A5	TACC3_HUMAN	transforming, acidic coiled-coil containing							centrosome				ovary(1)|central_nervous_system(1)	2		Breast(71;0.212)|all_epithelial(65;0.241)	OV - Ovarian serous cystadenocarcinoma(23;0.00765)|Epithelial(3;0.0126)			CCCCGCCCCTACCCCTCCAGG	0.687													16	47	---	---	---	---	PASS
POLN	353497	broad.mit.edu	37	4	2074721	2074721	+	Missense_Mutation	SNP	C	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:2074721C>G	uc003ger.2	-	23	2491	c.2491G>C	c.(2491-2493)GTG>CTG	p.V831L	POLN_uc010icg.1_Splice_Site_p.Q278_splice	NM_181808	NP_861524	Q7Z5Q5	DPOLN_HUMAN	DNA-directed DNA polymerase nu	831					DNA repair|DNA replication	nucleus	DNA binding|DNA-directed DNA polymerase activity			kidney(2)|ovary(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(23;0.0955)			AATGCCTGCACCTGTTCCAAG	0.632								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					29	110	---	---	---	---	PASS
BOD1L	259282	broad.mit.edu	37	4	13603626	13603626	+	Missense_Mutation	SNP	A	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:13603626A>G	uc003gmz.1	-	10	5015	c.4898T>C	c.(4897-4899)GTG>GCG	p.V1633A	BOD1L_uc010idr.1_Missense_Mutation_p.V970A	NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	1633							DNA binding			ovary(5)|breast(1)	6						AACTGCATGCACAGCCAGTAG	0.468													55	196	---	---	---	---	PASS
LDB2	9079	broad.mit.edu	37	4	16597384	16597384	+	Missense_Mutation	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:16597384G>T	uc003goz.2	-	3	666	c.350C>A	c.(349-351)ACG>AAG	p.T117K	LDB2_uc003gpa.2_Missense_Mutation_p.T117K|LDB2_uc003gpb.2_Missense_Mutation_p.T117K|LDB2_uc011bxh.1_Missense_Mutation_p.T117K|LDB2_uc010iee.2_Missense_Mutation_p.T117K|LDB2_uc003goy.2_5'UTR|LDB2_uc011bxi.1_5'UTR	NM_001290	NP_001281	O43679	LDB2_HUMAN	LIM domain binding 2 isoform a	117							LIM domain binding|transcription cofactor activity				0						GCAGTCCACCGTGATGGATGA	0.517													74	88	---	---	---	---	PASS
PCDH7	5099	broad.mit.edu	37	4	31144317	31144317	+	Missense_Mutation	SNP	T	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:31144317T>A	uc011bxx.1	+	3	4598	c.3590T>A	c.(3589-3591)CTG>CAG	p.L1197Q	PCDH7_uc011bxw.1_Missense_Mutation_p.L1150Q	NM_002589	NP_002580	O60245	PCDH7_HUMAN	protocadherin 7 isoform a precursor	Error:Variant_position_missing_in_O60245_after_alignment					homophilic cell adhesion	integral to plasma membrane	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|skin(1)	4						AGAAACCTCCTGAACAAAAAG	0.493													68	157	---	---	---	---	PASS
TBC1D1	23216	broad.mit.edu	37	4	38022223	38022223	+	Silent	SNP	C	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:38022223C>T	uc003gtb.2	+	5	1327	c.984C>T	c.(982-984)CAC>CAT	p.H328H	TBC1D1_uc011byd.1_Silent_p.H328H|TBC1D1_uc010ifd.2_Intron|TBC1D1_uc011byf.1_Silent_p.H199H	NM_015173	NP_055988	Q86TI0	TBCD1_HUMAN	TBC1 (tre-2/USP6, BUB2, cdc16) domain family,	328	PID.					nucleus	Rab GTPase activator activity			ovary(1)	1						GCATCAGACACGTGGACCACT	0.483													162	345	---	---	---	---	PASS
GABRG1	2565	broad.mit.edu	37	4	46043132	46043132	+	Missense_Mutation	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:46043132G>T	uc003gxb.2	-	9	1423	c.1271C>A	c.(1270-1272)ACA>AAA	p.T424K		NM_173536	NP_775807	Q8N1C3	GBRG1_HUMAN	gamma-aminobutyric acid A receptor, gamma 1	424	Cytoplasmic (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity			ovary(2)	2				Lung(65;0.106)|LUSC - Lung squamous cell carcinoma(721;0.23)		CCAAGATCCTGTTCTGCAGTC	0.413													48	94	---	---	---	---	PASS
FRYL	285527	broad.mit.edu	37	4	48572902	48572902	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:48572902G>A	uc003gyh.1	-	27	3543	c.2938C>T	c.(2938-2940)CGA>TGA	p.R980*	FRYL_uc003gyk.2_Nonsense_Mutation_p.R980*	NM_015030	NP_055845	O94915	FRYL_HUMAN	furry-like	980					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			skin(1)	1						AGTTGTACTCGTAAAATGTCT	0.388													36	120	---	---	---	---	PASS
UGT2A3	79799	broad.mit.edu	37	4	69795618	69795618	+	Silent	SNP	C	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:69795618C>G	uc003hef.2	-	6	1528	c.1497G>C	c.(1495-1497)GTG>GTC	p.V499V	UGT2A3_uc010ihp.1_RNA	NM_024743	NP_079019	Q6UWM9	UD2A3_HUMAN	UDP glucuronosyltransferase 2 family,	499	Helical; (Potential).					integral to membrane	glucuronosyltransferase activity			ovary(1)|skin(1)	2						TAGCAGTTGCCACACAGGCCA	0.413													33	96	---	---	---	---	PASS
ADAMTS3	9508	broad.mit.edu	37	4	73184414	73184414	+	Missense_Mutation	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:73184414C>A	uc003hgk.1	-	10	1397	c.1360G>T	c.(1360-1362)GAC>TAC	p.D454Y		NM_014243	NP_055058	O15072	ATS3_HUMAN	ADAM metallopeptidase with thrombospondin type 1	454	Peptidase M12B.				collagen catabolic process|collagen fibril organization|proteolysis	proteinaceous extracellular matrix	heparin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2			Epithelial(6;4.97e-05)|OV - Ovarian serous cystadenocarcinoma(6;5.66e-05)|all cancers(17;0.000486)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			AGGAGACAGTCATAGGAACTG	0.328													27	60	---	---	---	---	PASS
AFP	174	broad.mit.edu	37	4	74316386	74316386	+	Missense_Mutation	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:74316386G>A	uc003hgz.1	+	11	1391	c.1344G>A	c.(1342-1344)ATG>ATA	p.M448I	AFP_uc003hha.1_Missense_Mutation_p.M448I|AFP_uc011cbg.1_Missense_Mutation_p.M222I	NM_001134	NP_001125	P02771	FETA_HUMAN	alpha-fetoprotein precursor	448	Albumin 3.				transport		metal ion binding			ovary(1)	1	Breast(15;0.00102)		Epithelial(6;2.42e-05)|all cancers(17;0.000268)|OV - Ovarian serous cystadenocarcinoma(6;0.000324)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			CGGAGCTGATGGCCATCACCA	0.512									Alpha-Fetoprotein_Hereditary_Persistence_of				31	67	---	---	---	---	PASS
CXCL2	2920	broad.mit.edu	37	4	74964371	74964371	+	Silent	SNP	A	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:74964371A>G	uc003hhm.3	-	3	415	c.255T>C	c.(253-255)TGT>TGC	p.C85C		NM_002089	NP_002080	P19875	CXCL2_HUMAN	chemokine (C-X-C motif) ligand 2	85					chemotaxis|immune response|inflammatory response|response to molecule of bacterial origin	extracellular space|soluble fraction	chemokine activity				0	Breast(15;0.00612)		all cancers(17;0.00317)|Lung(101;0.196)			CGGGGTTGAGACAAGCTTTCT	0.507													73	153	---	---	---	---	PASS
GRID2	2895	broad.mit.edu	37	4	94031943	94031943	+	Missense_Mutation	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:94031943G>A	uc011cdt.1	+	4	832	c.574G>A	c.(574-576)GGA>AGA	p.G192R	GRID2_uc010ikx.2_Missense_Mutation_p.G192R|GRID2_uc011cdu.1_Missense_Mutation_p.G97R|GRID2_uc011cdv.1_RNA	NM_001510	NP_001501	O43424	GRID2_HUMAN	glutamate receptor, ionotropic, delta 2	192	Extracellular (Potential).				glutamate signaling pathway	cell junction|integral to plasma membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.177)		OV - Ovarian serous cystadenocarcinoma(123;3.22e-06)|LUSC - Lung squamous cell carcinoma(81;0.185)|Lung(65;0.191)	L-Glutamic Acid(DB00142)	CTCTCAGCAGGGAATGGATGT	0.398													87	155	---	---	---	---	PASS
GRID2	2895	broad.mit.edu	37	4	94159546	94159546	+	Missense_Mutation	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:94159546G>A	uc011cdt.1	+	8	1408	c.1150G>A	c.(1150-1152)GAG>AAG	p.E384K	GRID2_uc011cdu.1_Missense_Mutation_p.E289K|GRID2_uc010ikz.1_Missense_Mutation_p.E65K	NM_001510	NP_001501	O43424	GRID2_HUMAN	glutamate receptor, ionotropic, delta 2	384	Extracellular (Potential).				glutamate signaling pathway	cell junction|integral to plasma membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.177)		OV - Ovarian serous cystadenocarcinoma(123;3.22e-06)|LUSC - Lung squamous cell carcinoma(81;0.185)|Lung(65;0.191)	L-Glutamic Acid(DB00142)	GTTGACTGGAGAGCTAGAATT	0.373													41	69	---	---	---	---	PASS
NDST4	64579	broad.mit.edu	37	4	115891646	115891646	+	Missense_Mutation	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:115891646G>T	uc003ibu.2	-	4	1840	c.1161C>A	c.(1159-1161)CAC>CAA	p.H387Q	NDST4_uc010imw.2_RNA	NM_022569	NP_072091	Q9H3R1	NDST4_HUMAN	heparan sulfate N-deacetylase/N-sulfotransferase	387	Lumenal (Potential).|Heparan sulfate N-deacetylase 4.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			skin(3)|ovary(1)	4		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000562)		TGTGGAAGAGGTGGGGCTGCA	0.433													23	61	---	---	---	---	PASS
C4orf31	79625	broad.mit.edu	37	4	121966948	121966948	+	Silent	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:121966948G>A	uc003idq.1	-	2	572	c.45C>T	c.(43-45)CTC>CTT	p.L15L		NM_024574	NP_078850	Q8TB73	CD031_HUMAN	hypothetical protein LOC79625 precursor	15											0						TCCTTGAGCTGAGTGGAAACA	0.498													20	54	---	---	---	---	PASS
PRMT10	90826	broad.mit.edu	37	4	148559801	148559801	+	Missense_Mutation	SNP	G	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:148559801G>C	uc003ilc.2	-	12	2562	c.2420C>G	c.(2419-2421)TCC>TGC	p.S807C	PRMT10_uc003ilb.2_Missense_Mutation_p.S451C|PRMT10_uc003ild.2_Missense_Mutation_p.S694C	NM_138364	NP_612373	Q6P2P2	ANM10_HUMAN	protein arginine methyltransferase 10	807						cytoplasm	binding|protein methyltransferase activity			ovary(1)|central_nervous_system(1)	2						TTTCCAGTGGGAGGCTTCACT	0.408													54	110	---	---	---	---	PASS
FBXW7	55294	broad.mit.edu	37	4	153247289	153247289	+	Missense_Mutation	SNP	G	C	C	rs149680468		TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:153247289G>C	uc003ims.2	-	10	1662	c.1513C>G	c.(1513-1515)CGC>GGC	p.R505G	FBXW7_uc011cii.1_Missense_Mutation_p.R505G|FBXW7_uc003imt.2_Missense_Mutation_p.R505G|FBXW7_uc011cih.1_Missense_Mutation_p.R329G|FBXW7_uc003imq.2_Missense_Mutation_p.R425G|FBXW7_uc003imr.2_Missense_Mutation_p.R387G	NM_033632	NP_361014	Q969H0	FBXW7_HUMAN	F-box and WD repeat domain containing 7 isoform	505	WD 4.		R -> L (in an ovarian cancer cell line).		interspecies interaction between organisms|lipid homeostasis|negative regulation of DNA endoreduplication|negative regulation of hepatocyte proliferation|negative regulation of Notch signaling pathway|negative regulation of triglyceride biosynthetic process|positive regulation of epidermal growth factor receptor activity|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|protein stabilization|protein ubiquitination|regulation of lipid storage|regulation of protein localization|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|sister chromatid cohesion|vasculature development	nucleolus|nucleolus|nucleoplasm|nucleoplasm|SCF ubiquitin ligase complex	protein binding|protein binding	p.R505C(36)|p.R505L(6)|p.R505G(4)|p.R425C(2)|p.R425G(2)|p.R266G(2)|p.R505H(2)|p.R505S(1)|p.R505P(1)|p.R266C(1)		haematopoietic_and_lymphoid_tissue(125)|large_intestine(99)|stomach(16)|lung(14)|endometrium(13)|ovary(9)|biliary_tract(8)|upper_aerodigestive_tract(5)|central_nervous_system(3)|kidney(3)|skin(3)|pancreas(3)|breast(2)|prostate(2)|cervix(1)|NS(1)|bone(1)	308	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.000629)|all_hematologic(8;0.067)				TGAACACAGCGGACTGCTGCA	0.468			Mis|N|D|F		colorectal|endometrial|T-ALL								86	180	---	---	---	---	PASS
DCHS2	54798	broad.mit.edu	37	4	155219786	155219786	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:155219786C>A	uc003inw.2	-	18	4315	c.4315G>T	c.(4315-4317)GAG>TAG	p.E1439*		NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	1439	Cadherin 12.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		CTGATTTGCTCCCGGTCCAAA	0.413													53	109	---	---	---	---	PASS
DCHS2	54798	broad.mit.edu	37	4	155312370	155312370	+	Missense_Mutation	SNP	T	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:155312370T>C	uc003inw.2	-	1	80	c.80A>G	c.(79-81)GAT>GGT	p.D27G	DCHS2_uc003inx.2_Intron	NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	27					homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		TACACAGGCATCAGTACTTTC	0.189													19	55	---	---	---	---	PASS
TMEM144	55314	broad.mit.edu	37	4	159162653	159162653	+	Intron	SNP	T	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:159162653T>A	uc003ipx.2	+						TMEM144_uc010iqi.2_Intron	NM_018342	NP_060812	Q7Z5S9	TM144_HUMAN	transmembrane protein 144							integral to membrane					0	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.0539)		GTTGTCTTTGTATTTCAGGAT	0.413													87	184	---	---	---	---	PASS
SAP30	8819	broad.mit.edu	37	4	174292541	174292541	+	Silent	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:174292541C>A	uc003itd.2	+	1	449	c.208C>A	c.(208-210)CGG>AGG	p.R70R		NM_003864	NP_003855	O75446	SAP30_HUMAN	Sin3A-associated protein, 30kDa	70	Interaction with NCOR1 (By similarity).|Atypical.				transcription, DNA-dependent	histone deacetylase complex	DNA binding|metal ion binding|protein binding|transcription corepressor activity			ovary(1)	1		Prostate(90;0.00601)|Renal(120;0.0183)|Melanoma(52;0.0749)|all_neural(102;0.0837)|all_hematologic(60;0.107)		all cancers(43;1.15e-17)|Epithelial(43;4.33e-16)|OV - Ovarian serous cystadenocarcinoma(60;6.62e-09)|STAD - Stomach adenocarcinoma(60;0.00278)|GBM - Glioblastoma multiforme(59;0.00659)|LUSC - Lung squamous cell carcinoma(193;0.0919)		GTGCTGCCTGCGGGAGGATGG	0.438													17	36	---	---	---	---	PASS
AGA	175	broad.mit.edu	37	4	178355561	178355561	+	Missense_Mutation	SNP	C	T	T	rs140337260		TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:178355561C>T	uc003iuu.1	-	7	843	c.781G>A	c.(781-783)GAT>AAT	p.D261N	AGA_uc010irt.1_RNA|AGA_uc003iuv.1_3'UTR	NM_000027	NP_000018	P20933	ASPG_HUMAN	aspartylglucosaminidase precursor	261					asparagine catabolic process via L-aspartate|protein deglycosylation|protein maturation	endoplasmic reticulum|intermediate filament cytoskeleton|lysosome|microtubule cytoskeleton	N4-(beta-N-acetylglucosaminyl)-L-asparaginase activity				0		all_lung(41;1.27e-09)|Lung NSC(41;1.1e-08)|Breast(14;6.27e-05)|Melanoma(52;0.00102)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|Hepatocellular(41;0.148)|all_neural(102;0.164)|Colorectal(36;0.245)		all cancers(43;1.37e-22)|Epithelial(43;3.86e-20)|OV - Ovarian serous cystadenocarcinoma(60;3.8e-11)|Colorectal(24;6.98e-05)|GBM - Glioblastoma multiforme(59;0.000362)|COAD - Colon adenocarcinoma(29;0.000462)|STAD - Stomach adenocarcinoma(60;0.0029)|LUSC - Lung squamous cell carcinoma(193;0.0328)|READ - Rectum adenocarcinoma(43;0.163)		ATCAATATATCACCATTCCCA	0.428													58	119	---	---	---	---	PASS
FAT1	2195	broad.mit.edu	37	4	187539606	187539606	+	Missense_Mutation	SNP	C	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:187539606C>G	uc003izf.2	-	10	8322	c.8134G>C	c.(8134-8136)GTG>CTG	p.V2712L		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	2712	Extracellular (Potential).|Cadherin 25.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						TCCTCTGACACTGTAAAGGTA	0.423										HNSCC(5;0.00058)			64	182	---	---	---	---	PASS
FAT1	2195	broad.mit.edu	37	4	187539651	187539651	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:187539651C>A	uc003izf.2	-	10	8277	c.8089G>T	c.(8089-8091)GAA>TAA	p.E2697*		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	2697	Extracellular (Potential).|Cadherin 24.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						AGCTGCATTTCCGGTGGAAGG	0.393										HNSCC(5;0.00058)			59	161	---	---	---	---	PASS
ADAMTS16	170690	broad.mit.edu	37	5	5182325	5182325	+	Missense_Mutation	SNP	A	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:5182325A>T	uc003jdl.2	+	4	808	c.670A>T	c.(670-672)AGG>TGG	p.R224W	ADAMTS16_uc003jdk.1_Missense_Mutation_p.R224W|ADAMTS16_uc003jdj.1_Missense_Mutation_p.R224W	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	224					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						GGTGACCTCAAGGACATGGGA	0.577													47	196	---	---	---	---	PASS
KIAA0947	23379	broad.mit.edu	37	5	5462506	5462506	+	Missense_Mutation	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:5462506G>A	uc003jdm.3	+	13	3281	c.3059G>A	c.(3058-3060)AGC>AAC	p.S1020N		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	1020										ovary(1)|central_nervous_system(1)	2						GAAGAAACCAGCTGTGGAGAC	0.502													50	310	---	---	---	---	PASS
CTNND2	1501	broad.mit.edu	37	5	11199587	11199587	+	Missense_Mutation	SNP	C	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:11199587C>T	uc003jfa.1	-	11	2093	c.1948G>A	c.(1948-1950)GAC>AAC	p.D650N	CTNND2_uc010itt.2_Missense_Mutation_p.D559N|CTNND2_uc011cmy.1_Missense_Mutation_p.D313N|CTNND2_uc011cmz.1_Missense_Mutation_p.D217N|CTNND2_uc010itu.1_RNA|CTNND2_uc011cmx.1_Missense_Mutation_p.D217N	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	650	ARM 4.				multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						ATCTCCAGGTCAGTCGTCTTG	0.428													262	212	---	---	---	---	PASS
TRIO	7204	broad.mit.edu	37	5	14374354	14374354	+	Missense_Mutation	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:14374354G>A	uc003jff.2	+	19	3239	c.3233G>A	c.(3232-3234)CGG>CAG	p.R1078Q	TRIO_uc003jfg.2_RNA|TRIO_uc011cna.1_Missense_Mutation_p.R1029Q|TRIO_uc003jfh.1_Missense_Mutation_p.R727Q	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	1078					apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine phosphatase signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity	p.R1078G(1)		skin(4)|central_nervous_system(3)|ovary(3)|large_intestine(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|kidney(1)	18	Lung NSC(4;0.000742)					ACCCTTGCTCGGAGGAATGCA	0.453													29	88	---	---	---	---	PASS
PRDM9	56979	broad.mit.edu	37	5	23527437	23527437	+	Missense_Mutation	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:23527437C>A	uc003jgo.2	+	11	2422	c.2240C>A	c.(2239-2241)CCC>CAC	p.P747H		NM_020227	NP_064612	Q9NQV7	PRDM9_HUMAN	PR domain containing 9	747					meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleoplasm	histone-lysine N-methyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)|large_intestine(2)|pancreas(1)	6						GGGGAGAAGCCCTATGTCTGC	0.587										HNSCC(3;0.000094)			206	210	---	---	---	---	PASS
CDH9	1007	broad.mit.edu	37	5	26915941	26915941	+	Missense_Mutation	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:26915941G>A	uc003jgs.1	-	3	489	c.320C>T	c.(319-321)ACA>ATA	p.T107I	CDH9_uc010iug.2_Missense_Mutation_p.T107I	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	107	Extracellular (Potential).|Cadherin 1.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						AATGTCTCCTGTATTTTCATC	0.398													179	551	---	---	---	---	PASS
HCN1	348980	broad.mit.edu	37	5	45462029	45462029	+	Silent	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:45462029G>A	uc003jok.2	-	3	955	c.930C>T	c.(928-930)CAC>CAT	p.H310H		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	310	Helical; Name=Segment S5; (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						AACCATCCCAGTGGCACAGGA	0.408													92	80	---	---	---	---	PASS
POLK	51426	broad.mit.edu	37	5	74893773	74893773	+	Missense_Mutation	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:74893773C>A	uc003kdw.2	+	15	2639	c.2543C>A	c.(2542-2544)ACA>AAA	p.T848K	POLK_uc003kdx.2_RNA|POLK_uc003kdy.2_RNA|POLK_uc010izq.2_Missense_Mutation_p.T650K|POLK_uc003kec.2_Missense_Mutation_p.T758K|POLK_uc010izr.2_RNA|POLK_uc010izs.2_RNA|POLK_uc003ked.2_3'UTR|POLK_uc003kee.2_3'UTR|POLK_uc003kef.2_Missense_Mutation_p.T758K	NM_016218	NP_057302	Q9UBT6	POLK_HUMAN	DNA-directed DNA polymerase kappa	848					DNA replication|nucleotide-excision repair, DNA gap filling	nucleus	damaged DNA binding|DNA-directed DNA polymerase activity|metal ion binding			ovary(2)|kidney(2)	4		all_lung(232;0.0131)|Lung NSC(167;0.0282)|Ovarian(174;0.0798)|Prostate(461;0.184)		OV - Ovarian serous cystadenocarcinoma(47;2.9e-54)|all cancers(79;1.27e-42)		GGATTGATGACAAAGTACTCA	0.229								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					18	14	---	---	---	---	PASS
MSH3	4437	broad.mit.edu	37	5	80169001	80169001	+	Missense_Mutation	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:80169001G>A	uc003kgz.2	+	23	3450	c.3197G>A	c.(3196-3198)AGG>AAG	p.R1066K		NM_002439	NP_002430	P20585	MSH3_HUMAN	mutS homolog 3	1066					maintenance of DNA repeat elements|meiotic mismatch repair|negative regulation of DNA recombination|positive regulation of helicase activity|reciprocal meiotic recombination|somatic recombination of immunoglobulin gene segments	MutSbeta complex|nuclear chromosome	ATP binding|DNA-dependent ATPase activity|double-strand/single-strand DNA junction binding|enzyme binding|loop DNA binding|Y-form DNA binding			lung(2)|ovary(1)|breast(1)	4		Lung NSC(167;0.00479)|all_lung(232;0.00507)|Ovarian(174;0.0261)|Breast(144;0.244)		OV - Ovarian serous cystadenocarcinoma(54;2.38e-45)|Epithelial(54;1.58e-38)|all cancers(79;4.93e-33)		ATTGCAGCAAGGAGTTATGGA	0.398								MMR					150	74	---	---	---	---	PASS
GPR98	84059	broad.mit.edu	37	5	89979655	89979655	+	Missense_Mutation	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:89979655G>T	uc003kju.2	+	28	6013	c.5917G>T	c.(5917-5919)GAT>TAT	p.D1973Y	GPR98_uc003kjt.2_5'UTR	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	1973	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		TTTGGCTAGTGATGATCCATA	0.403													28	13	---	---	---	---	PASS
WDR36	134430	broad.mit.edu	37	5	110439942	110439942	+	Missense_Mutation	SNP	A	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:110439942A>G	uc003kpd.2	+	8	1082	c.965A>G	c.(964-966)AAA>AGA	p.K322R	WDR36_uc010jbu.2_RNA	NM_139281	NP_644810	Q8NI36	WDR36_HUMAN	WD repeat domain 36	322	WD 3.				response to stimulus|rRNA processing|visual perception	small-subunit processome				ovary(1)|skin(1)	2		all_cancers(142;2.72e-05)|all_epithelial(76;4.4e-07)|Prostate(80;0.00955)|Lung NSC(167;0.0418)|Ovarian(225;0.0443)|Colorectal(57;0.0465)|all_lung(232;0.0508)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;1.39e-08)|Epithelial(69;1.82e-07)|all cancers(49;2.04e-05)|COAD - Colon adenocarcinoma(37;0.111)		CTAGAAGACAAAAAATTAATC	0.393													102	54	---	---	---	---	PASS
FBN2	2201	broad.mit.edu	37	5	127681067	127681067	+	Missense_Mutation	SNP	C	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:127681067C>G	uc003kuu.2	-	24	3638	c.3199G>C	c.(3199-3201)GGG>CGG	p.G1067R	FBN2_uc003kuv.2_Missense_Mutation_p.G1034R	NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	1067					bone trabecula formation|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	microfibril	calcium ion binding|extracellular matrix structural constituent			ovary(8)|large_intestine(4)|pancreas(1)|kidney(1)|skin(1)	15		all_cancers(142;0.0216)|Prostate(80;0.0551)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0821)|Epithelial(69;0.146)		AATGGCCGCCCAGTAAGAACA	0.562													84	63	---	---	---	---	PASS
ADAMTS19	171019	broad.mit.edu	37	5	128864307	128864307	+	Nonsense_Mutation	SNP	T	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:128864307T>A	uc003kvb.1	+	6	1247	c.1247T>A	c.(1246-1248)TTA>TAA	p.L416*	ADAMTS19_uc003kvc.1_RNA	NM_133638	NP_598377	Q8TE59	ATS19_HUMAN	ADAM metallopeptidase with thrombospondin type 1	416	Peptidase M12B.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(5)|breast(2)|lung(1)|skin(1)	9		all_cancers(142;0.0148)|Prostate(80;0.0494)|Breast(839;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.222)		GATATACATTTAGAGATGTCA	0.358													66	115	---	---	---	---	PASS
KIF20A	10112	broad.mit.edu	37	5	137522040	137522040	+	Missense_Mutation	SNP	G	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:137522040G>C	uc003lcj.2	+	18	2771	c.2275G>C	c.(2275-2277)GAG>CAG	p.E759Q	KIF20A_uc011cyo.1_Missense_Mutation_p.E741Q	NM_005733	NP_005724	O95235	KI20A_HUMAN	kinesin family member 20A	759	Potential.				cytokinesis|M phase of mitotic cell cycle|microtubule-based movement|protein transport|vesicle-mediated transport	Golgi apparatus|microtubule|nucleoplasm	ATP binding|microtubule motor activity|protein binding|transporter activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			CCAATCAGCAGAGAGAGCTTG	0.458													77	51	---	---	---	---	PASS
PCDHB3	56132	broad.mit.edu	37	5	140481562	140481562	+	Missense_Mutation	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140481562C>A	uc003lio.2	+	1	1329	c.1329C>A	c.(1327-1329)GAC>GAA	p.D443E	uc003lin.2_Intron	NM_018937	NP_061760	Q9Y5E6	PCDB3_HUMAN	protocadherin beta 3 precursor	443	Extracellular (Potential).|Cadherin 4.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TGGTCTCCGACGTCAATGACA	0.562													116	84	---	---	---	---	PASS
PCDHGA8	9708	broad.mit.edu	37	5	140774623	140774623	+	Missense_Mutation	SNP	C	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140774623C>G	uc003lkd.1	+	1	3141	c.2243C>G	c.(2242-2244)GCT>GGT	p.A748G	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkb.3_Missense_Mutation_p.A748G	NM_032088	NP_114477	Q9Y5G5	PCDG8_HUMAN	protocadherin gamma subfamily A, 8 isoform 1	748	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GAGGTACAGGCTTTCCTGCAG	0.582													66	31	---	---	---	---	PASS
ARAP3	64411	broad.mit.edu	37	5	141033816	141033816	+	Missense_Mutation	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:141033816C>A	uc003llm.2	-	33	4414	c.4336G>T	c.(4336-4338)GAT>TAT	p.D1446Y	ARAP3_uc003lll.2_Missense_Mutation_p.D397Y|ARAP3_uc011dbe.1_Missense_Mutation_p.D1095Y|ARAP3_uc003lln.2_Missense_Mutation_p.D1277Y	NM_022481	NP_071926	Q8WWN8	ARAP3_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH	1446					cytoskeleton organization|negative regulation of cell migration|negative regulation of Rho protein signal transduction|regulation of ARF GTPase activity|regulation of cell shape|small GTPase mediated signal transduction|vesicle-mediated transport	cytoskeleton|cytosol|lamellipodium|plasma membrane|ruffle	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|Rho GTPase activator activity|zinc ion binding			breast(5)|ovary(1)|large_intestine(1)	7						AAGGGTTGATCCAATGACTTC	0.607													116	64	---	---	---	---	PASS
AFAP1L1	134265	broad.mit.edu	37	5	148709278	148709278	+	Silent	SNP	G	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:148709278G>C	uc003lqh.2	+	16	1991	c.1860G>C	c.(1858-1860)CGG>CGC	p.R620R	AFAP1L1_uc010jgy.2_Silent_p.R620R|AFAP1L1_uc003lqi.1_Silent_p.R235R	NM_152406	NP_689619	Q8TED9	AF1L1_HUMAN	actin filament associated protein 1-like 1	620	Potential.						protein binding			breast(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGGATGCCCGGAGGTACTTGG	0.473													7	30	---	---	---	---	PASS
ATP10B	23120	broad.mit.edu	37	5	160071204	160071204	+	Missense_Mutation	SNP	A	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:160071204A>T	uc003lym.1	-	9	1656	c.809T>A	c.(808-810)CTG>CAG	p.L270Q	ATP10B_uc003lyp.2_Missense_Mutation_p.L270Q|ATP10B_uc011deg.1_Missense_Mutation_p.L314Q|ATP10B_uc003lyo.2_Missense_Mutation_p.L242Q	NM_025153	NP_079429	O94823	AT10B_HUMAN	ATPase, class V, type 10B	270	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Medulloblastoma(196;0.0377)|all_neural(177;0.121)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GCCTCGAAGCAGAAGACTCTC	0.493													71	41	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	5	161178452	161178452	+	IGR	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:161178452G>A								GABRA6 (48854 upstream) : GABRA1 (95745 downstream)																							CCTGCTCCGTGGTTACTGCAG	0.507													42	71	---	---	---	---	PASS
GABRA1	2554	broad.mit.edu	37	5	161324136	161324136	+	Missense_Mutation	SNP	C	G	G	rs80337021	by1000genomes	TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:161324136C>G	uc010jiw.2	+	11	1547	c.1079C>G	c.(1078-1080)CCT>CGT	p.P360R	GABRA1_uc010jix.2_Missense_Mutation_p.P360R|GABRA1_uc010jiy.2_Missense_Mutation_p.P360R|GABRA1_uc003lyx.3_Missense_Mutation_p.P360R|GABRA1_uc010jiz.2_Missense_Mutation_p.P360R|GABRA1_uc010jja.2_Missense_Mutation_p.P360R|GABRA1_uc010jjb.2_Missense_Mutation_p.P360R	NM_000806	NP_000797	P14867	GBRA1_HUMAN	gamma-aminobutyric acid (GABA) A receptor, alpha	360	Cytoplasmic (Probable).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|pancreas(1)	3	Renal(175;0.00259)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.228)	Alprazolam(DB00404)|Butabarbital(DB00237)|Butalbital(DB00241)|Butethal(DB01353)|Chlordiazepoxide(DB00475)|Clobazam(DB00349)|Clonazepam(DB01068)|Clorazepate(DB00628)|Desflurane(DB01189)|Diazepam(DB00829)|Enflurane(DB00228)|Ethanol(DB00898)|Ethchlorvynol(DB00189)|Etomidate(DB00292)|Flumazenil(DB01205)|Flurazepam(DB00690)|Halazepam(DB00801)|Halothane(DB01159)|Hexobarbital(DB01355)|Isoflurane(DB00753)|Lorazepam(DB00186)|Meprobamate(DB00371)|Metharbital(DB00463)|Methohexital(DB00474)|Methoxyflurane(DB01028)|Methylphenobarbital(DB00849)|Methyprylon(DB01107)|Midazolam(DB00683)|Nitrazepam(DB01595)|Oxazepam(DB00842)|Pentobarbital(DB00312)|Phenobarbital(DB01174)|Picrotoxin(DB00466)|Prazepam(DB01588)|Primidone(DB00794)|Progabide(DB00837)|Propofol(DB00818)|Quazepam(DB01589)|Secobarbital(DB00418)|Sevoflurane(DB01236)|Talbutal(DB00306)|Thiamylal(DB01154)|Thiopental(DB00599)|Topiramate(DB00273)|Zaleplon(DB00962)|Zolpidem(DB00425)	GTAAAGGATCCTCTTATTAAG	0.433													135	81	---	---	---	---	PASS
DOCK2	1794	broad.mit.edu	37	5	169423111	169423111	+	Silent	SNP	C	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:169423111C>T	uc003maf.2	+	30	3095	c.3015C>T	c.(3013-3015)AAC>AAT	p.N1005N	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Silent_p.N497N	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	1005	Interaction with CRKL.				actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GAGCTATCAACAAGTTTGCAG	0.478													23	61	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	5	177482899	177482899	+	IGR	SNP	A	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:177482899A>G								FAM153C (6811 upstream) : N4BP3 (57657 downstream)																							GATGAGGAGAATGACGATTTT	0.542													40	37	---	---	---	---	PASS
DSP	1832	broad.mit.edu	37	6	7572250	7572250	+	Silent	SNP	A	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:7572250A>T	uc003mxp.1	+	15	2358	c.2079A>T	c.(2077-2079)CTA>CTT	p.L693L	DSP_uc003mxq.1_Silent_p.L693L	NM_004415	NP_004406	P15924	DESP_HUMAN	desmoplakin isoform I	693	Globular 1.				cellular component disassembly involved in apoptosis|keratinocyte differentiation|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural constituent of cytoskeleton			central_nervous_system(6)|ovary(2)|skin(1)	9	Ovarian(93;0.0584)	all_hematologic(90;0.236)		OV - Ovarian serous cystadenocarcinoma(45;0.000508)		ACCTCCCTCTAGCAGACCAGG	0.438													22	58	---	---	---	---	PASS
C6orf105	84830	broad.mit.edu	37	6	11768579	11768579	+	Missense_Mutation	SNP	T	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:11768579T>C	uc003nab.2	-	2	479	c.191A>G	c.(190-192)GAT>GGT	p.D64G	C6orf105_uc011dip.1_Missense_Mutation_p.D82G	NM_032744	NP_116133	Q96IZ2	CF105_HUMAN	hypothetical protein LOC84830 isoform 2	64	Helical; (Potential).					integral to membrane					0	Ovarian(93;0.0848)|Breast(50;0.0871)	all_hematologic(90;0.135)	Epithelial(50;0.146)|BRCA - Breast invasive adenocarcinoma(129;0.193)			CAGCACATCATCCAGGCAGGT	0.418													87	184	---	---	---	---	PASS
OR2B3	442184	broad.mit.edu	37	6	29054114	29054114	+	Silent	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:29054114C>A	uc003nlx.2	-	1	977	c.912G>T	c.(910-912)CTG>CTT	p.L304L		NM_001005226	NP_001005226			olfactory receptor, family 2, subfamily B,											skin(1)	1						TTCTTGGCATCAGCCTCTTGA	0.378													51	48	---	---	---	---	PASS
MUC21	394263	broad.mit.edu	37	6	30954401	30954401	+	Missense_Mutation	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:30954401C>A	uc003nsh.2	+	2	700	c.449C>A	c.(448-450)GCC>GAC	p.A150D	MUC21_uc003nsi.1_RNA	NM_001010909	NP_001010909	Q5SSG8	MUC21_HUMAN	mucin 21 precursor	150	Ser-rich.|28 X 15 AA approximate tandem repeats.|9.|Extracellular (Potential).					integral to membrane|plasma membrane				ovary(1)|skin(1)	2						GCTAGCACAGCCACCAACTCT	0.617													103	215	---	---	---	---	PASS
TNF	7124	broad.mit.edu	37	6	31543027	31543027	+	5'Flank	SNP	C	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:31543027C>T	uc003nui.2	+						TNF_uc003nuj.2_5'Flank	NM_000594	NP_000585	P01375	TNFA_HUMAN	tumor necrosis factor alpha						activation of caspase activity|activation of MAPK activity|activation of MAPKKK activity|anti-apoptosis|cellular response to nicotine|chronic inflammatory response to antigenic stimulus|embryonic digestive tract development|induction of apoptosis via death domain receptors|induction of necroptosis by extracellular signals|leukocyte tethering or rolling|necrotic cell death|negative regulation of branching involved in lung morphogenesis|negative regulation of cytokine secretion involved in immune response|negative regulation of fat cell differentiation|negative regulation of interleukin-6 production|negative regulation of lipid catabolic process|negative regulation of lipid storage|negative regulation of viral genome replication|positive regulation of calcidiol 1-monooxygenase activity|positive regulation of chemokine biosynthetic process|positive regulation of chemokine production|positive regulation of cytokine secretion|positive regulation of ERK1 and ERK2 cascade|positive regulation of fever generation|positive regulation of heterotypic cell-cell adhesion|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of membrane protein ectodomain proteolysis|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of NFAT protein import into nucleus|positive regulation of nitric oxide biosynthetic process|positive regulation of osteoclast differentiation|positive regulation of peptidyl-serine phosphorylation|positive regulation of podosome assembly|positive regulation of protein complex disassembly|positive regulation of smooth muscle cell proliferation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of vitamin D biosynthetic process|protein import into nucleus, translocation|receptor biosynthetic process|regulation of insulin secretion|response to glucocorticoid stimulus|response to salt stress|response to virus|sequestering of triglyceride|transformed cell apoptosis|tumor necrosis factor-mediated signaling pathway	external side of plasma membrane|extracellular space|integral to plasma membrane|membrane raft|phagocytic cup|recycling endosome	cytokine activity|identical protein binding|protease binding|transcription regulatory region DNA binding|tumor necrosis factor receptor binding			ovary(1)|pancreas(1)|skin(1)	3		Ovarian(999;0.00556)			Adalimumab(DB00051)|Adenosine(DB00640)|Amrinone(DB01427)|Atorvastatin(DB01076)|Chloroquine(DB00608)|Clenbuterol(DB01407)|Etanercept(DB00005)|Glucosamine(DB01296)|Infliximab(DB00065)|Naltrexone(DB00704)|Pranlukast(DB01411)|Procaterol(DB01366)|Saquinavir(DB01232)|Simvastatin(DB00641)|Thalidomide(DB01041)	TTTTGAGGGGCATGGGGACGG	0.537									Naso-/Oropharyngeal/Laryngeal_Cancer_Familial_Clustering_of				6	2	---	---	---	---	PASS
CDKN1A	1026	broad.mit.edu	37	6	36652195	36652195	+	Missense_Mutation	SNP	C	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:36652195C>T	uc003omm.3	+	2	439	c.317C>T	c.(316-318)GCA>GTA	p.A106V	CDKN1A_uc011dtq.1_Missense_Mutation_p.A140V|CDKN1A_uc003oml.2_Missense_Mutation_p.A106V|CDKN1A_uc003omn.2_Missense_Mutation_p.A106V	NM_000389	NP_000380	P38936	CDN1A_HUMAN	cyclin-dependent kinase inhibitor 1A	106					cell cycle arrest|cellular response to extracellular stimulus|cellular response to ionizing radiation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|G2/M transition of mitotic cell cycle|induction of apoptosis by intracellular signals|negative regulation of cell growth|negative regulation of cell proliferation|positive regulation of fibroblast proliferation|positive regulation of reactive oxygen species metabolic process|Ras protein signal transduction|S phase of mitotic cell cycle|stress-induced premature senescence	cyclin-dependent protein kinase holoenzyme complex|cytosol|nucleoplasm|PCNA-p21 complex	cyclin-dependent protein kinase activating kinase activity|cyclin-dependent protein kinase inhibitor activity|metal ion binding			ovary(1)|breast(1)	2						CAGGGGACAGCAGAGGAAGAC	0.657									Multiple_Endocrine_Neoplasia_type_1				17	33	---	---	---	---	PASS
CUL9	23113	broad.mit.edu	37	6	43189039	43189039	+	Silent	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:43189039G>A	uc003ouk.2	+	34	6807	c.6732G>A	c.(6730-6732)GAG>GAA	p.E2244E	CUL9_uc003oul.2_Silent_p.E2216E|CUL9_uc010jyk.2_Silent_p.E1396E|CUL9_uc003oun.2_Silent_p.E39E	NM_015089	NP_055904	Q8IWT3	CUL9_HUMAN	p53-associated parkin-like cytoplasmic protein	2244	RING-type 2.				ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex|cytoplasm	ATP binding|ubiquitin protein ligase binding|zinc ion binding			ovary(5)|lung(3)|skin(2)|breast(1)|central_nervous_system(1)	12						CTCCCATCGAGAAGAACGAGG	0.637													24	56	---	---	---	---	PASS
GPR116	221395	broad.mit.edu	37	6	46832859	46832859	+	Missense_Mutation	SNP	G	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:46832859G>C	uc003oyo.3	-	14	2199	c.1910C>G	c.(1909-1911)ACT>AGT	p.T637S	GPR116_uc011dwj.1_Missense_Mutation_p.T192S|GPR116_uc011dwk.1_Missense_Mutation_p.T66S|GPR116_uc003oyp.3_Missense_Mutation_p.T495S|GPR116_uc003oyq.3_Missense_Mutation_p.T637S|GPR116_uc010jzi.1_Missense_Mutation_p.T309S	NM_001098518	NP_001091988	Q8IZF2	GP116_HUMAN	G-protein coupled receptor 116 precursor	637	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(1)|skin(1)	2			Lung(136;0.192)			CACATCAACAGTTTTTGAACA	0.358													135	58	---	---	---	---	PASS
LMBRD1	55788	broad.mit.edu	37	6	70490434	70490434	+	Missense_Mutation	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:70490434C>A	uc003pfa.2	-	3	374	c.259G>T	c.(259-261)GCT>TCT	p.A87S	LMBRD1_uc003pez.2_Missense_Mutation_p.A14S|LMBRD1_uc010kal.2_Missense_Mutation_p.A14S|LMBRD1_uc003pfb.2_RNA	NM_018368	NP_060838	Q9NUN5	LMBD1_HUMAN	liver regeneration p-53 related protein	87	Extracellular (Potential).				interspecies interaction between organisms|transport	integral to membrane|lysosomal membrane	cobalamin binding			ovary(1)	1						CTGACATTAGCATTAGCCCAG	0.333													58	40	---	---	---	---	PASS
REV3L	5980	broad.mit.edu	37	6	111694235	111694235	+	Missense_Mutation	SNP	A	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:111694235A>G	uc003puy.3	-	13	5646	c.5323T>C	c.(5323-5325)TCT>CCT	p.S1775P	REV3L_uc003pux.3_Missense_Mutation_p.S1697P|REV3L_uc003puz.3_Missense_Mutation_p.S1697P	NM_002912	NP_002903	O60673	DPOLZ_HUMAN	DNA polymerase zeta	1775					DNA-dependent DNA replication|translesion synthesis	nucleus|zeta DNA polymerase complex	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding			large_intestine(2)|ovary(2)|skin(2)	6		all_cancers(87;7.57e-06)|Acute lymphoblastic leukemia(125;2.46e-08)|all_hematologic(75;1.08e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.0314)|Epithelial(106;0.057)|all cancers(137;0.0663)		TTCAATCTAGATTTTTCACTT	0.403								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					116	220	---	---	---	---	PASS
SYNE1	23345	broad.mit.edu	37	6	152652799	152652799	+	Missense_Mutation	SNP	T	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:152652799T>A	uc010kiw.2	-	78	13623	c.13021A>T	c.(13021-13023)ACC>TCC	p.T4341S	SYNE1_uc003qot.3_Missense_Mutation_p.T4270S|SYNE1_uc003qou.3_Missense_Mutation_p.T4341S|SYNE1_uc010kiz.2_Missense_Mutation_p.T96S	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	4341	Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		TCCAAGTTGGTGACTGACACT	0.458										HNSCC(10;0.0054)			155	82	---	---	---	---	PASS
SYNE1	23345	broad.mit.edu	37	6	152730772	152730772	+	Silent	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:152730772G>A	uc010kiw.2	-	43	6905	c.6303C>T	c.(6301-6303)GTC>GTT	p.V2101V	SYNE1_uc003qot.3_Silent_p.V2108V|SYNE1_uc003qou.3_Silent_p.V2101V|SYNE1_uc010kjb.1_Silent_p.V2084V	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	2101	Cytoplasmic (Potential).|Potential.				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		CATTTTCTAAGACTTTAGATA	0.333										HNSCC(10;0.0054)			34	78	---	---	---	---	PASS
IQCE	23288	broad.mit.edu	37	7	2617966	2617966	+	Missense_Mutation	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:2617966G>A	uc003smo.3	+	7	740	c.556G>A	c.(556-558)GAG>AAG	p.E186K	IQCE_uc010ksm.1_Missense_Mutation_p.E186K|IQCE_uc003sml.1_Missense_Mutation_p.E186K|IQCE_uc011jvy.1_Missense_Mutation_p.E170K|IQCE_uc011jvz.1_Missense_Mutation_p.E121K|IQCE_uc003smk.3_Missense_Mutation_p.E170K|IQCE_uc003smn.3_Missense_Mutation_p.E121K	NM_152558	NP_689771	Q6IPM2	IQCE_HUMAN	IQ motif containing E isoform 1	186	Potential.										0		Ovarian(82;0.0112)		OV - Ovarian serous cystadenocarcinoma(56;1.23e-13)		CCGGCAGATAGAGCAGCTCCT	0.632													107	58	---	---	---	---	PASS
STK31	56164	broad.mit.edu	37	7	23871951	23871951	+	Missense_Mutation	SNP	A	T	T	rs33998018	byFrequency	TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:23871951A>T	uc003sws.3	+	24	3093	c.3026A>T	c.(3025-3027)AAG>ATG	p.K1009M	STK31_uc003swt.3_Missense_Mutation_p.K986M|STK31_uc011jze.1_Missense_Mutation_p.K986M|STK31_uc010kuq.2_Missense_Mutation_p.K986M|STK31_uc003swv.1_Missense_Mutation_p.K175M	NM_031414	NP_113602	Q9BXU1	STK31_HUMAN	serine/threonine kinase 31 isoform a	1009	Protein kinase.						ATP binding|nucleic acid binding|protein serine/threonine kinase activity			skin(3)|lung(2)|ovary(2)|stomach(2)	9						TGTATGGAGAAGACAAGAAAT	0.318													51	220	---	---	---	---	PASS
HOXA11	3207	broad.mit.edu	37	7	27224431	27224431	+	Silent	SNP	C	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:27224431C>T	uc003syx.2	-	1	405	c.333G>A	c.(331-333)TCG>TCA	p.S111S	HOXA11_uc003syy.2_RNA|HOXA11AS_uc003syz.1_5'Flank	NM_005523	NP_005514	P31270	HXA11_HUMAN	homeobox A11	111					branching involved in ureteric bud morphogenesis|cartilage development involved in endochondral bone morphogenesis|developmental growth|dorsal/ventral pattern formation|mesodermal cell fate specification|positive regulation of cell development|positive regulation of chondrocyte differentiation	protein-DNA complex|transcription factor complex	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			lung(1)|breast(1)	2						AGACGTTGGCCGAGCTCTTGG	0.657			T	NUP98	CML								128	70	---	---	---	---	PASS
NOD1	10392	broad.mit.edu	37	7	30492391	30492391	+	Silent	SNP	C	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:30492391C>T	uc003tav.2	-	6	1165	c.642G>A	c.(640-642)CGG>CGA	p.R214R	NOD1_uc010kvs.2_Intron	NM_006092	NP_006083	Q9Y239	NOD1_HUMAN	nucleotide-binding oligomerization domain	214	NACHT.				activation of MAPK activity|detection of bacterium|induction of apoptosis|inflammatory response|innate immune response|interleukin-8 biosynthetic process|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of dendritic cell antigen processing and presentation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protein oligomerization|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	basolateral plasma membrane|cytosol	ATP binding|CARD domain binding|caspase activator activity|peptidoglycan binding|protein homodimerization activity			ovary(1)|skin(1)	2						GGCTCTGCAGCCGCTGTAGCA	0.602													58	173	---	---	---	---	PASS
TBX20	57057	broad.mit.edu	37	7	35289771	35289771	+	Missense_Mutation	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:35289771G>T	uc011kas.1	-	2	183	c.172C>A	c.(172-174)CTG>ATG	p.L58M		NM_001077653	NP_001071121	Q9UMR3	TBX20_HUMAN	T-box transcription factor TBX20	58						nucleus	DNA binding			central_nervous_system(1)	1						AGGCTGGTCAGCTCACCCAGG	0.562													46	40	---	---	---	---	PASS
POM121L12	285877	broad.mit.edu	37	7	53103841	53103841	+	Silent	SNP	C	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:53103841C>T	uc003tpz.2	+	1	493	c.477C>T	c.(475-477)CGC>CGT	p.R159R		NM_182595	NP_872401	Q8N7R1	P1L12_HUMAN	POM121 membrane glycoprotein-like 12	159											0						AGAGAgcccgccccgcaggcc	0.592													46	26	---	---	---	---	PASS
SEMA3E	9723	broad.mit.edu	37	7	83014679	83014679	+	Nonsense_Mutation	SNP	A	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:83014679A>T	uc003uhy.1	-	16	2272	c.1806T>A	c.(1804-1806)TGT>TGA	p.C602*		NM_012431	NP_036563	O15041	SEM3E_HUMAN	semaphorin 3E precursor	602	Ig-like C2-type.				axon guidance	extracellular space|membrane	receptor activity			ovary(3)	3		Medulloblastoma(109;0.109)				ATCGTGGGGTACATTCCAGCA	0.398													388	91	---	---	---	---	PASS
DBF4	10926	broad.mit.edu	37	7	87537407	87537407	+	Missense_Mutation	SNP	G	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:87537407G>C	uc003ujf.1	+	12	2458	c.1954G>C	c.(1954-1956)GAG>CAG	p.E652Q	DBF4_uc003ujh.1_Missense_Mutation_p.E392Q|DBF4_uc003ujg.1_Missense_Mutation_p.E428Q|DBF4_uc011khf.1_Missense_Mutation_p.E419Q	NM_006716	NP_006707	Q9UBU7	DBF4A_HUMAN	activator of S phase kinase	652					cell cycle checkpoint|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle	nucleoplasm	enzyme activator activity|nucleic acid binding|protein binding|zinc ion binding			lung(2)	2	Esophageal squamous(14;0.00202)	Breast(660;0.0334)				TATTTGGGAAGAGGAAAATTC	0.333													114	28	---	---	---	---	PASS
ZNF804B	219578	broad.mit.edu	37	7	88965553	88965553	+	Missense_Mutation	SNP	C	A	A	rs141579525	byFrequency	TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:88965553C>A	uc011khi.1	+	4	3795	c.3257C>A	c.(3256-3258)ACT>AAT	p.T1086N		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	1086						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			ACTGGTGTGACTGATTCAACA	0.353										HNSCC(36;0.09)			108	23	---	---	---	---	PASS
DNAJB9	4189	broad.mit.edu	37	7	108213723	108213723	+	Missense_Mutation	SNP	A	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:108213723A>G	uc003vfn.2	+	3	800	c.598A>G	c.(598-600)AGC>GGC	p.S200G		NM_012328	NP_036460	Q9UBS3	DNJB9_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 9	200					ER-associated protein catabolic process|protein folding	endoplasmic reticulum|nucleolus	heat shock protein binding|misfolded protein binding|unfolded protein binding				0						TCATGGATCTAGCAAGCACTG	0.368													264	76	---	---	---	---	PASS
FEZF1	389549	broad.mit.edu	37	7	121942061	121942061	+	Missense_Mutation	SNP	C	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:121942061C>T	uc003vkd.2	-	4	1492	c.1418G>A	c.(1417-1419)GGC>GAC	p.G473D	FEZF1_uc003vkc.2_Missense_Mutation_p.G423D|uc010lko.1_5'Flank	NM_001024613	NP_001019784	A0PJY2	FEZF1_HUMAN	FEZ family zinc finger 1 isoform 1	473					cell differentiation|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|breast(1)	3						TCACTGGTGGCCCTGGTGGAG	0.393													78	27	---	---	---	---	PASS
SLC13A1	6561	broad.mit.edu	37	7	122774573	122774573	+	Missense_Mutation	SNP	C	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:122774573C>T	uc003vkm.2	-	8	848	c.823G>A	c.(823-825)GAC>AAC	p.D275N	SLC13A1_uc010lks.2_Missense_Mutation_p.D151N	NM_022444	NP_071889	Q9BZW2	S13A1_HUMAN	solute carrier family 13 (sodium/sulfate	275						integral to membrane|plasma membrane	sodium:sulfate symporter activity			ovary(2)	2					Succinic acid(DB00139)	CAACGACAGTCAGGATAGCGT	0.483													101	34	---	---	---	---	PASS
OPN1SW	611	broad.mit.edu	37	7	128412600	128412600	+	Silent	SNP	G	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:128412600G>C	uc003vnt.3	-	5	1041	c.1041C>G	c.(1039-1041)CCC>CCG	p.P347P		NM_001708	NP_001699	P03999	OPSB_HUMAN	opsin 1 (cone pigments), short-wave-sensitive	347	Cytoplasmic (Potential).				phototransduction|protein-chromophore linkage|visual perception	integral to plasma membrane	G-protein coupled receptor activity|photoreceptor activity				0						GTCCTCAGTTGGGGCCAACTT	0.423													130	36	---	---	---	---	PASS
AKR1B10	57016	broad.mit.edu	37	7	134222968	134222968	+	Missense_Mutation	SNP	A	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:134222968A>C	uc003vrr.2	+	8	1084	c.764A>C	c.(763-765)CAG>CCG	p.Q255P		NM_020299	NP_064695	O60218	AK1BA_HUMAN	aldo-keto reductase family 1, member B10	255					cellular aldehyde metabolic process|digestion|steroid metabolic process	cytoplasm	aldo-keto reductase (NADP) activity|protein binding			skin(5)	5						TTCCATATCCAGAGGAATGTG	0.488													337	117	---	---	---	---	PASS
CSMD1	64478	broad.mit.edu	37	8	2964070	2964070	+	Missense_Mutation	SNP	C	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:2964070C>T	uc011kwk.1	-	46	7322	c.6932G>A	c.(6931-6933)GGT>GAT	p.G2311D	CSMD1_uc011kwj.1_Missense_Mutation_p.G1703D|CSMD1_uc010lrg.2_Missense_Mutation_p.G379D	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	2311	Extracellular (Potential).|Sushi 13.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		TGGGAGAGAACCCTCAAACTG	0.433													14	42	---	---	---	---	PASS
DOK2	9046	broad.mit.edu	37	8	21769789	21769789	+	Missense_Mutation	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:21769789G>T	uc003wzy.1	-	2	389	c.296C>A	c.(295-297)GCA>GAA	p.A99E	DOK2_uc003wzx.1_Missense_Mutation_p.A99E|DOK2_uc003wzz.1_5'UTR|DOK2_uc010lth.1_Intron	NM_003974	NP_003965	O60496	DOK2_HUMAN	docking protein 2	99	PH.				blood coagulation|leukocyte migration	cytosol	identical protein binding|insulin receptor binding				0				Colorectal(74;0.0145)|COAD - Colon adenocarcinoma(73;0.0608)		GCGCTCCGCTGCAGGGGCCGC	0.736													5	8	---	---	---	---	PASS
ADAM7	8756	broad.mit.edu	37	8	24304711	24304711	+	Missense_Mutation	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:24304711G>A	uc003xeb.2	+	3	282	c.169G>A	c.(169-171)GAA>AAA	p.E57K	ADAM7_uc003xea.1_Missense_Mutation_p.E57K	NM_003817	NP_003808	Q9H2U9	ADAM7_HUMAN	a disintegrin and metalloproteinase domain 7	57	Extracellular (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(1)|kidney(1)	5		Prostate(55;0.0181)		Colorectal(74;0.0199)|COAD - Colon adenocarcinoma(73;0.0754)|BRCA - Breast invasive adenocarcinoma(99;0.182)		AACGTATGAAGAAGAATTGTT	0.353													44	116	---	---	---	---	PASS
UNC5D	137970	broad.mit.edu	37	8	35631845	35631845	+	Missense_Mutation	SNP	C	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:35631845C>T	uc003xjr.1	+	16	2835	c.2507C>T	c.(2506-2508)GCA>GTA	p.A836V	UNC5D_uc003xjs.1_Missense_Mutation_p.A831V|UNC5D_uc003xju.1_Missense_Mutation_p.A412V	NM_080872	NP_543148	Q6UXZ4	UNC5D_HUMAN	unc-5 homolog D precursor	836	Cytoplasmic (Potential).				apoptosis|axon guidance	integral to membrane	receptor activity			upper_aerodigestive_tract(2)|ovary(2)|pancreas(1)|skin(1)	6				READ - Rectum adenocarcinoma(1;1.31e-05)|Colorectal(1;0.000723)		ACTTTCTTCGCACAAGAGGAC	0.428													39	228	---	---	---	---	PASS
ADAM9	8754	broad.mit.edu	37	8	38940183	38940183	+	Silent	SNP	A	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:38940183A>T	uc003xmr.2	+	17	1983	c.1905A>T	c.(1903-1905)GTA>GTT	p.V635V	ADAM9_uc011lcf.1_RNA|ADAM9_uc011lcg.1_Intron|ADAM9_uc010lwr.2_RNA|ADAM9_uc003xms.2_RNA	NM_003816	NP_003807	Q13443	ADAM9_HUMAN	ADAM metallopeptidase domain 9 isoform 1	635	Extracellular (Potential).				activation of MAPKK activity|cell-cell adhesion mediated by integrin|cell-matrix adhesion|keratinocyte differentiation|monocyte activation|PMA-inducible membrane protein ectodomain proteolysis|PMA-inducible membrane protein ectodomain proteolysis|positive regulation of cell adhesion mediated by integrin|positive regulation of keratinocyte migration|positive regulation of macrophage fusion|positive regulation of membrane protein ectodomain proteolysis|positive regulation of protein secretion|response to calcium ion|response to glucocorticoid stimulus|response to hydrogen peroxide|response to manganese ion|response to tumor necrosis factor|transforming growth factor beta receptor signaling pathway	extracellular space|extracellular space|integral to membrane|intrinsic to external side of plasma membrane	collagen binding|integrin binding|laminin binding|metalloendopeptidase activity|protein kinase C binding|SH3 domain binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2		all_lung(54;0.00292)|Lung NSC(58;0.0115)|Hepatocellular(245;0.0153)	LUSC - Lung squamous cell carcinoma(45;2.74e-07)			TCCAGTGTGTAGATGCTTCTG	0.264													35	225	---	---	---	---	PASS
SOX17	64321	broad.mit.edu	37	8	55371731	55371731	+	Silent	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:55371731C>A	uc003xsb.3	+	2	625	c.421C>A	c.(421-423)CGG>AGG	p.R141R		NM_022454	NP_071899	Q9H6I2	SOX17_HUMAN	SRY-box 17	141					angiogenesis|cardiac cell fate determination|endocardial cell differentiation|endocardium formation|endoderm formation|heart formation|heart looping|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cell growth|outflow tract morphogenesis|positive regulation of transcription, DNA-dependent|protein destabilization|protein stabilization|regulation of embryonic development|renal system development|vasculogenesis|Wnt receptor signaling pathway	transcription factor complex	beta-catenin binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription factor binding|transcription regulatory region DNA binding			lung(1)	1		Lung NSC(129;0.109)|all_epithelial(80;0.176)|all_lung(136;0.181)	OV - Ovarian serous cystadenocarcinoma(7;1.9e-07)|Epithelial(17;1.7e-05)|all cancers(17;0.000159)			CCGGCCGCGGCGGCGCAAGCA	0.741													3	9	---	---	---	---	PASS
RP1	6101	broad.mit.edu	37	8	55542773	55542773	+	Missense_Mutation	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:55542773G>A	uc003xsd.1	+	4	6479	c.6331G>A	c.(6331-6333)GTT>ATT	p.V2111I	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	2111					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			TATTTGCCAAGTTGAGACCTC	0.333													76	83	---	---	---	---	PASS
ADHFE1	137872	broad.mit.edu	37	8	67369056	67369056	+	Missense_Mutation	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:67369056G>A	uc003xwb.3	+	11	1025	c.991G>A	c.(991-993)GGA>AGA	p.G331R	ADHFE1_uc003xwd.3_RNA|ADHFE1_uc003xwc.3_Missense_Mutation_p.G283R|ADHFE1_uc003xwe.3_RNA|ADHFE1_uc003xwf.3_RNA|ADHFE1_uc011les.1_Missense_Mutation_p.G261R	NM_144650	NP_653251	Q8IWW8	HOT_HUMAN	alcohol dehydrogenase, iron containing, 1	331					2-oxoglutarate metabolic process|molecular hydrogen transport	mitochondrial matrix	hydroxyacid-oxoacid transhydrogenase activity|metal ion binding			ovary(1)|lung(1)|breast(1)|skin(1)	4		Lung NSC(129;0.197)	Epithelial(68;0.0321)|all cancers(69;0.0751)|BRCA - Breast invasive adenocarcinoma(89;0.0855)|OV - Ovarian serous cystadenocarcinoma(28;0.226)			TTCTAGCCATGGAATGTCTTA	0.348													21	92	---	---	---	---	PASS
E2F5	1875	broad.mit.edu	37	8	86118434	86118434	+	Missense_Mutation	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:86118434G>A	uc003ycz.3	+	4	566	c.529G>A	c.(529-531)GAC>AAC	p.D177N	E2F5_uc003yda.3_Missense_Mutation_p.D177N|E2F5_uc010mab.2_Missense_Mutation_p.D16N|E2F5_uc003ydb.3_5'UTR	NM_001951	NP_001942	Q15329	E2F5_HUMAN	E2F transcription factor 5 isoform 1	177	Dimerization (Potential).				G1 phase of mitotic cell cycle	transcription factor complex	DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(1)	1						AACTCATGAAGACATCTGTAA	0.368													19	118	---	---	---	---	PASS
CNGB3	54714	broad.mit.edu	37	8	87679296	87679296	+	Missense_Mutation	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:87679296G>T	uc003ydx.2	-	6	755	c.709C>A	c.(709-711)CCA>ACA	p.P237T	CNGB3_uc010maj.2_Missense_Mutation_p.P99T	NM_019098	NP_061971	Q9NQW8	CNGB3_HUMAN	cyclic nucleotide gated channel beta 3	237	Helical; Name=H1; (Potential).				signal transduction|visual perception	integral to membrane	cGMP binding			ovary(2)|pancreas(1)	3						AGGCGCAGTGGTATAAAACAG	0.423													68	75	---	---	---	---	PASS
DCAF4L2	138009	broad.mit.edu	37	8	88885771	88885771	+	Silent	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:88885771C>A	uc003ydz.2	-	1	526	c.429G>T	c.(427-429)CTG>CTT	p.L143L		NM_152418	NP_689631	Q8NA75	DC4L2_HUMAN	WD repeat domain 21C	143										ovary(1)	1						CGAAGCACAGCAGAAGGTGGG	0.562													50	150	---	---	---	---	PASS
CSMD3	114788	broad.mit.edu	37	8	113259299	113259299	+	Missense_Mutation	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:113259299C>A	uc003ynu.2	-	64	10331	c.10172G>T	c.(10171-10173)CGC>CTC	p.R3391L	CSMD3_uc003yns.2_Missense_Mutation_p.R2593L|CSMD3_uc003ynt.2_Missense_Mutation_p.R3351L|CSMD3_uc011lhx.1_Missense_Mutation_p.R3222L	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3391	Extracellular (Potential).|Sushi 27.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						GAGGCAGGTGCGTGTTGTAGA	0.398										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			44	64	---	---	---	---	PASS
CSMD3	114788	broad.mit.edu	37	8	113484893	113484893	+	Silent	SNP	T	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:113484893T>G	uc003ynu.2	-	32	5481	c.5322A>C	c.(5320-5322)CTA>CTC	p.L1774L	CSMD3_uc003yns.2_Silent_p.L1046L|CSMD3_uc003ynt.2_Silent_p.L1734L|CSMD3_uc011lhx.1_Silent_p.L1670L	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1774	Extracellular (Potential).|CUB 10.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						AGTTTGGTGATAGAACAGTGC	0.343										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			34	90	---	---	---	---	PASS
CSMD3	114788	broad.mit.edu	37	8	114389026	114389026	+	Intron	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:114389026C>A	uc003ynu.2	-						CSMD3_uc003ynt.2_5'UTR|CSMD3_uc011lhx.1_Intron|CSMD3_uc010mcx.1_Intron|CSMD3_uc003ynx.3_Intron	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1							integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						ACTCCACATTCAACCGGGTTG	0.537										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			60	91	---	---	---	---	PASS
DEPDC6	64798	broad.mit.edu	37	8	120942190	120942190	+	Intron	SNP	A	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:120942190A>T	uc003yow.3	+						DEPDC6_uc011lid.1_Intron	NM_022783	NP_073620	Q8TB45	DPTOR_HUMAN	DEP domain containing 6						intracellular signal transduction|negative regulation of cell size|negative regulation of protein kinase activity|negative regulation of TOR signaling cascade|regulation of apoptosis	intracellular	protein binding				0	Lung NSC(37;9.35e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			TATGTTCCGCATGAAATCCCC	0.433													74	253	---	---	---	---	PASS
KCNK9	51305	broad.mit.edu	37	8	140631126	140631126	+	Missense_Mutation	SNP	C	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:140631126C>G	uc003yvf.1	-	2	564	c.500G>C	c.(499-501)TGC>TCC	p.C167S	KCNK9_uc003yvg.1_Missense_Mutation_p.C167S|KCNK9_uc003yve.1_RNA	NM_016601	NP_057685	Q9NPC2	KCNK9_HUMAN	potassium channel, subfamily K, member 9	167	Helical; (Potential).					integral to membrane|membrane fraction	potassium channel activity|voltage-gated ion channel activity			ovary(2)|lung(1)	3	all_cancers(97;3.94e-14)|all_epithelial(106;4.81e-13)|Lung NSC(106;8.18e-05)|all_lung(105;0.00015)|Ovarian(258;0.00235)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;0.134)	BRCA - Breast invasive adenocarcinoma(115;0.0855)			CGTCCCCATGCAGGAGAAGAA	0.557													42	66	---	---	---	---	PASS
MIR661	724031	broad.mit.edu	37	8	145019424	145019424	+	RNA	SNP	C	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:145019424C>T	hsa-mir-661|MI0003669	-			c.24C>T			PLEC_uc003zac.1_5'Flank|PLEC_uc003zad.2_5'Flank|PLEC_uc003zae.1_5'Flank|PLEC_uc003zaf.1_Intron|PLEC_uc003zag.1_Intron|PLEC_uc003zah.2_Intron|PLEC_uc003zaj.2_Intron																	0						CAGGCCTGCGCCTGCCCCACA	0.697													5	13	---	---	---	---	PASS
GLIS3	169792	broad.mit.edu	37	9	4117993	4117993	+	Silent	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:4117993G>A	uc003zhw.1	-	3	1214	c.1020C>T	c.(1018-1020)GGC>GGT	p.G340G	GLIS3_uc003zhx.1_Silent_p.G495G|GLIS3_uc003zic.1_Silent_p.G495G|GLIS3_uc003zie.1_Silent_p.G495G|GLIS3_uc010mhh.1_Silent_p.G370G|GLIS3_uc003zid.1_Silent_p.G273G|GLIS3_uc010mhi.1_Silent_p.G302G|GLIS3_uc003zif.1_Silent_p.G273G|GLIS3_uc003zig.1_Silent_p.G339G|GLIS3_uc003zih.1_Silent_p.G273G|GLIS3_uc003zhy.1_Silent_p.G273G|GLIS3_uc003zhz.1_Silent_p.G273G|GLIS3_uc003zib.1_Silent_p.G339G|GLIS3_uc010mhg.1_Silent_p.G273G	NM_152629	NP_689842	Q8NEA6	GLIS3_HUMAN	GLIS family zinc finger 3 isoform b	340					negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter		DNA binding|zinc ion binding			ovary(1)	1		Acute lymphoblastic leukemia(2;0.00464)|Breast(48;0.148)		Lung(2;0.00163)|GBM - Glioblastoma multiforme(50;0.00301)|LUSC - Lung squamous cell carcinoma(2;0.0148)		TGCCCCCGATGCCGTCCATCT	0.682													29	122	---	---	---	---	PASS
C9orf68	55064	broad.mit.edu	37	9	4625422	4625422	+	Missense_Mutation	SNP	T	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:4625422T>G	uc011llz.1	-	5	638	c.400A>C	c.(400-402)ACC>CCC	p.T134P	C9orf68_uc003zik.2_RNA|C9orf68_uc003zil.2_RNA|C9orf68_uc010mhj.2_Missense_Mutation_p.T192P|C9orf68_uc011lly.1_Missense_Mutation_p.T69P	NM_001039395	NP_001034484	B4DIY4	B4DIY4_HUMAN	hypothetical protein LOC55064	134											0		Breast(48;0.0456)		GBM - Glioblastoma multiforme(50;0.0222)		AAATGCCTGGTAGAATATTGA	0.433													30	128	---	---	---	---	PASS
TRPM3	80036	broad.mit.edu	37	9	73213485	73213485	+	Silent	SNP	G	C	C	rs145029936		TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:73213485G>C	uc004aid.2	-	20	3106	c.2862C>G	c.(2860-2862)GTC>GTG	p.V954V	TRPM3_uc004ahu.2_Silent_p.V784V|TRPM3_uc004ahv.2_Silent_p.V756V|TRPM3_uc004ahw.2_Silent_p.V826V|TRPM3_uc004ahx.2_Silent_p.V813V|TRPM3_uc004ahy.2_Silent_p.V816V|TRPM3_uc004ahz.2_Silent_p.V803V|TRPM3_uc004aia.2_Silent_p.V801V|TRPM3_uc004aib.2_Silent_p.V791V|TRPM3_uc004aic.2_Silent_p.V954V	NM_001007471	NP_001007472	Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel,	979	Helical; (Potential).					integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9						GGATCATTCCGACAGAAAACA	0.498													48	67	---	---	---	---	PASS
FLJ46321	389763	broad.mit.edu	37	9	84607401	84607401	+	Silent	SNP	C	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:84607401C>T	uc004amn.2	+	4	2063	c.2016C>T	c.(2014-2016)ATC>ATT	p.I672I		NM_001001670	NP_001001670	Q6ZQQ2	F75D1_HUMAN	hypothetical protein LOC389763	672						integral to membrane					0						CGATCTCCATCATTCCTGGAG	0.502													53	141	---	---	---	---	PASS
HIATL1	84641	broad.mit.edu	37	9	97203277	97203277	+	Missense_Mutation	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:97203277G>A	uc004aur.2	+	5	675	c.406G>A	c.(406-408)GCG>ACG	p.A136T	HIATL1_uc011luh.1_Missense_Mutation_p.A71T	NM_032558	NP_115947	Q5SR56	HIAL1_HUMAN	hippocampus abundant transcript-like 1	136	Helical; (Potential).				transmembrane transport	integral to membrane|plasma membrane	protein binding|transporter activity			ovary(2)	2		Acute lymphoblastic leukemia(62;0.136)				GTGGTATTTTGCGATGATTTC	0.408													159	54	---	---	---	---	PASS
ZNF883	169834	broad.mit.edu	37	9	115760384	115760384	+	Silent	SNP	C	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:115760384C>T	uc011lwy.1	-	5	1395	c.156G>A	c.(154-156)CGG>CGA	p.R52R		NM_001101338	NP_001094808	P0CG24	ZN883_HUMAN	hypothetical protein LOC169834	52	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GATTACTGTTCCGGGTAAAGG	0.373													30	76	---	---	---	---	PASS
TNC	3371	broad.mit.edu	37	9	117808740	117808740	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:117808740C>A	uc004bjj.3	-	17	5436	c.5074G>T	c.(5074-5076)GGA>TGA	p.G1692*	TNC_uc010mvf.2_Intron	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	1692	Fibronectin type-III 12.				cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						TTGCTTATTCCATAGAGTTCA	0.458													136	440	---	---	---	---	PASS
SLC27A4	10999	broad.mit.edu	37	9	131117388	131117388	+	Missense_Mutation	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:131117388G>T	uc004but.2	+	10	1665	c.1381G>T	c.(1381-1383)GAT>TAT	p.D461Y	SLC27A4_uc004buu.2_Intron	NM_005094	NP_005085	Q6P1M0	S27A4_HUMAN	solute carrier family 27 (fatty acid	461					long-chain fatty acid transport|transmembrane transport	integral to membrane	fatty acid transporter activity|nucleotide binding|protein binding				0						GCGCCGCTTCGATGGCTACCT	0.622													17	42	---	---	---	---	PASS
DOLK	22845	broad.mit.edu	37	9	131708257	131708257	+	Silent	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:131708257G>A	uc004bwr.2	-	1	1756	c.1326C>T	c.(1324-1326)GCC>GCT	p.A442A	NUP188_uc004bws.1_5'Flank|NUP188_uc004bwq.1_Intron	NM_014908	NP_055723	Q9UPQ8	DOLK_HUMAN	dolichol kinase	442	Helical; (Potential).				dolichyl diphosphate biosynthetic process|dolichyl monophosphate biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to endoplasmic reticulum membrane|membrane fraction	dolichol kinase activity				0						CCAGGACACCGGCATAGGGGA	0.607													90	135	---	---	---	---	PASS
PTPLA	9200	broad.mit.edu	37	10	17646017	17646017	+	Missense_Mutation	SNP	C	A	A	rs150586011		TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:17646017C>A	uc001ipg.2	-	2	322	c.287G>T	c.(286-288)CGT>CTT	p.R96L	PTPLA_uc001iph.1_Missense_Mutation_p.R96L	NM_014241	NP_055056	B0YJ81	HACD1_HUMAN	protein tyrosine phosphatase-like, member A	96	Lumenal (Potential).				fatty acid biosynthetic process|multicellular organismal development|signal transduction	endoplasmic reticulum membrane|integral to membrane	lyase activity|protein tyrosine phosphatase activity			central_nervous_system(1)|skin(1)	2						CATATAAAAACGTACCATGGC	0.289													15	80	---	---	---	---	PASS
ARMC4	55130	broad.mit.edu	37	10	28284072	28284072	+	5'UTR	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:28284072G>A	uc009xky.2	-	2					ARMC4_uc001itz.2_5'UTR	NM_018076	NP_060546	Q5T2S8	ARMC4_HUMAN	armadillo repeat containing 4								binding			ovary(4)|skin(2)	6						CCACACCCATGGGATCCACCG	0.483													20	50	---	---	---	---	PASS
ZWINT	11130	broad.mit.edu	37	10	58119447	58119447	+	Splice_Site	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:58119447C>A	uc001jjx.1	-	4	460	c.423_splice	c.e4+1	p.K141_splice	ZWINT_uc001jjy.1_Splice_Site_p.K141_splice|ZWINT_uc001jka.1_Splice_Site_p.K141_splice|ZWINT_uc009xoy.1_Splice_Site	NM_007057	NP_008988	O95229	ZWINT_HUMAN	ZW10 interactor isoform a						cell division|establishment of localization in cell|mitotic cell cycle checkpoint|mitotic prometaphase|mitotic sister chromatid segregation|phosphatidylinositol-mediated signaling|spindle organization	condensed chromosome kinetochore|cytosol|nucleus	protein N-terminus binding				0						CCTGGGTGTACCTTGGCCTGG	0.547													124	303	---	---	---	---	PASS
PPP3CB	5532	broad.mit.edu	37	10	75198107	75198107	+	Missense_Mutation	SNP	C	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:75198107C>G	uc001jue.2	-	14	1603	c.1468G>C	c.(1468-1470)GAG>CAG	p.E490Q	PPP3CB_uc001juf.2_Missense_Mutation_p.E491Q|PPP3CB_uc001jug.2_Missense_Mutation_p.E481Q|PPP3CB_uc010qkj.1_Missense_Mutation_p.E118Q	NM_021132	NP_066955	P16298	PP2BB_HUMAN	protein phosphatase 3, catalytic subunit, beta	490	Inhibitory domain.									skin(1)	1	Prostate(51;0.0119)					GGCATTCTCTCATTGATCCTA	0.448													52	155	---	---	---	---	PASS
LIPF	8513	broad.mit.edu	37	10	90436047	90436047	+	Intron	SNP	T	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:90436047T>C	uc001kfg.1	+						LIPF_uc001kfh.1_Intron|LIPF_uc010qmt.1_Intron|LIPF_uc010qmu.1_Intron	NM_004190	NP_004181	P07098	LIPG_HUMAN	lipase, gastric precursor						lipid catabolic process|triglyceride metabolic process	extracellular region	lipid binding|triglyceride lipase activity				0		Colorectal(252;0.0161)		Colorectal(12;3.91e-05)|COAD - Colon adenocarcinoma(12;5.43e-05)		GGTAAGCTTCTTAAAGATGGA	0.338													19	64	---	---	---	---	PASS
C10orf4	118924	broad.mit.edu	37	10	95441274	95441274	+	Silent	SNP	T	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:95441274T>C	uc001kiz.1	-	11	948	c.750A>G	c.(748-750)TTA>TTG	p.L250L	C10orf4_uc001kiv.1_RNA|C10orf4_uc001kja.1_Silent_p.L250L	NM_145246	NP_660289	Q70Z53	F10C1_HUMAN	FRA10AC1 protein	250	Lys-rich.					nucleus	protein binding				0		Colorectal(252;0.122)				CTGCAGAAGATAATCTGGATT	0.303													28	62	---	---	---	---	PASS
C10orf129	142827	broad.mit.edu	37	10	96967139	96967139	+	Missense_Mutation	SNP	A	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:96967139A>T	uc001kke.2	+	4	703	c.578A>T	c.(577-579)TAT>TTT	p.Y193F	C10orf129_uc009xuu.1_Missense_Mutation_p.Y103F	NM_207321	NP_997204	Q6P461	ACSM6_HUMAN	acyl-coenzyme A synthetase ACSM6, mitochondrial	193					fatty acid metabolic process	mitochondrion	ATP binding|butyrate-CoA ligase activity|GTP binding|metal ion binding				0		Colorectal(252;0.083)		Epithelial(162;1.64e-06)|all cancers(201;3.71e-05)		GATAAGAGCTATGATGGGTGG	0.428													55	90	---	---	---	---	PASS
PLEKHA1	59338	broad.mit.edu	37	10	124177449	124177449	+	Missense_Mutation	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:124177449G>T	uc001lge.1	+	8	769	c.646G>T	c.(646-648)GAT>TAT	p.D216Y	PLEKHA1_uc001lgf.1_Missense_Mutation_p.D216Y|PLEKHA1_uc001lgg.1_Missense_Mutation_p.D216Y|PLEKHA1_uc001lgh.2_Missense_Mutation_p.D216Y	NM_001001974	NP_001001974	Q9HB21	PKHA1_HUMAN	pleckstrin homology domain containing, family A	216	PH 2.				B cell receptor signaling pathway|cellular response to hydrogen peroxide|establishment of protein localization|negative regulation of protein kinase B signaling cascade|phosphatidylinositol 3-kinase cascade|ruffle organization	cytoplasm|nucleus|ruffle membrane	PDZ domain binding|phosphatidylinositol-3,4-bisphosphate binding			kidney(1)	1		all_neural(114;0.0765)|Lung NSC(174;0.132)|all_lung(145;0.163)|Breast(234;0.238)				TTTTCAATTGGATGAAAACAC	0.323													31	126	---	---	---	---	PASS
C10orf137	26098	broad.mit.edu	37	10	127441453	127441453	+	Missense_Mutation	SNP	C	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:127441453C>G	uc001liq.1	+	23	3656	c.3363C>G	c.(3361-3363)ATC>ATG	p.I1121M	C10orf137_uc001lio.1_Missense_Mutation_p.I1087M|C10orf137_uc001lip.1_Missense_Mutation_p.I825M|C10orf137_uc001lis.1_Missense_Mutation_p.I447M|C10orf137_uc001lit.1_Missense_Mutation_p.I31M	NM_015608	NP_056423	Q3B7T1	EDRF1_HUMAN	erythroid differentiation-related factor 1	1121					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	binding			ovary(5)|large_intestine(3)|lung(2)	10		all_lung(145;0.0096)|Lung NSC(174;0.0145)|Colorectal(57;0.0846)|all_neural(114;0.0936)				TCCAGCTTATCCAGAAGGAGC	0.353													48	209	---	---	---	---	PASS
FANK1	92565	broad.mit.edu	37	10	127684007	127684007	+	Missense_Mutation	SNP	A	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:127684007A>C	uc001ljh.3	+	4	442	c.338A>C	c.(337-339)CAC>CCC	p.H113P	FANK1_uc010quk.1_3'UTR|FANK1_uc009yan.2_Missense_Mutation_p.H139P|FANK1_uc001lji.2_Missense_Mutation_p.H107P	NM_145235	NP_660278	Q8TC84	FANK1_HUMAN	fibronectin type III and ankyrin repeat domains	113	ANK 1.					cytoplasm|nucleus				ovary(1)	1		all_lung(145;0.00752)|Lung NSC(174;0.0115)|Colorectal(57;0.0847)|all_neural(114;0.0936)				AGTAGTGAGCACTTGCACCGG	0.502													82	62	---	---	---	---	PASS
FAM196A	642938	broad.mit.edu	37	10	128936119	128936119	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:128936119C>T	uc001lju.1	-	3	1463	c.1422G>A	c.(1420-1422)TGG>TGA	p.W474*	DOCK1_uc001ljt.2_Intron|DOCK1_uc010qun.1_Intron|FAM196A_uc010quo.1_Nonsense_Mutation_p.W450*|FAM196A_uc001ljv.1_Nonsense_Mutation_p.W474*|FAM196A_uc009yap.1_Nonsense_Mutation_p.W450*	NM_001039762	NP_001034851	Q6ZSG2	F196A_HUMAN	hypothetical protein LOC642938	474										ovary(2)	2						ACCAGAGTTTCCATCTTCCGT	0.433													268	205	---	---	---	---	PASS
EBF3	253738	broad.mit.edu	37	10	131666117	131666117	+	Missense_Mutation	SNP	C	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:131666117C>T	uc001lki.1	-	9	873	c.814G>A	c.(814-816)GTC>ATC	p.V272I		NM_001005463	NP_001005463	Q9H4W6	COE3_HUMAN	early B-cell factor 3	281	IPT/TIG.				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|metal ion binding|protein binding			central_nervous_system(1)|pancreas(1)	2		all_cancers(35;1.8e-08)|all_epithelial(44;8.26e-08)|Lung NSC(174;0.0091)|all_lung(145;0.0123)|Breast(234;0.039)|all_neural(114;0.0722)|Colorectal(57;0.0764)		OV - Ovarian serous cystadenocarcinoma(35;0.00513)		ATTATGATGACGGTGGCACCC	0.577													32	114	---	---	---	---	PASS
PSMD13	5719	broad.mit.edu	37	11	237137	237137	+	Missense_Mutation	SNP	A	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:237137A>T	uc001lol.2	+	1	330	c.88A>T	c.(88-90)ACG>TCG	p.T30S	SIRT3_uc001loj.3_5'Flank|SIRT3_uc001lok.3_5'Flank|SIRT3_uc010qvm.1_5'Flank|SIRT3_uc010qvn.1_5'Flank|SIRT3_uc010qvo.1_5'Flank|SIRT3_uc010qvp.1_5'Flank|SIRT3_uc010qvq.1_5'Flank|SIRT3_uc009ybt.1_5'Flank|PSMD13_uc010qvr.1_RNA|PSMD13_uc001loo.2_Missense_Mutation_p.T30S|PSMD13_uc001lon.2_5'UTR|PSMD13_uc001lom.2_5'UTR	NM_002817	NP_002808	Q9UNM6	PSD13_HUMAN	proteasome 26S non-ATPase subunit 13 isoform 1	30					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome regulatory particle	protein binding			ovary(1)	1		all_cancers(49;1.58e-09)|all_epithelial(84;2.71e-06)|Breast(177;0.000162)|Ovarian(85;0.000626)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.0538)|all_lung(207;0.0713)		all cancers(45;7.79e-27)|Epithelial(43;4e-26)|OV - Ovarian serous cystadenocarcinoma(40;6.02e-21)|BRCA - Breast invasive adenocarcinoma(625;3.93e-05)|Lung(200;0.112)|LUSC - Lung squamous cell carcinoma(625;0.129)		GGAGCTCTACACGAAGAAGTG	0.682													9	41	---	---	---	---	PASS
MUC6	4588	broad.mit.edu	37	11	1020131	1020131	+	Missense_Mutation	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:1020131G>T	uc001lsw.2	-	29	3818	c.3767C>A	c.(3766-3768)CCA>CAA	p.P1256Q		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	1256	Pro-rich.|Thr-rich.				maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		GAGCGTGGCTGGAAGGAGGGG	0.642													12	29	---	---	---	---	PASS
MUC5B	727897	broad.mit.edu	37	11	1162244	1162244	+	Missense_Mutation	SNP	C	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:1162244C>T	uc009ycr.1	+	16	1879	c.1753C>T	c.(1753-1755)CTC>TTC	p.L585F		NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	576	VWFD 2.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CTTCCGGACCCTCAGTGGGGT	0.642													10	33	---	---	---	---	PASS
UBQLN3	50613	broad.mit.edu	37	11	5530016	5530016	+	Missense_Mutation	SNP	T	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:5530016T>C	uc001may.1	-	2	859	c.773A>G	c.(772-774)TAC>TGC	p.Y258C	HBG2_uc001mak.1_Intron	NM_017481	NP_059509	Q9H347	UBQL3_HUMAN	ubiquilin 3	258										ovary(3)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;1.74e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		AATATCTGTGTACATAGTGCA	0.522													127	135	---	---	---	---	PASS
OR56B4	196335	broad.mit.edu	37	11	6129308	6129308	+	Silent	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:6129308C>A	uc010qzx.1	+	1	300	c.300C>A	c.(298-300)CTC>CTA	p.L100L		NM_001005181	NP_001005181	Q8NH76	O56B4_HUMAN	olfactory receptor, family 56, subfamily B,	100	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;1.31e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CCATTAGCCTCCCCATGTGTT	0.502													58	168	---	---	---	---	PASS
MRPL17	63875	broad.mit.edu	37	11	6703635	6703635	+	Intron	SNP	T	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:6703635T>A	uc001men.2	-							NM_022061	NP_071344	Q9NRX2	RM17_HUMAN	mitochondrial ribosomal protein L17 precursor						translation	ribosome	protein domain specific binding|structural constituent of ribosome				0		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;4.68e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		ATCCTTCTCCTAGAGGGAGAA	0.463													53	169	---	---	---	---	PASS
E2F8	79733	broad.mit.edu	37	11	19246331	19246331	+	Silent	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:19246331G>A	uc001mpm.2	-	13	3000	c.2478C>T	c.(2476-2478)ACC>ACT	p.T826T	E2F8_uc009yhv.2_RNA|E2F8_uc001mpn.3_Silent_p.T826T	NM_024680	NP_078956	A0AVK6	E2F8_HUMAN	E2F family member 8	826					cell cycle	transcription factor complex	DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1						GTCCACCTGGGGTACGGAAGA	0.488													45	131	---	---	---	---	PASS
RCN1	5954	broad.mit.edu	37	11	32122142	32122142	+	Missense_Mutation	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:32122142G>A	uc010reb.1	+	4	942	c.676G>A	c.(676-678)GAT>AAT	p.D226N	RCN1_uc010rea.1_Missense_Mutation_p.D175N|RCN1_uc001mtk.2_Missense_Mutation_p.D60N	NM_002901	NP_002892	Q15293	RCN1_HUMAN	reticulocalbin 1 precursor	226	4 (Potential).|EF-hand 4.					endoplasmic reticulum lumen	calcium ion binding			large_intestine(1)	1	Lung SC(675;0.225)					TGTGGATCAGGATGAGTATAT	0.512													29	82	---	---	---	---	PASS
DEPDC7	91614	broad.mit.edu	37	11	33049272	33049272	+	Missense_Mutation	SNP	G	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:33049272G>C	uc001mub.2	+	3	597	c.505G>C	c.(505-507)GCC>CCC	p.A169P	DEPDC7_uc010reh.1_Missense_Mutation_p.A169P|DEPDC7_uc001muc.2_Missense_Mutation_p.A160P	NM_001077242	NP_001070710	Q96QD5	DEPD7_HUMAN	novel 58.3 KDA protein isoform 1	169					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(1)|skin(1)	2						TATCAGATCAGCCAGTTTAGA	0.279													15	73	---	---	---	---	PASS
RAG1	5896	broad.mit.edu	37	11	36597771	36597771	+	Missense_Mutation	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:36597771C>A	uc001mwu.3	+	2	3041	c.2917C>A	c.(2917-2919)CGC>AGC	p.R973S	RAG1_uc001mwt.2_Intron	NM_000448	NP_000439	P15918	RAG1_HUMAN	recombination activating gene 1	973					histone monoubiquitination|immune response|pre-B cell allelic exclusion|protein autoubiquitination|T cell differentiation in thymus|V(D)J recombination	nucleus	endonuclease activity|histone binding|protein homodimerization activity|sequence-specific DNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|pancreas(1)|lung(1)|kidney(1)|skin(1)	5	all_lung(20;0.226)	all_hematologic(20;0.107)				ACTGTTTAGGCGCTTCCGGAA	0.468									Familial_Hemophagocytic_Lymphohistiocytosis				57	177	---	---	---	---	PASS
ALKBH3	221120	broad.mit.edu	37	11	43923105	43923105	+	Missense_Mutation	SNP	G	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:43923105G>C	uc001mxs.2	+	8	942	c.499G>C	c.(499-501)GAG>CAG	p.E167Q	ALKBH3_uc009ykp.2_RNA|ALKBH3_uc001mxt.2_RNA|ALKBH3_uc009ykq.2_Missense_Mutation_p.E20Q	NM_139178	NP_631917	Q96Q83	ALKB3_HUMAN	AlkB homolog 3	167					DNA dealkylation involved in DNA repair|oxidative single-stranded DNA demethylation	mitochondrion|nucleoplasm	damaged DNA binding|DNA-N1-methyladenine dioxygenase activity|ferrous iron binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0					Vitamin C(DB00126)	CCGCATTGAAGAGAACACTGG	0.507								Direct_reversal_of_damage					84	92	---	---	---	---	PASS
OR4X1	390113	broad.mit.edu	37	11	48285677	48285677	+	Missense_Mutation	SNP	G	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:48285677G>C	uc010rht.1	+	1	265	c.265G>C	c.(265-267)GTC>CTC	p.V89L		NM_001004726	NP_001004726	Q8NH49	OR4X1_HUMAN	olfactory receptor, family 4, subfamily X,	89	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3						CAAGAGGAAAGTCATTTCTCT	0.468													40	141	---	---	---	---	PASS
FOLH1	2346	broad.mit.edu	37	11	49178359	49178359	+	Missense_Mutation	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:49178359C>A	uc001ngy.2	-	15	1794	c.1533G>T	c.(1531-1533)AGG>AGT	p.R511S	FOLH1_uc001ngx.2_5'Flank|FOLH1_uc001ngz.2_Missense_Mutation_p.R511S|FOLH1_uc009yly.2_Missense_Mutation_p.R496S|FOLH1_uc009ylz.2_Missense_Mutation_p.R496S|FOLH1_uc009yma.2_Missense_Mutation_p.R203S	NM_004476	NP_004467	Q04609	FOLH1_HUMAN	folate hydrolase 1 isoform 1	511	NAALADase.|Extracellular (Probable).				proteolysis	cytoplasm|integral to plasma membrane|membrane fraction|nucleus	carboxypeptidase activity|dipeptidase activity|metal ion binding|metallopeptidase activity			large_intestine(1)|ovary(1)|skin(1)	3					Capromab(DB00089)|L-Glutamic Acid(DB00142)	ATTTGCTTATCCTTTTAGAGA	0.328													30	142	---	---	---	---	PASS
OR5D14	219436	broad.mit.edu	37	11	55563389	55563389	+	Missense_Mutation	SNP	A	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:55563389A>G	uc010rim.1	+	1	358	c.358A>G	c.(358-360)ATG>GTG	p.M120V		NM_001004735	NP_001004735	Q8NGL3	OR5DE_HUMAN	olfactory receptor, family 5, subfamily D,	120	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3		all_epithelial(135;0.196)				GCTGGCAGTGATGGCCTATGA	0.507													32	100	---	---	---	---	PASS
OR5D18	219438	broad.mit.edu	37	11	55587515	55587515	+	Missense_Mutation	SNP	T	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:55587515T>A	uc010rin.1	+	1	410	c.410T>A	c.(409-411)ATG>AAG	p.M137K		NM_001001952	NP_001001952	Q8NGL1	OR5DI_HUMAN	olfactory receptor, family 5, subfamily D,	137	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.208)				ACAGTTAACATGTCCCAGAAA	0.468													96	366	---	---	---	---	PASS
OR8H2	390151	broad.mit.edu	37	11	55872720	55872720	+	Missense_Mutation	SNP	T	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:55872720T>C	uc010riy.1	+	1	202	c.202T>C	c.(202-204)TCA>CCA	p.S68P		NM_001005200	NP_001005200	Q8N162	OR8H2_HUMAN	olfactory receptor, family 8, subfamily H,	68	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	Esophageal squamous(21;0.00693)					TACTCACCTGTCATTTATTGA	0.428										HNSCC(53;0.14)			180	649	---	---	---	---	PASS
OR5J2	282775	broad.mit.edu	37	11	55944987	55944987	+	Missense_Mutation	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:55944987G>T	uc010rjb.1	+	1	894	c.894G>T	c.(892-894)AAG>AAT	p.K298N		NM_001005492	NP_001005492	Q8NH18	OR5J2_HUMAN	olfactory receptor, family 5, subfamily J,	298	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|large_intestine(1)|breast(1)|pancreas(1)	4	Esophageal squamous(21;0.00693)					AGGACGTAAAGGAGGCAGTGA	0.373													25	64	---	---	---	---	PASS
TNKS1BP1	85456	broad.mit.edu	37	11	57080095	57080095	+	Silent	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:57080095C>A	uc001njr.2	-	4	2379	c.2067G>T	c.(2065-2067)CTG>CTT	p.L689L	TNKS1BP1_uc001njs.2_Silent_p.L689L|TNKS1BP1_uc009ymd.1_Silent_p.L140L	NM_033396	NP_203754	Q9C0C2	TB182_HUMAN	tankyrase 1-binding protein 1	689	Pro-rich.|Acidic.				nuclear-transcribed mRNA poly(A) tail shortening|telomere maintenance via telomerase	cytoskeleton|cytosol|nuclear telomeric heterochromatin	ankyrin binding|enzyme binding			skin(1)	1		all_epithelial(135;0.21)				GTGGTGAAGCCAGGAGGTCGT	0.632													47	46	---	---	---	---	PASS
MPEG1	219972	broad.mit.edu	37	11	58978896	58978896	+	Silent	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:58978896G>A	uc001nnu.3	-	1	1599	c.1443C>T	c.(1441-1443)GGC>GGT	p.G481G		NM_001039396	NP_001034485	Q2M385	MPEG1_HUMAN	macrophage expressed gene 1 precursor	481	Extracellular (Potential).					integral to membrane				ovary(1)|skin(1)	2		all_epithelial(135;0.125)				TGCTGAAGAGGCCCCCAAAAA	0.483													47	136	---	---	---	---	PASS
MS4A14	84689	broad.mit.edu	37	11	60160149	60160149	+	Intron	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:60160149G>T	uc001npi.2	+						MS4A7_uc001npe.2_Intron|MS4A7_uc001npf.2_Intron|MS4A7_uc001npg.2_Intron|MS4A7_uc001nph.2_Intron	NM_001079692	NP_001073160	Q96JA4	M4A14_HUMAN	membrane-spanning 4-domains, subfamily A, member							integral to membrane	receptor activity			breast(1)	1						TTCATGTCCTGATTTGCAGGG	0.507													136	389	---	---	---	---	PASS
MS4A14	84689	broad.mit.edu	37	11	60184273	60184273	+	Missense_Mutation	SNP	C	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:60184273C>T	uc001npj.2	+	5	2397	c.1832C>T	c.(1831-1833)GCC>GTC	p.A611V	MS4A14_uc001npi.2_Missense_Mutation_p.A499V|MS4A14_uc001npn.2_Missense_Mutation_p.A349V|MS4A14_uc001npk.2_Missense_Mutation_p.A594V|MS4A14_uc001npl.2_Missense_Mutation_p.A349V|MS4A14_uc001npm.2_Missense_Mutation_p.A349V	NM_032597	NP_115986	Q96JA4	M4A14_HUMAN	membrane-spanning 4-domains, subfamily A, member	611	Gln-rich.					integral to membrane	receptor activity			breast(1)	1						GACCAGCCGGCCCAAGAGAAG	0.453													16	55	---	---	---	---	PASS
INTS5	80789	broad.mit.edu	37	11	62415818	62415818	+	Missense_Mutation	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:62415818C>A	uc001nud.2	-	2	1787	c.1734G>T	c.(1732-1734)TTG>TTT	p.L578F	GANAB_uc001nua.2_5'Flank|GANAB_uc001nub.2_5'Flank|GANAB_uc001nuc.2_5'Flank|GANAB_uc010rma.1_5'Flank|GANAB_uc010rmb.1_5'Flank	NM_030628	NP_085131	Q6P9B9	INT5_HUMAN	integrator complex subunit 5	578					snRNA processing	integral to membrane|integrator complex	protein binding			ovary(2)	2						CTAGCAGTGCCAAGTTGCGCA	0.647													66	74	---	---	---	---	PASS
LRP5	4041	broad.mit.edu	37	11	68205913	68205913	+	Splice_Site	SNP	G	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:68205913G>C	uc001ont.2	+	20	4187	c.4112_splice	c.e20-1	p.E1371_splice	LRP5_uc009ysg.2_Splice_Site_p.E781_splice	NM_002335	NP_002326	O75197	LRP5_HUMAN	low density lipoprotein receptor-related protein						adipose tissue development|bone marrow development|bone morphogenesis|canonical Wnt receptor signaling pathway|cholesterol homeostasis|endocytosis|glucose catabolic process|negative regulation of osteoblast differentiation|negative regulation of protein serine/threonine kinase activity|positive regulation of fat cell differentiation|positive regulation of mesenchymal cell proliferation|positive regulation of mitosis|positive regulation of transcription from RNA polymerase II promoter|regulation of blood pressure|regulation of canonical Wnt receptor signaling pathway|retina morphogenesis in camera-type eye|retinal blood vessel morphogenesis|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	endoplasmic reticulum|integral to membrane|plasma membrane|receptor complex	protein binding|receptor activity			lung(2)|skin(2)|ovary(1)|pancreas(1)|breast(1)	7						GTCTCTGGCAGAAATCACCAA	0.602													30	165	---	---	---	---	PASS
TYR	7299	broad.mit.edu	37	11	88911393	88911393	+	Missense_Mutation	SNP	G	T	T	rs137854890		TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:88911393G>T	uc001pcs.2	+	1	354	c.272G>T	c.(271-273)TGC>TTC	p.C91F		NM_000372	NP_000363	P14679	TYRO_HUMAN	tyrosinase precursor	91	Lumenal, melanosome (Potential).				eye pigment biosynthetic process|melanin biosynthetic process from tyrosine|visual perception	Golgi-associated vesicle|integral to membrane|lysosome|melanosome membrane|perinuclear region of cytoplasm	copper ion binding|monophenol monooxygenase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(157;2.33e-05)|all_hematologic(158;0.0033)			Azelaic Acid(DB00548)|Mimosine(DB01055)|NADH(DB00157)	ACCTGCCAGTGCTCTGGCAAC	0.502									Oculocutaneous_Albinism				24	59	---	---	---	---	PASS
CCDC67	159989	broad.mit.edu	37	11	93097425	93097425	+	Missense_Mutation	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:93097425C>A	uc001pdq.2	+	5	497	c.397C>A	c.(397-399)CCC>ACC	p.P133T	CCDC67_uc001pdo.1_Missense_Mutation_p.P133T|CCDC67_uc001pdp.2_Missense_Mutation_p.P133T	NM_181645	NP_857596	Q05D60	CCD67_HUMAN	coiled-coil domain containing 67	133	Potential.									ovary(1)	1		Acute lymphoblastic leukemia(157;2.35e-05)|all_hematologic(158;0.00824)				AGAAGAAATACCCTTTGAACT	0.308													15	26	---	---	---	---	PASS
CCDC67	159989	broad.mit.edu	37	11	93097426	93097426	+	Missense_Mutation	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:93097426C>A	uc001pdq.2	+	5	498	c.398C>A	c.(397-399)CCC>CAC	p.P133H	CCDC67_uc001pdo.1_Missense_Mutation_p.P133H|CCDC67_uc001pdp.2_Missense_Mutation_p.P133H	NM_181645	NP_857596	Q05D60	CCD67_HUMAN	coiled-coil domain containing 67	133	Potential.									ovary(1)	1		Acute lymphoblastic leukemia(157;2.35e-05)|all_hematologic(158;0.00824)				GAAGAAATACCCTTTGAACTG	0.303													14	26	---	---	---	---	PASS
HEPHL1	341208	broad.mit.edu	37	11	93806219	93806219	+	Missense_Mutation	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:93806219G>T	uc001pep.2	+	7	1418	c.1261G>T	c.(1261-1263)GAC>TAC	p.D421Y	uc001pen.1_Intron	NM_001098672	NP_001092142	Q6MZM0	HPHL1_HUMAN	hephaestin-like 1 precursor	421	Plastocyanin-like 3.|Extracellular (Potential).				copper ion transport	integral to membrane	copper ion binding|oxidoreductase activity			ovary(3)	3		Acute lymphoblastic leukemia(157;2.34e-05)|all_hematologic(158;0.00824)				CACACAAGGGGACAACAGAAT	0.378													23	42	---	---	---	---	PASS
PANX1	24145	broad.mit.edu	37	11	93913172	93913172	+	Missense_Mutation	SNP	T	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:93913172T>A	uc001per.2	+	4	1335	c.950T>A	c.(949-951)GTT>GAT	p.V317D	PANX1_uc001peq.2_Missense_Mutation_p.V317D	NM_015368	NP_056183	Q96RD7	PANX1_HUMAN	pannexin 1	317	Cytoplasmic (Potential).				positive regulation of interleukin-1 beta secretion|protein hexamerization|synaptic transmission	bleb|endoplasmic reticulum membrane|gap junction|integral to membrane	calcium channel activity|gap junction hemi-channel activity|leak channel activity|receptor binding				0		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				ACTTTTGATGTTCTGCATTTC	0.428													43	148	---	---	---	---	PASS
MMP8	4317	broad.mit.edu	37	11	102587099	102587099	+	Missense_Mutation	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:102587099C>A	uc001phe.2	-	6	935	c.836G>T	c.(835-837)TGT>TTT	p.C279F	MMP8_uc010rut.1_Missense_Mutation_p.C214F|MMP8_uc010ruu.1_Missense_Mutation_p.C256F	NM_002424	NP_002415	P22894	MMP8_HUMAN	matrix metalloproteinase 8 preproprotein	279					collagen catabolic process|proteolysis	extracellular space|proteinaceous extracellular matrix	metalloendopeptidase activity|serine-type endopeptidase activity|zinc ion binding			ovary(3)|breast(1)	4	all_cancers(8;0.00092)|all_epithelial(12;0.00389)|Lung NSC(15;0.227)	all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)	Epithelial(9;0.0555)|Lung(13;0.0828)|LUSC - Lung squamous cell carcinoma(19;0.151)|all cancers(10;0.189)	BRCA - Breast invasive adenocarcinoma(274;0.0141)		ACTGGGGTCACAGGGTTTGGG	0.363													55	190	---	---	---	---	PASS
DDI1	414301	broad.mit.edu	37	11	103908027	103908027	+	Silent	SNP	G	A	A	rs56847546	byFrequency	TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:103908027G>A	uc001phr.2	+	1	720	c.477G>A	c.(475-477)CTG>CTA	p.L159L	PDGFD_uc001php.2_Intron|PDGFD_uc001phq.2_Intron	NM_001001711	NP_001001711	Q8WTU0	DDI1_HUMAN	DDI1, DNA-damage inducible 1, homolog 1	159					proteolysis		aspartic-type endopeptidase activity			large_intestine(3)|upper_aerodigestive_tract(1)|pancreas(1)	5		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.00648)|Melanoma(852;0.055)|all_neural(303;0.164)		BRCA - Breast invasive adenocarcinoma(274;0.00128)|Epithelial(105;0.0631)|all cancers(92;0.169)		ATCTGTCCCTGCTCAAGGAAC	0.622													71	78	---	---	---	---	PASS
GUCY1A2	2977	broad.mit.edu	37	11	106680922	106680922	+	Missense_Mutation	SNP	T	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:106680922T>A	uc001pjg.1	-	5	1879	c.1489A>T	c.(1489-1491)ATT>TTT	p.I497F	GUCY1A2_uc010rvo.1_Missense_Mutation_p.I518F|GUCY1A2_uc009yxn.1_Missense_Mutation_p.I497F	NM_000855	NP_000846	P33402	GCYA2_HUMAN	guanylate cyclase 1, soluble, alpha 2	497					intracellular signal transduction|platelet activation	cytoplasm	GTP binding|guanylate cyclase activity|heme binding			large_intestine(3)|lung(2)|pancreas(2)|ovary(1)	8		all_epithelial(67;3.66e-05)|Melanoma(852;0.000382)|Acute lymphoblastic leukemia(157;0.001)|all_hematologic(158;0.0017)|Breast(348;0.026)|all_neural(303;0.068)		BRCA - Breast invasive adenocarcinoma(274;8.04e-05)|Epithelial(105;0.0036)|all cancers(92;0.0476)		CCAGGGAAAATAGAATATAGA	0.418													45	136	---	---	---	---	PASS
NPAT	4863	broad.mit.edu	37	11	108044095	108044095	+	Missense_Mutation	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:108044095G>A	uc001pjz.3	-	13	1718	c.1616C>T	c.(1615-1617)TCA>TTA	p.S539L	NPAT_uc001pka.2_Missense_Mutation_p.S334L	NM_002519	NP_002510	Q14207	NPAT_HUMAN	nuclear protein,  ataxia-telangiectasia locus	539					positive regulation of transcription, DNA-dependent|regulation of transcription involved in G1/S phase of mitotic cell cycle	Cajal body	protein C-terminus binding|protein N-terminus binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity			ovary(2)	2		all_cancers(61;2.31e-10)|all_epithelial(67;1.11e-06)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;1.05e-05)|Epithelial(105;3.01e-05)|all cancers(92;0.000816)|Colorectal(284;0.116)		TCCAGTTAATGAAGTATCTTG	0.299													22	104	---	---	---	---	PASS
OR8B8	26493	broad.mit.edu	37	11	124310260	124310260	+	Missense_Mutation	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:124310260C>A	uc010sal.1	-	1	722	c.722G>T	c.(721-723)TGC>TTC	p.C241F		NM_012378	NP_036510	Q15620	OR8B8_HUMAN	olfactory receptor, family 8, subfamily B,	241	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0277)		GTGGGAGCTGCAGGTGCTGAA	0.488													163	168	---	---	---	---	PASS
ARHGAP32	9743	broad.mit.edu	37	11	128840518	128840518	+	Missense_Mutation	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:128840518C>A	uc009zcp.2	-	22	4548	c.4548G>T	c.(4546-4548)CAG>CAT	p.Q1516H	ARHGAP32_uc009zcq.1_3'UTR|ARHGAP32_uc009zco.2_Missense_Mutation_p.Q475H|ARHGAP32_uc001qez.2_Missense_Mutation_p.Q1167H	NM_001142685	NP_001136157	A7KAX9	RHG32_HUMAN	Rho GTPase-activating protein isoform 1	1516	Interaction with GAB2.				cell communication|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell junction|cytosol|dendritic spine|endoplasmic reticulum membrane|endosome membrane|Golgi membrane|postsynaptic density|postsynaptic membrane	GTPase activator activity|phosphatidylinositol binding			lung(3)|ovary(2)	5						ACACTTGGTGCTGCTCCAATT	0.502													35	104	---	---	---	---	PASS
CLECL1	160365	broad.mit.edu	37	12	9885654	9885654	+	Silent	SNP	C	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:9885654C>T	uc001qwj.2	-	1	207	c.207G>A	c.(205-207)GTG>GTA	p.V69V		NM_172004	NP_742001	Q8IZS7	CLCL1_HUMAN	type II transmembrane protein DCAL1	69	Helical; Signal-anchor for type II membrane protein; (Potential).					integral to membrane|plasma membrane	sugar binding				0						GAGAGAAGACCACAAATGATG	0.443													37	126	---	---	---	---	PASS
CLEC9A	283420	broad.mit.edu	37	12	10215708	10215708	+	Missense_Mutation	SNP	A	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:10215708A>G	uc001qxa.2	+	7	987	c.374A>G	c.(373-375)TAC>TGC	p.Y125C		NM_207345	NP_997228	Q6UXN8	CLC9A_HUMAN	C-type lectin domain family 9, member A	125	Extracellular (Potential).|C-type lectin.				positive regulation of cytokine secretion|receptor-mediated endocytosis	cell surface|integral to membrane	receptor activity|sugar binding			ovary(1)	1						GAAAGTTGTTACTATGTCTCT	0.343													110	109	---	---	---	---	PASS
SLCO1A2	6579	broad.mit.edu	37	12	21471727	21471727	+	Missense_Mutation	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:21471727C>A	uc001rer.2	-	2	442	c.191G>T	c.(190-192)AGC>ATC	p.S64I	SLCO1A2_uc001res.2_Missense_Mutation_p.S64I|SLCO1A2_uc010siq.1_5'UTR|SLCO1A2_uc010sio.1_5'UTR|SLCO1A2_uc010sip.1_Intron|SLCO1A2_uc001ret.2_Missense_Mutation_p.S62I|SLCO1A2_uc001reu.2_Missense_Mutation_p.S44I	NM_021094	NP_066580	P46721	SO1A2_HUMAN	organic anion transporting polypeptide A	64	Helical; Name=2; (Potential).				bile acid metabolic process|sodium-independent organic anion transport	integral to membrane|plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(1)|pancreas(1)|ovary(1)|skin(1)	4						AATCTCAAAGCTTCCATTAAT	0.323													23	30	---	---	---	---	PASS
ABCD2	225	broad.mit.edu	37	12	39967633	39967633	+	Missense_Mutation	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:39967633C>A	uc001rmb.2	-	9	2314	c.1888G>T	c.(1888-1890)GCC>TCC	p.A630S		NM_005164	NP_005155	Q9UBJ2	ABCD2_HUMAN	ATP-binding cassette, sub-family D, member 2	630	ABC transporter.				fatty acid metabolic process|transport	ATP-binding cassette (ABC) transporter complex|integral to plasma membrane|peroxisomal membrane	ATP binding|ATPase activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)|central_nervous_system(1)|skin(1)	6						TCCAGCAAGGCATATTTTGGT	0.338													38	127	---	---	---	---	PASS
ADAMTS20	80070	broad.mit.edu	37	12	43750293	43750293	+	Silent	SNP	T	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:43750293T>C	uc010skx.1	-	38	5637	c.5637A>G	c.(5635-5637)AGA>AGG	p.R1879R		NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	1879	GON.					proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		TTACCTCTGATCTTCGTATGC	0.413													17	21	---	---	---	---	PASS
ADAMTS20	80070	broad.mit.edu	37	12	43862455	43862455	+	Missense_Mutation	SNP	C	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:43862455C>G	uc010skx.1	-	8	1171	c.1171G>C	c.(1171-1173)GAA>CAA	p.E391Q		NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	391	Peptidase M12B.					proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		CCTTTTTCTTCATTAATAAAG	0.343													22	109	---	---	---	---	PASS
SLC38A4	55089	broad.mit.edu	37	12	47172328	47172328	+	Missense_Mutation	SNP	T	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:47172328T>C	uc001rpi.2	-	11	1348	c.949A>G	c.(949-951)AGT>GGT	p.S317G	SLC38A4_uc001rpj.2_Missense_Mutation_p.S317G	NM_018018	NP_060488	Q969I6	S38A4_HUMAN	solute carrier family 38, member 4	317	Extracellular (Potential).				cellular nitrogen compound metabolic process|sodium ion transport	integral to membrane|plasma membrane	amino acid transmembrane transporter activity|symporter activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Lung SC(27;0.192)|Renal(347;0.236)					TTGTCATCACTATGAGCTTCA	0.453													39	110	---	---	---	---	PASS
COL2A1	1280	broad.mit.edu	37	12	48380866	48380866	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:48380866G>A	uc001rqu.2	-	21	1541	c.1360C>T	c.(1360-1362)CAG>TAG	p.Q454*	COL2A1_uc009zkw.2_RNA|COL2A1_uc001rqv.2_Nonsense_Mutation_p.Q385*	NM_001844	NP_001835	P02458	CO2A1_HUMAN	collagen, type II, alpha 1 isoform 1 precursor	454	Triple-helical region.				axon guidance|collagen fibril organization|embryonic skeletal joint morphogenesis|sensory perception of sound|visual perception	collagen type II	identical protein binding|platelet-derived growth factor binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(13;0.108)|all_hematologic(14;0.214)			Collagenase(DB00048)	CTTACCGTCTGACCTTTCGGG	0.627													69	215	---	---	---	---	PASS
MLL2	8085	broad.mit.edu	37	12	49415826	49415826	+	Missense_Mutation	SNP	C	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:49415826C>G	uc001rta.3	-	53	16521	c.16521G>C	c.(16519-16521)GAG>GAC	p.E5507D		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	5507	SET.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						TTCCTCTCACCTCCTCTCCTT	0.522			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			164	172	---	---	---	---	PASS
KRT3	3850	broad.mit.edu	37	12	53189257	53189257	+	Missense_Mutation	SNP	C	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:53189257C>G	uc001say.2	-	1	636	c.570G>C	c.(568-570)CAG>CAC	p.Q190H		NM_057088	NP_476429	P12035	K2C3_HUMAN	keratin 3	190	Head.				epithelial cell differentiation|intermediate filament cytoskeleton organization	keratin filament	structural molecule activity				0						CTTGCCCAATCTGGGGGTCGA	0.537													41	134	---	---	---	---	PASS
ITGA7	3679	broad.mit.edu	37	12	56078923	56078923	+	Silent	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:56078923G>A	uc001shh.2	-	25	3565	c.3345C>T	c.(3343-3345)GGC>GGT	p.G1115G	ITGA7_uc001shg.2_Silent_p.G1111G|ITGA7_uc010sps.1_Silent_p.G1018G|ITGA7_uc001shf.2_3'UTR|ITGA7_uc009znw.2_Silent_p.G358G|ITGA7_uc009znx.2_Silent_p.G992G	NM_001144996	NP_001138468	Q13683	ITA7_HUMAN	integrin alpha 7 isoform 1 precursor	1155	Cytoplasmic (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|muscle organ development|regulation of cell shape	integrin complex	receptor activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5						GTGCATCCGGGCCCTCCCGCC	0.667													29	29	---	---	---	---	PASS
TIMELESS	8914	broad.mit.edu	37	12	56817237	56817237	+	Nonsense_Mutation	SNP	G	A	A	rs149262573		TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:56817237G>A	uc001slf.2	-	18	2281	c.2113C>T	c.(2113-2115)CGA>TGA	p.R705*		NM_003920	NP_003911	Q9UNS1	TIM_HUMAN	timeless homolog	705					cell division|circadian rhythm|detection of abiotic stimulus|mitosis|morphogenesis of an epithelium|negative regulation of transcription, DNA-dependent|regulation of S phase|response to DNA damage stimulus|transcription, DNA-dependent	nuclear chromatin				ovary(5)|breast(2)|pancreas(1)	8						ACATAGGCTCGAACGACAGTT	0.507													50	101	---	---	---	---	PASS
AVPR1A	552	broad.mit.edu	37	12	63544455	63544455	+	Missense_Mutation	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:63544455C>A	uc001sro.1	-	1	2136	c.162G>T	c.(160-162)GAG>GAT	p.E54D		NM_000706	NP_000697	P37288	V1AR_HUMAN	arginine vasopressin receptor 1A	54	Helical; Name=1; (Potential).				activation of phospholipase C activity|elevation of cytosolic calcium ion concentration|generation of precursor metabolites and energy	endosome|integral to plasma membrane	protein kinase C binding|vasopressin receptor activity				0			BRCA - Breast invasive adenocarcinoma(9;0.193)	GBM - Glioblastoma multiforme(28;0.0569)	Conivaptan(DB00872)|Desmopressin(DB00035)|Felypressin(DB00093)|Terlipressin(DB02638)|Vasopressin(DB00067)	GCACGGCGATCTCCAGTTTGG	0.701													40	72	---	---	---	---	PASS
IRAK3	11213	broad.mit.edu	37	12	66641937	66641937	+	Missense_Mutation	SNP	T	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:66641937T>C	uc001sth.2	+	12	1879	c.1777T>C	c.(1777-1779)TAC>CAC	p.Y593H	IRAK3_uc010ssy.1_Missense_Mutation_p.Y532H	NM_007199	NP_009130	Q9Y616	IRAK3_HUMAN	interleukin-1 receptor-associated kinase 3	593					interleukin-1-mediated signaling pathway|MyD88-dependent toll-like receptor signaling pathway|negative regulation of innate immune response|negative regulation of interleukin-12 production|negative regulation of interleukin-6 production|negative regulation of macrophage cytokine production|negative regulation of MAP kinase activity|negative regulation of NF-kappaB transcription factor activity|negative regulation of protein catabolic process|negative regulation of protein complex disassembly|negative regulation of toll-like receptor signaling pathway|negative regulation of tumor necrosis factor production|positive regulation of macrophage tolerance induction|positive regulation of NF-kappaB transcription factor activity|response to exogenous dsRNA|response to lipopolysaccharide|response to peptidoglycan	cytoplasm|nucleus	ATP binding|magnesium ion binding|protein heterodimerization activity|protein homodimerization activity|protein serine/threonine kinase activity			lung(3)|ovary(2)|breast(2)|central_nervous_system(1)	8				GBM - Glioblastoma multiforme(28;0.0203)		ATATGAACAGTACAAAAAAGA	0.418													34	82	---	---	---	---	PASS
ZFC3H1	196441	broad.mit.edu	37	12	72057113	72057113	+	Missense_Mutation	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:72057113G>A	uc001swo.2	-	1	637	c.278C>T	c.(277-279)TCT>TTT	p.S93F	ZFC3H1_uc010sts.1_Missense_Mutation_p.S93F|ZFC3H1_uc001swp.2_Missense_Mutation_p.S93F|THAP2_uc001swq.2_5'Flank	NM_144982	NP_659419	O60293	ZC3H1_HUMAN	proline/serine-rich coiled-coil 2	93	Ser-rich.				RNA processing	intracellular	metal ion binding			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5						GCCCCGCTCAGACGCGTGCCG	0.642											OREG0021993	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	166	240	---	---	---	---	PASS
GLIPR1L1	256710	broad.mit.edu	37	12	75756926	75756926	+	Missense_Mutation	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:75756926G>T	uc001sxo.2	+	4	612	c.566G>T	c.(565-567)TGC>TTC	p.C189F	CAPS2_uc001sxm.3_Intron|CAPS2_uc009zsa.2_Intron|GLIPR1L1_uc001sxn.2_Missense_Mutation_p.C189F	NM_152779	NP_689992	Q6UWM5	GPRL1_HUMAN	GLI pathogenesis-related 1 like 1	189						extracellular region					0						GGAGAATCTTGCTCTCTCTGC	0.308													8	22	---	---	---	---	PASS
SYT1	6857	broad.mit.edu	37	12	79689885	79689885	+	Missense_Mutation	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:79689885G>A	uc001sys.2	+	8	1182	c.511G>A	c.(511-513)GCC>ACC	p.A171T	SYT1_uc001syt.2_Missense_Mutation_p.A171T|SYT1_uc001syu.2_Missense_Mutation_p.A168T|SYT1_uc001syv.2_Missense_Mutation_p.A171T	NM_001135805	NP_001129277	P21579	SYT1_HUMAN	synaptotagmin I	171	Cytoplasmic (Potential).|Phospholipid binding (Probable).|C2 1.				detection of calcium ion|glutamate secretion|neurotransmitter secretion|protein homooligomerization	cell junction|chromaffin granule membrane|clathrin sculpted acetylcholine transport vesicle membrane|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|clathrin sculpted glutamate transport vesicle membrane|clathrin sculpted monoamine transport vesicle membrane|endocytic vesicle membrane|integral to membrane|synaptic vesicle membrane	1-phosphatidylinositol binding|low-density lipoprotein particle receptor binding|metal ion binding|syntaxin-1 binding|transporter activity			skin(3)|pancreas(2)|ovary(1)	6						CGAACTGCCCGCCTTGGACAT	0.423													48	153	---	---	---	---	PASS
ACSS3	79611	broad.mit.edu	37	12	81647445	81647445	+	Missense_Mutation	SNP	A	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:81647445A>T	uc001szl.1	+	15	2082	c.1991A>T	c.(1990-1992)TAC>TTC	p.Y664F	ACSS3_uc001szm.1_Missense_Mutation_p.Y663F|ACSS3_uc001szn.1_Missense_Mutation_p.Y346F	NM_024560	NP_078836	Q9H6R3	ACSS3_HUMAN	acyl-CoA synthetase short-chain family member 3	664						mitochondrion	acetate-CoA ligase activity|ATP binding			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4						GGCAAGCCATACAAGGTAAAT	0.383													34	105	---	---	---	---	PASS
SLC6A15	55117	broad.mit.edu	37	12	85270346	85270346	+	Missense_Mutation	SNP	A	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:85270346A>G	uc001szv.2	-	6	1290	c.797T>C	c.(796-798)ATT>ACT	p.I266T	SLC6A15_uc010sul.1_Missense_Mutation_p.I159T	NM_182767	NP_877499	Q9H2J7	S6A15_HUMAN	solute carrier family 6, member 15 isoform 1	266	Helical; Name=5; (Potential).				cellular nitrogen compound metabolic process|leucine transport|proline transport	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity			pancreas(2)|ovary(1)	3						GAGGAAGCAAATAAGTACCAC	0.303													29	105	---	---	---	---	PASS
DRAM1	55332	broad.mit.edu	37	12	102315008	102315008	+	Missense_Mutation	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:102315008G>T	uc001tix.2	+	7	1150	c.687G>T	c.(685-687)AGG>AGT	p.R229S	DRAM1_uc010svv.1_Missense_Mutation_p.R119S	NM_018370	NP_060840	Q8N682	DRAM1_HUMAN	DNA-damage regulated autophagy modulator 1	229					apoptosis|autophagy	integral to membrane|lysosomal membrane				ovary(1)	1						TCACCCTAAGGATATCCACAG	0.383													33	76	---	---	---	---	PASS
APPL2	55198	broad.mit.edu	37	12	105601746	105601746	+	Intron	SNP	T	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:105601746T>C	uc001tlf.1	-						APPL2_uc010swt.1_Intron|APPL2_uc001tlg.1_Intron|APPL2_uc010swu.1_Intron|APPL2_uc009zuq.2_Intron	NM_018171	NP_060641	Q8NEU8	DP13B_HUMAN	adaptor protein, phosphotyrosine interaction, PH						cell cycle|cell proliferation|signal transduction	early endosome membrane|nucleus	protein binding			upper_aerodigestive_tract(1)	1						AAAGTATTCTTACCTTCTCAT	0.388													40	148	---	---	---	---	PASS
C12orf24	29902	broad.mit.edu	37	12	110924334	110924334	+	Intron	SNP	C	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:110924334C>T	uc001tqu.3	+						C12orf24_uc010sxz.1_Intron|C12orf24_uc009zvo.2_Intron|C12orf24_uc001tqt.2_Intron|C12orf24_uc001tqv.3_Intron|C12orf24_uc009zvp.2_5'Flank	NM_013300	NP_037432	Q8WUB2	CL024_HUMAN	hypothetical protein LOC29902												0						TGATTTGTATCACAGGTGTCC	0.473													89	489	---	---	---	---	PASS
DNAH10	196385	broad.mit.edu	37	12	124350516	124350516	+	Missense_Mutation	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:124350516G>T	uc001uft.3	+	40	6734	c.6709G>T	c.(6709-6711)GCC>TCC	p.A2237S		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	2237	AAA 2 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		TTTACAGTATGCCTCCCCTGC	0.358													48	114	---	---	---	---	PASS
DNAH10	196385	broad.mit.edu	37	12	124354931	124354931	+	Missense_Mutation	SNP	A	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:124354931A>T	uc001uft.3	+	43	7209	c.7184A>T	c.(7183-7185)TAT>TTT	p.Y2395F		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	2395					microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		CCAACCTTGTATGACTTTCAT	0.393													17	35	---	---	---	---	PASS
TMEM132B	114795	broad.mit.edu	37	12	126004172	126004172	+	Splice_Site	SNP	G	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:126004172G>C	uc001uhe.1	+	4	1286	c.1278_splice	c.e4+1	p.M426_splice		NM_052907	NP_443139	Q14DG7	T132B_HUMAN	transmembrane protein 132B							integral to membrane				skin(11)|ovary(5)|large_intestine(1)|pancreas(1)|breast(1)	19	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000423)|Epithelial(86;0.00394)|all cancers(50;0.0362)		TCTTGCCATGGTGAGGAATCT	0.478													54	128	---	---	---	---	PASS
SLC15A4	121260	broad.mit.edu	37	12	129299353	129299353	+	Missense_Mutation	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:129299353G>A	uc001uhu.2	-	2	862	c.809C>T	c.(808-810)TCC>TTC	p.S270F	SLC15A4_uc001uhv.2_RNA|MGC16384_uc001uhw.2_5'Flank	NM_145648	NP_663623	Q8N697	S15A4_HUMAN	solute carrier family 15, member 4	270					oligopeptide transport|protein transport	integral to membrane|lysosomal membrane	peptide:hydrogen symporter activity				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.69e-06)|Epithelial(86;1.17e-05)|all cancers(50;5.07e-05)		TCGCTTCTGGGAACAGCAGGA	0.468													51	93	---	---	---	---	PASS
LATS2	26524	broad.mit.edu	37	13	21619814	21619814	+	Intron	SNP	C	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:21619814C>T	uc009zzs.2	-						LATS2_uc001unr.3_Intron	NM_014572	NP_055387	Q9NRM7	LATS2_HUMAN	LATS, large tumor suppressor, homolog 2						cell division|G1/S transition of mitotic cell cycle|hippo signaling cascade|hormone-mediated signaling pathway|intracellular protein kinase cascade|mitosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity	microtubule organizing center|nucleus|spindle pole	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|central_nervous_system(3)|ovary(2)|breast(1)|pancreas(1)	10		all_cancers(29;4.74e-22)|all_epithelial(30;1.45e-18)|all_lung(29;4.69e-16)|Lung SC(185;0.0262)|Hepatocellular(188;0.244)		all cancers(112;0.000781)|Epithelial(112;0.00144)|OV - Ovarian serous cystadenocarcinoma(117;0.0183)|Lung(94;0.0375)|LUSC - Lung squamous cell carcinoma(192;0.104)		CTGCAGAGGTCTGTACCCACC	0.527													16	23	---	---	---	---	PASS
PCDH20	64881	broad.mit.edu	37	13	61987452	61987452	+	Silent	SNP	C	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:61987452C>T	uc001vid.3	-	2	1144	c.780G>A	c.(778-780)GTG>GTA	p.V260V	PCDH20_uc010thj.1_Silent_p.V260V	NM_022843	NP_073754	Q8N6Y1	PCD20_HUMAN	protocadherin 20	233	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|breast(1)|central_nervous_system(1)	6		Breast(118;0.195)|Prostate(109;0.229)		GBM - Glioblastoma multiforme(99;0.000118)		CATTCTCCTCCACGTCCAGGG	0.527													40	115	---	---	---	---	PASS
MYCBP2	23077	broad.mit.edu	37	13	77748533	77748533	+	Missense_Mutation	SNP	C	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:77748533C>G	uc001vkf.2	-	38	5541	c.5450G>C	c.(5449-5451)GGT>GCT	p.G1817A	MYCBP2_uc010aev.2_Missense_Mutation_p.G1221A	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	1817					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		GAATGTCACACCATCAGGGCA	0.463													56	133	---	---	---	---	PASS
OR4K17	390436	broad.mit.edu	37	14	20585700	20585700	+	Missense_Mutation	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:20585700G>T	uc001vwo.1	+	1	135	c.135G>T	c.(133-135)TTG>TTT	p.L45F		NM_001004715	NP_001004715	Q8NGC6	OR4KH_HUMAN	olfactory receptor, family 4, subfamily K,	17	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)	3	all_cancers(95;0.00108)		Epithelial(56;7.58e-07)|all cancers(55;3.77e-06)	GBM - Glioblastoma multiforme(265;0.0144)		AATTCATTTTGCTGGGACTGA	0.423													108	413	---	---	---	---	PASS
OR11H6	122748	broad.mit.edu	37	14	20692503	20692503	+	Missense_Mutation	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:20692503C>A	uc010tlc.1	+	1	635	c.635C>A	c.(634-636)TCC>TAC	p.S212Y		NM_001004480	NP_001004480	Q8NGC7	O11H6_HUMAN	olfactory receptor, family 11, subfamily H,	212	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(95;0.00108)		Epithelial(56;1.75e-06)|all cancers(55;1.22e-05)	GBM - Glioblastoma multiforme(265;0.0143)		TCTGCTCCTTCCACTGAGCTT	0.498													32	73	---	---	---	---	PASS
METT11D1	64745	broad.mit.edu	37	14	21458712	21458712	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:21458712C>T	uc001vyn.2	+	3	516	c.319C>T	c.(319-321)CAA>TAA	p.Q107*	METT11D1_uc010tlk.1_Nonsense_Mutation_p.Q107*|METT11D1_uc001vym.2_Nonsense_Mutation_p.Q107*|METT11D1_uc001vyo.2_Nonsense_Mutation_p.Q107*|METT11D1_uc001vyp.2_5'UTR|METT11D1_uc001vyq.2_5'UTR	NM_022734	NP_073571	Q9H7H0	MET17_HUMAN	methyltransferase 11 domain containing 1 isoform	107					translation	mitochondrion|ribosome	copper ion binding|methyltransferase activity				0	all_cancers(95;0.00267)		OV - Ovarian serous cystadenocarcinoma(11;1.34e-10)|Epithelial(56;1.57e-08)|all cancers(55;7.45e-08)	GBM - Glioblastoma multiforme(265;0.0191)		AGAGGAGTTGCAAAGACGGGC	0.463											OREG0022561	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	31	128	---	---	---	---	PASS
NGDN	25983	broad.mit.edu	37	14	23946781	23946781	+	Intron	SNP	G	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:23946781G>C	uc001wjy.2	+						NGDN_uc001wjz.2_3'UTR|NGDN_uc001wka.2_Intron	NM_001042635	NP_001036100	Q8NEJ9	NGDN_HUMAN	neuroguidin isoform 1						regulation of translation	axon|cytoplasm|dendrite|filopodium|nucleus					0	all_cancers(95;0.000251)			GBM - Glioblastoma multiforme(265;0.00654)		TCAGTGAACTGCTGGGACTTA	0.463													13	36	---	---	---	---	PASS
HECTD1	25831	broad.mit.edu	37	14	31642569	31642569	+	Missense_Mutation	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:31642569C>A	uc001wrc.1	-	6	1438	c.949G>T	c.(949-951)GTG>TTG	p.V317L		NM_015382	NP_056197	Q9ULT8	HECD1_HUMAN	HECT domain containing 1	317					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	metal ion binding|protein binding|ubiquitin-protein ligase activity			ovary(3)|large_intestine(1)|lung(1)	5	Hepatocellular(127;0.0877)|Breast(36;0.176)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.111)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00617)		GTATCAAGCACACATCTTTCA	0.413													44	74	---	---	---	---	PASS
LRFN5	145581	broad.mit.edu	37	14	42361074	42361074	+	Missense_Mutation	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:42361074C>A	uc001wvm.2	+	4	3205	c.2007C>A	c.(2005-2007)AAC>AAA	p.N669K	LRFN5_uc010ana.2_Intron	NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III	669	Cytoplasmic (Potential).					integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		AAAACACTAACAGGAACAACT	0.458										HNSCC(30;0.082)			23	22	---	---	---	---	PASS
MDGA2	161357	broad.mit.edu	37	14	47530548	47530548	+	Missense_Mutation	SNP	T	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:47530548T>C	uc001wwj.3	-	7	1418	c.1222A>G	c.(1222-1224)AAA>GAA	p.K408E	MDGA2_uc001wwi.3_Missense_Mutation_p.K179E|MDGA2_uc010ani.2_5'UTR	NM_001113498	NP_001106970	Q7Z553	MDGA2_HUMAN	MAM domain containing 1 isoform 1	408	Ig-like 4.				spinal cord motor neuron differentiation	anchored to membrane|plasma membrane				ovary(4)|large_intestine(1)|pancreas(1)	6						TCCGTGAATTTTAAATCAATG	0.408													91	100	---	---	---	---	PASS
SYT16	83851	broad.mit.edu	37	14	62462802	62462802	+	Missense_Mutation	SNP	C	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:62462802C>T	uc001xfu.1	+	1	262	c.65C>T	c.(64-66)TCT>TTT	p.S22F	SYT16_uc010tsd.1_Missense_Mutation_p.S22F	NM_031914	NP_114120	Q17RD7	SYT16_HUMAN	synaptotagmin XIV-like	22										central_nervous_system(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.0438)|BRCA - Breast invasive adenocarcinoma(234;0.118)		TCCTGGATATCTCGGGTTTAT	0.453													31	68	---	---	---	---	PASS
KCNH5	27133	broad.mit.edu	37	14	63447643	63447643	+	Silent	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:63447643G>A	uc001xfx.2	-	6	940	c.889C>T	c.(889-891)CTG>TTG	p.L297L	KCNH5_uc001xfy.2_Silent_p.L297L|KCNH5_uc001xfz.1_Silent_p.L239L|KCNH5_uc001xga.2_Silent_p.L239L	NM_139318	NP_647479	Q8NCM2	KCNH5_HUMAN	potassium voltage-gated channel, subfamily H,	297	Helical; Name=Segment S3; (Potential).				regulation of transcription, DNA-dependent	integral to membrane	calmodulin binding|two-component sensor activity|voltage-gated potassium channel activity			ovary(4)|skin(4)|central_nervous_system(1)	9				OV - Ovarian serous cystadenocarcinoma(108;0.00958)|BRCA - Breast invasive adenocarcinoma(234;0.168)		CAAGACAGCAGATCGATCACA	0.393													43	96	---	---	---	---	PASS
C14orf115	55237	broad.mit.edu	37	14	74824650	74824650	+	Silent	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:74824650G>A	uc001xpw.3	+	2	1355	c.1164G>A	c.(1162-1164)GAG>GAA	p.E388E		NM_018228	NP_060698	Q9H8Y1	VRTN_HUMAN	hypothetical protein LOC55237	388					transposition, DNA-mediated		DNA binding|transposase activity				0				BRCA - Breast invasive adenocarcinoma(234;0.00147)		AGGAGCTGGAGTGCTCCGCAC	0.627													34	66	---	---	---	---	PASS
TMEM90A	646658	broad.mit.edu	37	14	74874674	74874674	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:74874674C>A	uc001xpx.2	-	3	684	c.436G>T	c.(436-438)GAG>TAG	p.E146*		NM_001105579	NP_001099049	A6NDD5	SYN1L_HUMAN	transmembrane protein 90A	146					response to biotic stimulus	Golgi apparatus|integral to membrane					0				BRCA - Breast invasive adenocarcinoma(234;0.00159)		CTTTCACTCTCCGTTGAAGTG	0.468													18	51	---	---	---	---	PASS
SEL1L	6400	broad.mit.edu	37	14	81964351	81964351	+	Missense_Mutation	SNP	T	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:81964351T>C	uc010tvv.1	-	10	1130	c.1013A>G	c.(1012-1014)CAG>CGG	p.Q338R		NM_005065	NP_005056	Q9UBV2	SE1L1_HUMAN	sel-1 suppressor of lin-12-like precursor	338	Lumenal (Potential).|Interaction with ERLEC1, OS9 and SYVN1.				Notch signaling pathway	endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.0299)		CCGTATTCTCTGTACTACTGA	0.403													28	70	---	---	---	---	PASS
COX8C	341947	broad.mit.edu	37	14	93814470	93814470	+	3'UTR	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:93814470G>T	uc001ybt.1	+	2					KIAA1409_uc001ybs.1_Intron	NM_182971	NP_892016	Q7Z4L0	COX8C_HUMAN	cytochrome c oxidase subunit VIIIc							integral to membrane|mitochondrial inner membrane	cytochrome-c oxidase activity				0		all_cancers(154;0.083)		Epithelial(152;0.176)|all cancers(159;0.197)|COAD - Colon adenocarcinoma(157;0.202)		GAATTAGATGGAAGATGATGT	0.408													75	84	---	---	---	---	PASS
AHNAK2	113146	broad.mit.edu	37	14	105409712	105409712	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:105409712C>A	uc010axc.1	-	7	12196	c.12076G>T	c.(12076-12078)GAG>TAG	p.E4026*	AHNAK2_uc001ypx.2_Nonsense_Mutation_p.E3926*	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	4026						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			GCCTGGACCTCCAGGTCAGCG	0.657													75	353	---	---	---	---	PASS
ADAM6	8755	broad.mit.edu	37	14	106067131	106067131	+	Intron	SNP	C	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:106067131C>G	uc010tyt.1	-						uc001yrs.2_Intron|uc001yrt.2_Intron|uc001yrw.1_Silent_p.P228P|uc001yrx.1_Silent_p.P175P|uc010axp.1_5'Flank|uc001yrv.1_5'Flank|uc001yru.2_5'Flank|uc010axq.1_5'Flank					Parts of antibodies, mostly variable regions.												0						TCACCCCTCTCGGGTTGGAAT	0.667													58	66	---	---	---	---	PASS
SNORD116-4	100033416	broad.mit.edu	37	15	25334028	25334028	+	Intron	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:25334028G>T	uc001yxh.1	+						SNORD116-4_uc001yxm.1_Intron|IPW_uc001yxn.3_Intron|SNORD116-28_uc001yxy.2_Intron|IPW_uc001yyb.3_Intron|uc001yyd.2_Intron|SNORD116-20_uc001yyf.2_RNA|SNORD116-22_uc001yyg.1_5'Flank|SNORD116-23_uc001yyh.2_5'Flank					Homo sapiens clone kid4 SNURF-SNRPN mRNA, downstream untranslated exons, alternatively spliced.												0						CGTCATCCTCGTCGAACTGAG	0.458													88	331	---	---	---	---	PASS
GABRB3	2562	broad.mit.edu	37	15	26866450	26866450	+	Intron	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:26866450G>T	uc001zaz.2	-						GABRB3_uc010uae.1_Intron|GABRB3_uc001zba.2_Intron|GABRB3_uc001zbb.2_Intron|GABRB3_uc001zbc.2_Intron	NM_000814	NP_000805	P28472	GBRB3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta						synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			upper_aerodigestive_tract(1)|ovary(1)|lung(1)|liver(1)|central_nervous_system(1)	5		all_cancers(20;1.89e-22)|all_lung(180;6.35e-15)|Breast(32;0.000279)|Colorectal(260;0.232)		all cancers(64;1.46e-07)|Epithelial(43;2.89e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0251)|COAD - Colon adenocarcinoma(236;0.235)|Lung(196;0.243)	Ethchlorvynol(DB00189)|Flurazepam(DB00690)|Lorazepam(DB00186)|Midazolam(DB00683)	GTCCTGAAGAGGCACACAGAC	0.438													76	134	---	---	---	---	PASS
GABRB3	2562	broad.mit.edu	37	15	26866451	26866451	+	Intron	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:26866451G>T	uc001zaz.2	-						GABRB3_uc010uae.1_Intron|GABRB3_uc001zba.2_Intron|GABRB3_uc001zbb.2_Intron|GABRB3_uc001zbc.2_Intron	NM_000814	NP_000805	P28472	GBRB3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta						synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			upper_aerodigestive_tract(1)|ovary(1)|lung(1)|liver(1)|central_nervous_system(1)	5		all_cancers(20;1.89e-22)|all_lung(180;6.35e-15)|Breast(32;0.000279)|Colorectal(260;0.232)		all cancers(64;1.46e-07)|Epithelial(43;2.89e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0251)|COAD - Colon adenocarcinoma(236;0.235)|Lung(196;0.243)	Ethchlorvynol(DB00189)|Flurazepam(DB00690)|Lorazepam(DB00186)|Midazolam(DB00683)	TCCTGAAGAGGCACACAGACC	0.438													79	132	---	---	---	---	PASS
RYR3	6263	broad.mit.edu	37	15	34032192	34032192	+	Missense_Mutation	SNP	A	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:34032192A>G	uc001zhi.2	+	51	7886	c.7816A>G	c.(7816-7818)ATG>GTG	p.M2606V	RYR3_uc010bar.2_Missense_Mutation_p.M2606V	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	2606	3.|Cytoplasmic (By similarity).|4 X approximate repeats.				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		TATTAACACCATGAAGTGAGT	0.433													19	63	---	---	---	---	PASS
C15orf52	388115	broad.mit.edu	37	15	40633069	40633069	+	Silent	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:40633069G>A	uc001zlh.3	-	1	100	c.84C>T	c.(82-84)CTC>CTT	p.L28L	C15orf52_uc001zli.1_5'Flank	NM_207380	NP_997263	Q6ZUT6	CO052_HUMAN	hypothetical protein LOC388115	28										large_intestine(1)	1		all_cancers(109;9.35e-19)|all_epithelial(112;1.18e-15)|Lung NSC(122;2.45e-11)|all_lung(180;6.47e-10)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;9.06e-06)|Colorectal(105;0.0107)|BRCA - Breast invasive adenocarcinoma(123;0.0505)|READ - Rectum adenocarcinoma(2;0.0649)|Lung(196;0.0781)|LUAD - Lung adenocarcinoma(183;0.0841)		TGGGGAGCCAGAGTGGGAGGA	0.632													6	16	---	---	---	---	PASS
GANC	2595	broad.mit.edu	37	15	42630685	42630685	+	Nonsense_Mutation	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:42630685G>T	uc001zpi.2	+	16	2154	c.1840G>T	c.(1840-1842)GGA>TGA	p.G614*		NM_198141	NP_937784	Q8TET4	GANC_HUMAN	glucosidase, alpha; neutral C	614					carbohydrate metabolic process		carbohydrate binding|maltose alpha-glucosidase activity			central_nervous_system(2)	2		all_cancers(109;3.08e-16)|all_epithelial(112;7.48e-15)|Lung NSC(122;3.08e-09)|all_lung(180;1.48e-08)|Melanoma(134;0.0574)|Colorectal(260;0.153)		GBM - Glioblastoma multiforme(94;1.06e-06)		CTCTTTTTGCGGAGGTAAGAT	0.433													31	126	---	---	---	---	PASS
TGM5	9333	broad.mit.edu	37	15	43533124	43533124	+	Silent	SNP	A	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:43533124A>G	uc001zrd.1	-	7	935	c.927T>C	c.(925-927)GAT>GAC	p.D309D	TGM5_uc001zrc.1_5'Flank|TGM5_uc001zre.1_Silent_p.D227D	NM_201631	NP_963925	O43548	TGM5_HUMAN	transglutaminase 5 isoform 1	309					epidermis development|peptide cross-linking	cytoplasm	acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			central_nervous_system(1)	1		all_cancers(109;1.37e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.216)		GBM - Glioblastoma multiforme(94;4e-07)	L-Glutamine(DB00130)	TCAGGTTTCCATCTGTATCGT	0.448													67	249	---	---	---	---	PASS
FBN1	2200	broad.mit.edu	37	15	48796075	48796075	+	Silent	SNP	C	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:48796075C>T	uc001zwx.1	-	17	2350	c.2022G>A	c.(2020-2022)TTG>TTA	p.L674L		NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	674	TB 3.				heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		CAGCACCAAACAAAGGTTTGA	0.483													37	212	---	---	---	---	PASS
NARG2	79664	broad.mit.edu	37	15	60745837	60745837	+	Missense_Mutation	SNP	T	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:60745837T>C	uc002agp.2	-	9	1325	c.1090A>G	c.(1090-1092)ATG>GTG	p.M364V	NARG2_uc002ago.2_Missense_Mutation_p.M227V|NARG2_uc002agq.3_Missense_Mutation_p.M32V|NARG2_uc010bgk.2_Missense_Mutation_p.M364V|NARG2_uc002agr.1_Missense_Mutation_p.M364V	NM_024611	NP_078887	Q659A1	NARG2_HUMAN	NMDA receptor regulated 2 isoform a	364						nucleus				ovary(1)|lung(1)	2						GGTTTGTCCATAAAGACTGCA	0.328													35	156	---	---	---	---	PASS
CILP	8483	broad.mit.edu	37	15	65499191	65499191	+	Missense_Mutation	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:65499191C>A	uc002aon.2	-	4	534	c.353G>T	c.(352-354)TGG>TTG	p.W118L		NM_003613	NP_003604	O75339	CILP1_HUMAN	cartilage intermediate layer protein	118					negative regulation of insulin-like growth factor receptor signaling pathway	extracellular matrix part|extracellular space|proteinaceous extracellular matrix				ovary(4)|pancreas(2)|skin(1)	7						GTTGAGGCACCAGAAACCCTC	0.647													43	177	---	---	---	---	PASS
NEO1	4756	broad.mit.edu	37	15	73545749	73545749	+	Missense_Mutation	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:73545749G>T	uc002avm.3	+	12	2045	c.1903G>T	c.(1903-1905)GCT>TCT	p.A635S	NEO1_uc010ukx.1_Missense_Mutation_p.A635S|NEO1_uc010uky.1_Missense_Mutation_p.A635S|NEO1_uc010ukz.1_Missense_Mutation_p.A59S|NEO1_uc002avn.3_Missense_Mutation_p.A300S	NM_002499	NP_002490	Q92859	NEO1_HUMAN	neogenin homolog 1 precursor	635	Extracellular (Potential).|Fibronectin type-III 3.				axon guidance|cell adhesion|positive regulation of muscle cell differentiation	Golgi apparatus|integral to plasma membrane|nucleus				pancreas(1)	1						AGTTCCCAGTGCTGCTCCTCA	0.378													79	55	---	---	---	---	PASS
ACAN	176	broad.mit.edu	37	15	89398283	89398283	+	Missense_Mutation	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:89398283C>A	uc010upo.1	+	12	2841	c.2467C>A	c.(2467-2469)CCA>ACA	p.P823T	ACAN_uc010upp.1_Missense_Mutation_p.P823T|ACAN_uc002bna.2_RNA	NM_013227	NP_037359	E7EX88	E7EX88_HUMAN	aggrecan isoform 2 precursor	823					cell adhesion		hyaluronic acid binding|sugar binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.0392)|all_lung(78;0.077)		BRCA - Breast invasive adenocarcinoma(143;0.146)			CTCAGAGGAGCCATTCCCCTC	0.622													8	34	---	---	---	---	PASS
ANPEP	290	broad.mit.edu	37	15	90333708	90333708	+	Missense_Mutation	SNP	C	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:90333708C>T	uc002bop.3	-	20	3026	c.2734G>A	c.(2734-2736)GAG>AAG	p.E912K		NM_001150	NP_001141	P15144	AMPN_HUMAN	membrane alanine aminopeptidase precursor	912	Extracellular.|Metalloprotease.				angiogenesis|cell differentiation|interspecies interaction between organisms	cytosol|ER-Golgi intermediate compartment|integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|receptor activity|zinc ion binding			ovary(3)|skin(1)	4	Lung NSC(78;0.0221)|all_lung(78;0.0448)		BRCA - Breast invasive adenocarcinoma(143;0.0146)|KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|STAD - Stomach adenocarcinoma(125;0.169)		Ezetimibe(DB00973)	AGCTCATACTCGGTGGAGAAT	0.537													55	91	---	---	---	---	PASS
MSLNL	401827	broad.mit.edu	37	16	830137	830137	+	Silent	SNP	G	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:830137G>C	uc002cjz.1	-	3	864	c.864C>G	c.(862-864)ACC>ACG	p.T288T		NM_001025190	NP_001020361	Q96KJ4	MSLNL_HUMAN	mesothelin-like	21					cell adhesion	integral to membrane				breast(3)|ovary(1)	4						ACAGCAGGAGGGTGAGGCCTG	0.692													11	39	---	---	---	---	PASS
UNKL	64718	broad.mit.edu	37	16	1453235	1453235	+	Missense_Mutation	SNP	T	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:1453235T>C	uc010bro.1	-	3	406	c.398A>G	c.(397-399)AAG>AGG	p.K133R	UNKL_uc002clq.2_Missense_Mutation_p.K133R	NM_001037125	NP_001032202	Q9H9P5	UNKL_HUMAN	unkempt homolog (Drosophila)-like isoform 2	133	C3H1-type 2.					cytoplasm|nucleus	ligase activity|nucleic acid binding|zinc ion binding				0		Hepatocellular(780;0.0893)				CAGCCCATTCTTCACGCAGTG	0.637													22	46	---	---	---	---	PASS
CARHSP1	23589	broad.mit.edu	37	16	8953178	8953178	+	Missense_Mutation	SNP	G	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:8953178G>C	uc002czh.1	-	2	358	c.8C>G	c.(7-9)TCT>TGT	p.S3C	PMM2_uc002czg.1_Intron|CARHSP1_uc002czi.1_Missense_Mutation_p.S3C	NM_001042476	NP_001035941	Q9Y2V2	CHSP1_HUMAN	calcium-regulated heat-stable protein 1	3					intracellular signal transduction|regulation of mRNA stability|regulation of transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|P granule	DNA binding|mRNA 3'-UTR binding|phosphatase binding				0						GGGAGGCTCAGATGACATGGC	0.642													9	28	---	---	---	---	PASS
USP7	7874	broad.mit.edu	37	16	8996248	8996248	+	Missense_Mutation	SNP	C	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:8996248C>G	uc002czl.2	-	17	2130	c.1931G>C	c.(1930-1932)GGC>GCC	p.G644A	USP7_uc010uyk.1_Missense_Mutation_p.G545A|USP7_uc002czj.2_RNA|USP7_uc010uyj.1_Missense_Mutation_p.G545A|USP7_uc002czk.2_Missense_Mutation_p.G628A|USP7_uc010uyl.1_RNA	NM_003470	NP_003461	Q93009	UBP7_HUMAN	ubiquitin specific peptidase 7	644	Interaction with ICP0/VMW110.				interspecies interaction between organisms|multicellular organismal development|protein deubiquitination|regulation of sequence-specific DNA binding transcription factor activity|ubiquitin-dependent protein catabolic process	cytoplasm|PML body	cysteine-type endopeptidase activity|p53 binding|protein C-terminus binding|transcription factor binding|ubiquitin protein ligase binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(3)	3						TGTTTTATTGCCGTCGGCTTC	0.423													35	38	---	---	---	---	PASS
ABCC1	4363	broad.mit.edu	37	16	16108449	16108449	+	Silent	SNP	C	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:16108449C>T	uc010bvi.2	+	4	628	c.453C>T	c.(451-453)GCC>GCT	p.A151A	ABCC1_uc010bvj.2_Silent_p.A151A|ABCC1_uc010bvk.2_Silent_p.A151A|ABCC1_uc010bvl.2_Silent_p.A151A|ABCC1_uc010bvm.2_Silent_p.A151A|ABCC1_uc002del.3_Silent_p.A35A|ABCC1_uc010bvn.2_Silent_p.A14A	NM_004996	NP_004987	P33527	MRP1_HUMAN	ATP-binding cassette, sub-family C, member 1	151	Helical; Name=4.				hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process|response to drug	Golgi apparatus|integral to plasma membrane|membrane fraction|nucleus	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)	4					Daunorubicin(DB00694)|Glibenclamide(DB01016)|Probenecid(DB01032)|Saquinavir(DB01232)|Sulfinpyrazone(DB01138)	GTGCCCTAGCCATCCTGAGAT	0.507													63	181	---	---	---	---	PASS
DNAH3	55567	broad.mit.edu	37	16	20990716	20990716	+	Missense_Mutation	SNP	T	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:20990716T>A	uc010vbe.1	-	50	8012	c.8012A>T	c.(8011-8013)GAG>GTG	p.E2671V	DNAH3_uc010vbd.1_Missense_Mutation_p.E106V	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	2671	Stalk (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		CATAGCCACCTCTTGCCTCTT	0.468													48	148	---	---	---	---	PASS
SLC5A11	115584	broad.mit.edu	37	16	24902294	24902294	+	Missense_Mutation	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:24902294G>T	uc002dmu.2	+	9	1001	c.769G>T	c.(769-771)GCC>TCC	p.A257S	SLC5A11_uc002dms.2_Missense_Mutation_p.A193S|SLC5A11_uc010vcd.1_Missense_Mutation_p.A222S|SLC5A11_uc002dmt.2_Intron|SLC5A11_uc010vce.1_Missense_Mutation_p.A187S|SLC5A11_uc010bxt.2_Missense_Mutation_p.A193S	NM_052944	NP_443176	Q8WWX8	SC5AB_HUMAN	solute carrier family 5 (sodium/glucose	257	Extracellular (Potential).				apoptosis|carbohydrate transport|sodium ion transport	integral to membrane|plasma membrane	polyol transmembrane transporter activity|symporter activity			ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0365)		CCGGGAAGATGCCTTCCATAT	0.582													98	329	---	---	---	---	PASS
KIAA0556	23247	broad.mit.edu	37	16	27751548	27751548	+	Missense_Mutation	SNP	C	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:27751548C>T	uc002dow.2	+	15	1954	c.1930C>T	c.(1930-1932)CAT>TAT	p.H644Y		NM_015202	NP_056017	O60303	K0556_HUMAN	hypothetical protein LOC23247	644										ovary(4)|large_intestine(2)|upper_aerodigestive_tract(1)|skin(1)	8						CAAAGGCACCCATGAGATGGC	0.552													45	115	---	---	---	---	PASS
SALL1	6299	broad.mit.edu	37	16	51175787	51175787	+	Missense_Mutation	SNP	G	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:51175787G>C	uc010vgs.1	-	2	377	c.346C>G	c.(346-348)CAC>GAC	p.H116D	SALL1_uc010vgr.1_Missense_Mutation_p.H19D|SALL1_uc010cbv.2_Intron	NM_002968	NP_002959	Q9NSC2	SALL1_HUMAN	sal-like 1 isoform a	116					adrenal gland development|branching involved in ureteric bud morphogenesis|embryonic digestive tract development|embryonic digit morphogenesis|gonad development|histone deacetylation|inductive cell-cell signaling|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of transcription from RNA polymerase II promoter|olfactory bulb interneuron differentiation|olfactory bulb mitral cell layer development|olfactory nerve development|outer ear morphogenesis|pituitary gland development|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|ureteric bud invasion|ventricular septum development	chromocenter|cytoplasm|heterochromatin|nucleus	beta-catenin binding|DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(5)|ovary(3)	8		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			AGTCCGTTGTGTTCTGAAAGG	0.552													57	139	---	---	---	---	PASS
BBS2	583	broad.mit.edu	37	16	56535283	56535283	+	Missense_Mutation	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:56535283G>A	uc002ejd.2	-	10	1441	c.1207C>T	c.(1207-1209)CGC>TGC	p.R403C	BBS2_uc010ccg.2_3'UTR	NM_031885	NP_114091	Q9BXC9	BBS2_HUMAN	Bardet-Biedl syndrome 2 protein	403					adult behavior|brain morphogenesis|cerebral cortex development|cilium morphogenesis|fat cell differentiation|hippocampus development|melanosome transport|negative regulation of multicellular organism growth|photoreceptor cell maintenance|protein localization to organelle|regulation of cilium beat frequency involved in ciliary motility|sperm axoneme assembly|striatum development	BBSome|cilium membrane|microtubule basal body|motile cilium	protein binding			ovary(1)	1						GTGGAAATGCGTAATTCTGTA	0.443									Bardet-Biedl_syndrome				85	298	---	---	---	---	PASS
HERPUD1	9709	broad.mit.edu	37	16	56977077	56977077	+	Missense_Mutation	SNP	C	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:56977077C>T	uc002eke.1	+	8	1460	c.1051C>T	c.(1051-1053)CCT>TCT	p.P351S	HERPUD1_uc002ekf.1_Missense_Mutation_p.P350S|HERPUD1_uc002ekg.1_Missense_Mutation_p.P326S|HERPUD1_uc010cco.1_3'UTR|HERPUD1_uc010ccp.1_Missense_Mutation_p.P253S|HERPUD1_uc002ekh.1_Missense_Mutation_p.P169S	NM_014685	NP_055500	Q15011	HERP1_HUMAN	homocysteine-inducible, endoplasmic reticulum	351	Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane	protein binding				0						CAACCACCTCCCTCCAGACAG	0.463			T	ERG	prostate								168	398	---	---	---	---	PASS
CDH8	1006	broad.mit.edu	37	16	61687685	61687685	+	Missense_Mutation	SNP	A	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:61687685A>G	uc002eog.1	-	12	2479	c.2227T>C	c.(2227-2229)TCC>CCC	p.S743P		NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein	743	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|skin(2)|breast(1)	9		Ovarian(137;0.0799)|Melanoma(118;0.16)		UCEC - Uterine corpus endometrioid carcinoma (183;0.196)|Epithelial(162;0.0155)|all cancers(182;0.0305)|OV - Ovarian serous cystadenocarcinoma(108;0.0499)|BRCA - Breast invasive adenocarcinoma(181;0.249)		ATCTGAATGGAGTCATATGGC	0.498													25	68	---	---	---	---	PASS
LRRC50	123872	broad.mit.edu	37	16	84199402	84199402	+	Missense_Mutation	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:84199402G>T	uc002fhl.3	+	7	1058	c.877G>T	c.(877-879)GCC>TCC	p.A293S	LRRC50_uc010vnw.1_Missense_Mutation_p.A41S	NM_178452	NP_848547	Q8NEP3	DAAF1_HUMAN	leucine rich repeat containing 50	293	LRRCT.				axonemal dynein complex assembly|cilium morphogenesis	cilium axoneme|cytoplasm|spindle pole	dynein binding				0						TTGTGCGGAGGCCTGGGCTAG	0.478									Kartagener_syndrome				43	172	---	---	---	---	PASS
TP53	7157	broad.mit.edu	37	17	7578467	7578467	+	Missense_Mutation	SNP	T	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:7578467T>G	uc002gim.2	-	5	657	c.463A>C	c.(463-465)ACC>CCC	p.T155P	TP53_uc002gig.1_Missense_Mutation_p.T155P|TP53_uc002gih.2_Missense_Mutation_p.T155P|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.T23P|TP53_uc010cng.1_Missense_Mutation_p.T23P|TP53_uc002gii.1_Missense_Mutation_p.T23P|TP53_uc010cnh.1_Missense_Mutation_p.T155P|TP53_uc010cni.1_Missense_Mutation_p.T155P|TP53_uc002gij.2_Missense_Mutation_p.T155P|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.T62P|TP53_uc002gio.2_Missense_Mutation_p.T23P|TP53_uc010vug.1_Missense_Mutation_p.T116P	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	155	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		T -> N (in LFS; germline mutation and in sporadic cancers; somatic mutation).|T -> S (in sporadic cancers; somatic mutation).|T -> P (in sporadic cancers; somatic mutation).|T -> A (in sporadic cancers; somatic mutation).|T -> I (in sporadic cancers; somatic mutation).|T -> M (in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.T155N(19)|p.T155P(14)|p.T155I(10)|p.0?(7)|p.T155A(7)|p.T155T(5)|p.P152fs*14(4)|p.G154fs*14(2)|p.T155fs*23(2)|p.P153fs*22(2)|p.T155S(2)|p.P151_V173del23(1)|p.G154_R156delGTR(1)|p.T155fs*26(1)|p.T155fs*25(1)|p.D148_T155delDSTPPPGT(1)|p.D148fs*23(1)|p.S149fs*72(1)|p.T155_A161delTRVRAMA(1)|p.G154fs*22(1)|p.T155fs*15(1)|p.T155_R156delTR(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		CGGACGCGGGTGCCGGGCGGG	0.612		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			77	37	---	---	---	---	PASS
PFAS	5198	broad.mit.edu	37	17	8167621	8167621	+	Missense_Mutation	SNP	A	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:8167621A>T	uc002gkr.2	+	16	2024	c.1883A>T	c.(1882-1884)GAG>GTG	p.E628V	PFAS_uc010vuv.1_Missense_Mutation_p.E204V|PFAS_uc010cnw.1_Missense_Mutation_p.E128V|PFAS_uc002gks.2_5'Flank	NM_012393	NP_036525	O15067	PUR4_HUMAN	phosphoribosylformylglycinamidine synthase	628					'de novo' IMP biosynthetic process|glutamine metabolic process|purine base metabolic process	cytosol	ATP binding|phosphoribosylformylglycinamidine synthase activity|protein binding			ovary(2)|central_nervous_system(2)|pancreas(1)	5					L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	GTGGACCTGGAGCTCGAATGG	0.597													21	85	---	---	---	---	PASS
SREBF1	6720	broad.mit.edu	37	17	17718184	17718184	+	Missense_Mutation	SNP	C	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:17718184C>T	uc002gru.1	-	14	2761	c.2567G>A	c.(2566-2568)AGC>AAC	p.S856N	SREBF1_uc002gro.3_5'Flank|SREBF1_uc002grp.1_Missense_Mutation_p.S475N|SREBF1_uc002grq.1_Missense_Mutation_p.S375N|SREBF1_uc002grr.1_Missense_Mutation_p.S602N|SREBF1_uc002grs.1_Missense_Mutation_p.S832N|SREBF1_uc002grt.1_Missense_Mutation_p.S886N|MIR33B_hsa-mir-33b|MI0003646_5'Flank	NM_004176	NP_004167	P36956	SRBP1_HUMAN	sterol regulatory element binding transcription	856	Cytoplasmic (Potential).				cellular response to starvation|cholesterol metabolic process|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter	endoplasmic reticulum|endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|Golgi membrane|integral to membrane|nuclear envelope|nucleus	protein binding|protein binding|sequence-specific DNA binding transcription factor activity|sterol response element binding			skin(1)	1						GATGGAGAAGCTGTAGGCAGG	0.632													12	3	---	---	---	---	PASS
ACCN1	40	broad.mit.edu	37	17	31618927	31618927	+	Intron	SNP	C	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:31618927C>T	uc002hhu.2	-						ACCN1_uc002hht.2_Silent_p.L69L	NM_001094	NP_001085	Q16515	ACCN1_HUMAN	amiloride-sensitive cation channel 1, neuronal						central nervous system development|peripheral nervous system development|synaptic transmission	integral to plasma membrane	ligand-gated sodium channel activity|protein binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Breast(31;0.042)|Ovarian(249;0.202)		UCEC - Uterine corpus endometrioid carcinoma (308;0.13)|BRCA - Breast invasive adenocarcinoma(366;0.215)	Amiloride(DB00594)	ACATGTGCCGCAGCCCGTGCA	0.751													17	15	---	---	---	---	PASS
PLXDC1	57125	broad.mit.edu	37	17	37265147	37265147	+	Intron	SNP	G	A	A	rs149008147	by1000genomes	TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:37265147G>A	uc002hrg.2	-						PLXDC1_uc002hrh.2_Intron|PLXDC1_uc002hri.2_Intron|PLXDC1_uc002hrj.1_Intron|PLXDC1_uc002hrk.1_Intron	NM_020405	NP_065138	Q8IUK5	PXDC1_HUMAN	plexin domain containing 1 precursor						angiogenesis	cytoplasm|extracellular region|integral to membrane|tight junction				ovary(1)|kidney(1)|skin(1)	3						GCCCCACGACGTGGCCTTACC	0.587													26	8	---	---	---	---	PASS
SLC4A1	6521	broad.mit.edu	37	17	42328845	42328845	+	Missense_Mutation	SNP	C	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:42328845C>G	uc002igf.3	-	18	2572	c.2423G>C	c.(2422-2424)CGC>CCC	p.R808P		NM_000342	NP_000333	P02730	B3AT_HUMAN	solute carrier family 4, anion exchanger, member	808	Membrane (anion exchange).		R -> H (in SPH4; Nara).|R -> C (in SPH4; Jablonec).		bicarbonate transport|cellular ion homeostasis	basolateral plasma membrane|cortical cytoskeleton|integral to plasma membrane|Z disc	ankyrin binding|chloride transmembrane transporter activity|inorganic anion exchanger activity|protein anchor|protein homodimerization activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(137;0.014)|Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.115)		AAGCAAGATGCGGTCAAAGAG	0.587													116	53	---	---	---	---	PASS
POLG2	11232	broad.mit.edu	37	17	62493071	62493071	+	Missense_Mutation	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:62493071C>A	uc002jei.2	-	1	99	c.16G>T	c.(16-18)GCC>TCC	p.A6S	POLG2_uc010deg.1_Missense_Mutation_p.A6S	NM_007215	NP_009146	Q9UHN1	DPOG2_HUMAN	DNA polymerase subunit gamma-2, mitochondrial	6					DNA repair|DNA-dependent DNA replication|glycyl-tRNA aminoacylation	mitochondrial chromosome	ATP binding|DNA-directed DNA polymerase activity|glycine-tRNA ligase activity|identical protein binding|single-stranded DNA binding			central_nervous_system(1)	1	Breast(5;2.15e-14)		BRCA - Breast invasive adenocarcinoma(8;4.97e-11)			GCCCTGACGGCTACACGAGAG	0.577													27	139	---	---	---	---	PASS
ABCA10	10349	broad.mit.edu	37	17	67190576	67190576	+	Missense_Mutation	SNP	C	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:67190576C>G	uc010dfa.1	-	13	2174	c.1295G>C	c.(1294-1296)GGT>GCT	p.G432A	ABCA10_uc010wqt.1_RNA|ABCA10_uc010dfb.1_Missense_Mutation_p.G33A	NM_080282	NP_525021	Q8WWZ4	ABCAA_HUMAN	ATP-binding cassette, sub-family A, member 10	432	ATP 1 (Potential).|ABC transporter 1.				transport	integral to membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;6.95e-12)					TGTTGATTTACCAGCTCCATT	0.323													48	284	---	---	---	---	PASS
GPR142	350383	broad.mit.edu	37	17	72368390	72368390	+	Missense_Mutation	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:72368390G>T	uc010wqy.1	+	4	1040	c.1040G>T	c.(1039-1041)GGG>GTG	p.G347V	GPR142_uc010wqx.1_Missense_Mutation_p.G259V	NM_181790	NP_861455	Q7Z601	GP142_HUMAN	G protein-coupled receptor 142	347	Cytoplasmic (Potential).					cell junction|cytoplasm|integral to membrane	G-protein coupled receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4						GGCCGGAGTGGGCTGCAGCCC	0.627													103	34	---	---	---	---	PASS
COLEC12	81035	broad.mit.edu	37	18	334900	334900	+	Missense_Mutation	SNP	A	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:334900A>G	uc002kkm.2	-	6	1873	c.1658T>C	c.(1657-1659)GTT>GCT	p.V553A		NM_130386	NP_569057	Q5KU26	COL12_HUMAN	collectin sub-family member 12	553	Collagen-like 3.|Extracellular (Potential).				carbohydrate mediated signaling|innate immune response|phagocytosis, recognition|protein homooligomerization	collagen|integral to membrane	galactose binding|low-density lipoprotein particle binding|metal ion binding|pattern recognition receptor activity|scavenger receptor activity			ovary(1)|pancreas(1)	2		all_cancers(4;0.0442)|Myeloproliferative disorder(11;0.0426)				AGGCTCCCCAACGGTGCCCTG	0.736													5	18	---	---	---	---	PASS
TAF4B	6875	broad.mit.edu	37	18	23895363	23895363	+	Splice_Site	SNP	G	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:23895363G>C	uc002kvu.3	+	10	2491	c.2002_splice	c.e10+1	p.G668_splice	TAF4B_uc002kvs.3_Splice_Site|TAF4B_uc002kvt.3_Splice_Site_p.G673_splice	NM_005640	NP_005631	Q92750	TAF4B_HUMAN	TAF4b RNA polymerase II, TATA box binding						transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cytoplasm|nucleolus|transcription factor TFIID complex	DNA binding|NF-kappaB binding|sequence-specific DNA binding transcription factor activity			lung(1)|central_nervous_system(1)|skin(1)	3	all_cancers(21;0.00151)|Lung NSC(5;0.000401)|all_lung(6;0.00115)|Ovarian(20;0.124)		Epithelial(2;9.57e-07)|all cancers(3;5.15e-06)|OV - Ovarian serous cystadenocarcinoma(3;1.96e-05)|LUSC - Lung squamous cell carcinoma(2;0.00594)|Lung(2;0.0267)			TTAGACATTGGTAAGTGTAGA	0.368													68	92	---	---	---	---	PASS
CCDC68	80323	broad.mit.edu	37	18	52571635	52571635	+	Missense_Mutation	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:52571635G>T	uc002lfs.2	-	12	1134	c.962C>A	c.(961-963)ACC>AAC	p.T321N	CCDC68_uc002lft.2_Missense_Mutation_p.T321N	NM_001143829	NP_001137301	Q9H2F9	CCD68_HUMAN	coiled-coil domain containing 68	321										skin(1)	1				Colorectal(16;0.0256)|READ - Rectum adenocarcinoma(59;0.21)		AACACCTTCGGTCTTCAATTC	0.368													37	219	---	---	---	---	PASS
CDH20	28316	broad.mit.edu	37	18	59174683	59174683	+	Missense_Mutation	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:59174683G>A	uc010dps.1	+	5	919	c.907G>A	c.(907-909)GAA>AAA	p.E303K	CDH20_uc002lif.2_Missense_Mutation_p.E297K	NM_031891	NP_114097	Q9HBT6	CAD20_HUMAN	cadherin 20, type 2 preproprotein	303	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(3)|ovary(1)|pancreas(1)	5		Colorectal(73;0.186)				GGACTTGGATGAAGGCATCAA	0.443													254	174	---	---	---	---	PASS
CD226	10666	broad.mit.edu	37	18	67614263	67614263	+	Missense_Mutation	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:67614263G>T	uc010dqo.2	-	2	536	c.89C>A	c.(88-90)GCC>GAC	p.A30D	CD226_uc002lkm.3_Missense_Mutation_p.A30D	NM_006566	NP_006557	Q15762	CD226_HUMAN	CD226 molecule precursor	30	Ig-like C2-type 1.|Extracellular (Potential).				cell adhesion|cell recognition|positive regulation of Fc receptor mediated stimulatory signaling pathway|positive regulation of immunoglobulin mediated immune response|positive regulation of mast cell activation|positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target	cell surface|integral to plasma membrane|membrane raft	cell adhesion molecule binding|integrin binding|protein kinase binding|receptor activity				0		Esophageal squamous(42;0.129)				CATGTTCTCGGCAAAGGGAAC	0.423													96	272	---	---	---	---	PASS
TSHZ1	10194	broad.mit.edu	37	18	72999994	72999994	+	Nonsense_Mutation	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:72999994G>T	uc002lly.2	+	2	3060	c.2497G>T	c.(2497-2499)GAG>TAG	p.E833*		NM_005786	NP_005777	Q6ZSZ6	TSH1_HUMAN	teashirt family zinc finger 1	878						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Esophageal squamous(42;0.129)|Prostate(75;0.142)|Melanoma(33;0.211)		Colorectal(1;0.000501)|READ - Rectum adenocarcinoma(2;0.00226)|BRCA - Breast invasive adenocarcinoma(31;0.246)		GGCGTTGGACGAGCTGTCACC	0.617													26	101	---	---	---	---	PASS
ZNF516	9658	broad.mit.edu	37	18	74091860	74091860	+	Missense_Mutation	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:74091860G>A	uc010dqx.1	-	3	2445	c.2210C>T	c.(2209-2211)GCG>GTG	p.A737V	ZNF516_uc002lme.2_RNA|ZNF516_uc002lmd.2_RNA	NM_014643	NP_055458	Q92618	ZN516_HUMAN	zinc finger protein 516	737					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Prostate(75;0.0869)|Esophageal squamous(42;0.129)		OV - Ovarian serous cystadenocarcinoma(15;7.64e-06)|BRCA - Breast invasive adenocarcinoma(31;0.238)		CGTCGACCTCGCACTTAAATC	0.597													19	60	---	---	---	---	PASS
REXO1	57455	broad.mit.edu	37	19	1820047	1820047	+	Missense_Mutation	SNP	C	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:1820047C>T	uc002lua.3	-	7	2631	c.2536G>A	c.(2536-2538)GAG>AAG	p.E846K	REXO1_uc010dsq.2_Missense_Mutation_p.E155K|REXO1_uc010xgs.1_5'UTR|REXO1_uc010dsp.1_RNA|uc002lub.1_5'Flank	NM_020695	NP_065746	Q8N1G1	REXO1_HUMAN	transcription elongation factor B polypeptide 3	846						nucleus	exonuclease activity|nucleic acid binding				0		Ovarian(11;1.78e-06)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		ACCTTCTCCTCGTTCAGTGCC	0.667													14	75	---	---	---	---	PASS
SF3A2	8175	broad.mit.edu	37	19	2243439	2243439	+	Missense_Mutation	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:2243439G>A	uc002lvg.2	+	2	144	c.22G>A	c.(22-24)GGG>AGG	p.G8R		NM_007165	NP_009096	Q15428	SF3A2_HUMAN	splicing factor 3a, subunit 2	8					nuclear mRNA 3'-splice site recognition	catalytic step 2 spliceosome|nucleoplasm|small nuclear ribonucleoprotein complex	nucleic acid binding|zinc ion binding				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GCATCGCCCCGGGGGCAAGAC	0.642													35	111	---	---	---	---	PASS
MATK	4145	broad.mit.edu	37	19	3783963	3783963	+	Missense_Mutation	SNP	A	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:3783963A>G	uc002lyt.2	-	6	831	c.431T>C	c.(430-432)TTC>TCC	p.F144S	MATK_uc002lyv.2_Missense_Mutation_p.F145S|MATK_uc002lyu.2_Missense_Mutation_p.F103S|MATK_uc010dtq.2_Missense_Mutation_p.F144S	NM_139355	NP_647612	P42679	MATK_HUMAN	megakaryocyte-associated tyrosine kinase isoform	144	SH2.				cell proliferation|mesoderm development|positive regulation of cell proliferation	cytoplasm|nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity			stomach(2)|ovary(1)|lung(1)|large_intestine(1)	5		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00461)|STAD - Stomach adenocarcinoma(1328;0.18)		CCGCACCAGGAACAGCCCATC	0.697													14	35	---	---	---	---	PASS
HNRNPM	4670	broad.mit.edu	37	19	8531119	8531119	+	Silent	SNP	C	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:8531119C>T	uc010dwe.2	+	7	711	c.631C>T	c.(631-633)CTG>TTG	p.L211L	HNRNPM_uc010dwc.1_Silent_p.L211L|HNRNPM_uc010xke.1_Silent_p.L172L|HNRNPM_uc010dwd.2_Silent_p.L172L|HNRNPM_uc002mka.2_Silent_p.L91L	NM_005968	NP_005959	P52272	HNRPM_HUMAN	heterogeneous nuclear ribonucleoprotein M	211	RRM 2.				alternative nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome|integral to plasma membrane|nuclear matrix|nucleolus|paraspeckles	nucleotide binding|protein domain specific binding|RNA binding				0						TCTCGATTAGCTGGATTATAA	0.373													92	369	---	---	---	---	PASS
MUC16	94025	broad.mit.edu	37	19	9017340	9017340	+	Intron	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:9017340G>T	uc002mkp.2	-							NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16						cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TATCACAGCTGCTCACCATTG	0.552													136	358	---	---	---	---	PASS
MUC16	94025	broad.mit.edu	37	19	9065965	9065965	+	Missense_Mutation	SNP	C	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:9065965C>T	uc002mkp.2	-	3	21685	c.21481G>A	c.(21481-21483)GAG>AAG	p.E7161K		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	7163	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GTCAGTCTCTCATCTGAAGTG	0.502													68	230	---	---	---	---	PASS
MUC16	94025	broad.mit.edu	37	19	9089140	9089140	+	Missense_Mutation	SNP	G	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:9089140G>C	uc002mkp.2	-	1	2879	c.2675C>G	c.(2674-2676)TCT>TGT	p.S892C		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	892	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GGTAGGGACAGAGGTGCTGGC	0.507													18	31	---	---	---	---	PASS
CCDC151	115948	broad.mit.edu	37	19	11533444	11533444	+	Missense_Mutation	SNP	C	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:11533444C>G	uc002mrs.2	-	9	1345	c.1202G>C	c.(1201-1203)AGG>ACG	p.R401T	CCDC151_uc002mrr.2_Missense_Mutation_p.R336T|CCDC151_uc010dxz.2_Missense_Mutation_p.R341T	NM_145045	NP_659482	A5D8V7	CC151_HUMAN	coiled-coil domain containing 151	401	Potential.									ovary(1)	1						CTGCTTCAGCCTCACCAACGT	0.657													19	74	---	---	---	---	PASS
ZNF700	90592	broad.mit.edu	37	19	12060230	12060230	+	Missense_Mutation	SNP	A	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:12060230A>T	uc002msu.2	+	4	1517	c.1391A>T	c.(1390-1392)CAT>CTT	p.H464L	ZNF700_uc010xme.1_Missense_Mutation_p.H482L|ZNF763_uc010xmf.1_Intron	NM_144566	NP_653167	Q9H0M5	ZN700_HUMAN	zinc finger protein 700	464	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CTTCGAGTGCATGGTAGGACT	0.453													50	163	---	---	---	---	PASS
IL27RA	9466	broad.mit.edu	37	19	14143296	14143296	+	Missense_Mutation	SNP	C	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:14143296C>T	uc002mxx.2	+	2	622	c.199C>T	c.(199-201)CAC>TAC	p.H67Y		NM_004843	NP_004834	Q6UWB1	I27RA_HUMAN	class I cytokine receptor precursor	67	Extracellular (Potential).				cell surface receptor linked signaling pathway|immune response	integral to plasma membrane	transmembrane receptor activity				0						CTCCGAGTTACACCTCCAGAG	0.622													70	242	---	---	---	---	PASS
ZNF208	7757	broad.mit.edu	37	19	22156606	22156606	+	Silent	SNP	T	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:22156606T>G	uc002nqp.2	-	4	1379	c.1230A>C	c.(1228-1230)TCA>TCC	p.S410S	ZNF208_uc002nqo.1_Intron|ZNF208_uc010ecw.1_5'Flank	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				TAGTAAGGATTGAGAACATAC	0.383													45	156	---	---	---	---	PASS
ZNF461	92283	broad.mit.edu	37	19	37129799	37129799	+	Missense_Mutation	SNP	T	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:37129799T>A	uc002oem.2	-	6	1676	c.1448A>T	c.(1447-1449)CAC>CTC	p.H483L	ZNF461_uc002oen.2_Missense_Mutation_p.H452L|ZNF461_uc010xtj.1_Missense_Mutation_p.H460L	NM_153257	NP_694989	Q8TAF7	ZN461_HUMAN	gonadotropin inducible transcription repressor	483	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.198)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			TTGAATAAGGTGTGAATGAAG	0.393													32	121	---	---	---	---	PASS
ZNF527	84503	broad.mit.edu	37	19	37880312	37880312	+	Missense_Mutation	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:37880312G>T	uc010efk.1	+	5	1472	c.1361G>T	c.(1360-1362)CGC>CTC	p.R454L	ZNF527_uc002ogf.3_Missense_Mutation_p.R422L|ZNF527_uc010xtq.1_RNA	NM_032453	NP_115829	Q8NB42	ZN527_HUMAN	zinc finger protein 527	454	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TTTGGCTATCGCTCACACCTG	0.423													27	120	---	---	---	---	PASS
SIRT2	22933	broad.mit.edu	37	19	39384155	39384155	+	Missense_Mutation	SNP	C	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:39384155C>G	uc002ojt.1	-	4	325	c.125G>C	c.(124-126)CGG>CCG	p.R42P	SIRT2_uc010egh.1_Missense_Mutation_p.R5P|SIRT2_uc010egi.1_Missense_Mutation_p.R5P|SIRT2_uc002ojs.1_Missense_Mutation_p.R22P|SIRT2_uc002oju.1_Missense_Mutation_p.R5P|SIRT2_uc010egj.1_Missense_Mutation_p.R5P|SIRT2_uc002ojv.1_Missense_Mutation_p.R42P	NM_012237	NP_036369	Q8IXJ6	SIRT2_HUMAN	sirtuin 2 isoform 1	42					cell division|chromatin silencing at rDNA|chromatin silencing at telomere|mitosis|negative regulation of striated muscle tissue development|protein ADP-ribosylation|regulation of exit from mitosis|regulation of phosphorylation|response to redox state	chromatin silencing complex|cytoplasm|microtubule	histone acetyltransferase binding|histone deacetylase binding|NAD+ binding|NAD-dependent histone deacetylase activity|transcription factor binding|tubulin deacetylase activity|ubiquitin binding|zinc ion binding				0	all_cancers(60;6.83e-06)|Ovarian(47;0.0454)		Lung(45;0.00125)|LUSC - Lung squamous cell carcinoma(53;0.00191)			GAATAAGTTCCGCAGGAAGTC	0.527													12	45	---	---	---	---	PASS
ZNF222	7673	broad.mit.edu	37	19	44536824	44536824	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:44536824C>T	uc002oyc.2	+	4	1180	c.997C>T	c.(997-999)CGA>TGA	p.R333*	ZNF284_uc010ejd.2_Intron|ZNF222_uc002oye.2_Nonsense_Mutation_p.R373*|ZNF222_uc002oyd.2_Nonsense_Mutation_p.R279*	NM_013360	NP_037492	Q9UK12	ZN222_HUMAN	zinc finger protein 222 isoform 2	333	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3		Prostate(69;0.0435)				GGTCCATCAACGAGTCCACAC	0.428													100	283	---	---	---	---	PASS
ZNF229	7772	broad.mit.edu	37	19	44947019	44947019	+	Missense_Mutation	SNP	T	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:44947019T>A	uc002oze.1	-	3	447	c.13A>T	c.(13-15)ACC>TCC	p.T5S	ZNF229_uc010ejk.1_5'UTR|ZNF229_uc010ejl.1_Missense_Mutation_p.T5S	NM_014518	NP_055333	Q9UJW7	ZN229_HUMAN	zinc finger protein 229	5					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)|pancreas(1)	4		Prostate(69;0.0352)				TGCCTTGAGGTCAAAGTCTCC	0.483													31	205	---	---	---	---	PASS
ZNF296	162979	broad.mit.edu	37	19	45579091	45579091	+	Missense_Mutation	SNP	C	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:45579091C>G	uc002pao.2	-	2	385	c.328G>C	c.(328-330)GAT>CAT	p.D110H		NM_145288	NP_660331	Q8WUU4	ZN296_HUMAN	zinc finger protein 296	110					regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GTCAACAGATCTGGGTGTTTG	0.652													32	119	---	---	---	---	PASS
STRN4	29888	broad.mit.edu	37	19	47230799	47230799	+	Silent	SNP	G	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:47230799G>C	uc002pfl.2	-	9	1191	c.1158C>G	c.(1156-1158)GTC>GTG	p.V386V	STRN4_uc002pfm.2_Silent_p.V393V|STRN4_uc010xyf.1_RNA|STRN4_uc010xyg.1_RNA	NM_013403	NP_037535	Q9NRL3	STRN4_HUMAN	zinedin isoform 1	386						cytoplasm|membrane	armadillo repeat domain binding|calmodulin binding|protein complex binding|protein phosphatase 2A binding				0		Ovarian(192;0.0129)|all_neural(266;0.0459)|Breast(70;0.212)		OV - Ovarian serous cystadenocarcinoma(262;0.000563)|all cancers(93;0.00138)|Epithelial(262;0.0217)|GBM - Glioblastoma multiforme(486;0.035)		CCATGATGAAGACGTCTGAGG	0.413													8	38	---	---	---	---	PASS
MYH14	79784	broad.mit.edu	37	19	50775187	50775187	+	Missense_Mutation	SNP	A	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:50775187A>G	uc002prr.1	+	24	3177	c.3130A>G	c.(3130-3132)AAG>GAG	p.K1044E	MYH14_uc010enu.1_Missense_Mutation_p.K1085E|MYH14_uc002prq.1_Missense_Mutation_p.K1052E	NM_024729	NP_079005	Q7Z406	MYH14_HUMAN	myosin, heavy chain 14 isoform 2	1044	Potential.				axon guidance|regulation of cell shape	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			central_nervous_system(1)	1		all_neural(266;0.0571)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00389)|GBM - Glioblastoma multiforme(134;0.0195)		GAGCCTCAATAAGCTACGGCT	0.587													6	30	---	---	---	---	PASS
SIGLEC9	27180	broad.mit.edu	37	19	51631751	51631751	+	Missense_Mutation	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:51631751G>A	uc002pvu.2	+	6	1254	c.1187G>A	c.(1186-1188)AGG>AAG	p.R396K	SIGLEC9_uc010yct.1_Missense_Mutation_p.R396K	NM_014441	NP_055256	Q9Y336	SIGL9_HUMAN	sialic acid binding Ig-like lectin 9 precursor	396	Cytoplasmic (Potential).				cell adhesion|cell surface receptor linked signaling pathway	integral to plasma membrane	sugar binding			skin(1)	1		all_neural(266;0.0529)		GBM - Glioblastoma multiforme(134;0.000826)|OV - Ovarian serous cystadenocarcinoma(262;0.00295)		AACGCTGTCAGGGGTTCAGCC	0.582													38	92	---	---	---	---	PASS
ZNF600	162966	broad.mit.edu	37	19	53269448	53269448	+	Missense_Mutation	SNP	T	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:53269448T>C	uc002qab.3	-	3	1847	c.1561A>G	c.(1561-1563)AGT>GGT	p.S521G		NM_198457	NP_940859	Q6ZNG1	ZN600_HUMAN	zinc finger protein 600	521					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(262;0.0241)|GBM - Glioblastoma multiforme(134;0.0404)		TTCTCACCACTATGAACTCTG	0.438													122	444	---	---	---	---	PASS
ZNF320	162967	broad.mit.edu	37	19	53383958	53383958	+	Missense_Mutation	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:53383958C>A	uc002qag.2	-	4	1612	c.1421G>T	c.(1420-1422)TGT>TTT	p.C474F	ZNF320_uc010eqh.1_5'Flank|ZNF320_uc010eqi.1_Intron|ZNF320_uc002qah.2_Missense_Mutation_p.C420F|ZNF320_uc002qai.2_Missense_Mutation_p.C474F	NM_207333	NP_997216	A2RRD8	ZN320_HUMAN	zinc finger protein 320	474	C2H2-type 12; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.0534)		GACCTTGCCACACTGATGACA	0.403													69	100	---	---	---	---	PASS
LILRB2	10288	broad.mit.edu	37	19	54783874	54783874	+	Missense_Mutation	SNP	T	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:54783874T>A	uc002qfb.2	-	4	393	c.127A>T	c.(127-129)AGT>TGT	p.S43C	LILRA6_uc002qew.1_Intron|LILRB2_uc010eri.2_Missense_Mutation_p.S43C|LILRB2_uc010erj.2_RNA|LILRB2_uc002qfc.2_Missense_Mutation_p.S43C|LILRB2_uc010yet.1_Intron|LILRB2_uc010yeu.1_RNA	NM_005874	NP_005865	Q8N423	LIRB2_HUMAN	leukocyte immunoglobulin-like receptor,	43	Extracellular (Potential).|Ig-like C2-type 1.				cell surface receptor linked signaling pathway|cell-cell signaling|cellular defense response|immune response|regulation of immune response	integral to plasma membrane|membrane fraction	receptor activity			skin(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		GTGACGGGACTCCCCTGGGTG	0.532													186	217	---	---	---	---	PASS
LAIR2	3904	broad.mit.edu	37	19	55019216	55019216	+	Nonsense_Mutation	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:55019216G>T	uc002qgc.2	+	3	303	c.181G>T	c.(181-183)GAG>TAG	p.E61*	LAIR2_uc002qga.1_RNA|LAIR2_uc002qgb.1_RNA|LAIR2_uc002qgd.2_Nonsense_Mutation_p.E61*|LAIR2_uc010erl.2_Nonsense_Mutation_p.E61*	NM_002288	NP_002279	Q6ISS4	LAIR2_HUMAN	leukocyte-associated immunoglobulin-like	61	Ig-like C2-type.					extracellular region	receptor activity			ovary(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.0967)		ATTCCGCCTGGAGAGGGAGGA	0.537													60	198	---	---	---	---	PASS
LILRA1	11024	broad.mit.edu	37	19	55106657	55106657	+	Missense_Mutation	SNP	T	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:55106657T>C	uc002qgh.1	+	5	633	c.451T>C	c.(451-453)TTT>CTT	p.F151L	LILRA2_uc010yfg.1_Intron|LILRA1_uc010yfh.1_Missense_Mutation_p.F151L	NM_006863	NP_006854	O75019	LIRA1_HUMAN	leukocyte immunoglobulin-like receptor,	151	Ig-like C2-type 2.|Extracellular (Potential).				cell surface receptor linked signaling pathway|defense response|regulation of immune response	integral to membrane|plasma membrane	antigen binding|transmembrane receptor activity			skin(2)|ovary(1)	3				GBM - Glioblastoma multiforme(193;0.0348)		ACAGGTGGCATTTGGCAGCTT	0.557													151	173	---	---	---	---	PASS
C20orf54	113278	broad.mit.edu	37	20	746113	746113	+	Silent	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:746113G>A	uc002wed.3	-	2	645	c.306C>T	c.(304-306)GGC>GGT	p.G102G	C20orf54_uc002wee.2_Silent_p.G102G	NM_033409	NP_212134	Q9NQ40	RFT2_HUMAN	hypothetical protein LOC113278 precursor	102	Helical; (Potential).				sensory perception of sound	integral to plasma membrane	riboflavin transporter activity			ovary(2)	2						TGCTGTGGTGGCCGTCCAGCA	0.592													6	31	---	---	---	---	PASS
CHGB	1114	broad.mit.edu	37	20	5903529	5903529	+	Nonsense_Mutation	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:5903529G>T	uc002wmg.2	+	4	1045	c.739G>T	c.(739-741)GAG>TAG	p.E247*	CHGB_uc010zqz.1_5'UTR	NM_001819	NP_001810	P05060	SCG1_HUMAN	chromogranin B precursor	247						extracellular region	hormone activity			breast(3)|skin(2)|ovary(1)	6						AGGGAGCCAGGAGAATCACCC	0.567													15	54	---	---	---	---	PASS
ISM1	140862	broad.mit.edu	37	20	13280083	13280083	+	Missense_Mutation	SNP	T	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:13280083T>C	uc010gce.1	+	6	1378	c.1372T>C	c.(1372-1374)TTC>CTC	p.F458L	TASP1_uc010zri.1_Intron	NM_080826	NP_543016	B1AKI9	ISM1_HUMAN	isthmin 1 homolog precursor	458						extracellular region					0						CATCAAGCAGTTCCAAGAGGC	0.582													80	85	---	---	---	---	PASS
ESF1	51575	broad.mit.edu	37	20	13747527	13747527	+	Missense_Mutation	SNP	C	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:13747527C>T	uc002woj.2	-	8	1671	c.1563G>A	c.(1561-1563)ATG>ATA	p.M521I	ESF1_uc002wok.1_Missense_Mutation_p.M521I	NM_016649	NP_057733	Q9H501	ESF1_HUMAN	ABT1-associated protein	521					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus|nucleoplasm				ovary(1)	1						TCCTGTTGAGCATTGTAATTC	0.378													46	207	---	---	---	---	PASS
NINL	22981	broad.mit.edu	37	20	25439107	25439107	+	Missense_Mutation	SNP	C	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:25439107C>T	uc002wux.1	-	22	3829	c.3755G>A	c.(3754-3756)CGG>CAG	p.R1252Q	NINL_uc010gdn.1_Missense_Mutation_p.R903Q|NINL_uc002wuw.1_Missense_Mutation_p.R43Q	NM_025176	NP_079452	Q9Y2I6	NINL_HUMAN	ninein-like	1252	Potential.				G2/M transition of mitotic cell cycle	cytosol|microtubule|microtubule organizing center	calcium ion binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5						GGGCACCAGCCGGACCTCCTG	0.677													17	48	---	---	---	---	PASS
MYLK2	85366	broad.mit.edu	37	20	30409369	30409369	+	Missense_Mutation	SNP	G	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:30409369G>C	uc002wwq.2	+	4	703	c.601G>C	c.(601-603)GCA>CCA	p.A201P		NM_033118	NP_149109	Q9H1R3	MYLK2_HUMAN	skeletal myosin light chain kinase	201					cardiac muscle tissue morphogenesis|regulation of muscle filament sliding		ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity|myosin light chain kinase activity			lung(2)|skin(2)|ovary(1)|central_nervous_system(1)	6			Colorectal(19;0.00306)|COAD - Colon adenocarcinoma(19;0.0347)			GAACATCCTGGCAGAGAGCCA	0.602													47	153	---	---	---	---	PASS
MYLK2	85366	broad.mit.edu	37	20	30409370	30409370	+	Missense_Mutation	SNP	C	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:30409370C>T	uc002wwq.2	+	4	704	c.602C>T	c.(601-603)GCA>GTA	p.A201V		NM_033118	NP_149109	Q9H1R3	MYLK2_HUMAN	skeletal myosin light chain kinase	201					cardiac muscle tissue morphogenesis|regulation of muscle filament sliding		ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity|myosin light chain kinase activity			lung(2)|skin(2)|ovary(1)|central_nervous_system(1)	6			Colorectal(19;0.00306)|COAD - Colon adenocarcinoma(19;0.0347)			AACATCCTGGCAGAGAGCCAG	0.602													47	156	---	---	---	---	PASS
CDK5RAP1	51654	broad.mit.edu	37	20	31984835	31984835	+	Missense_Mutation	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:31984835C>A	uc010gek.2	-	2	160	c.36G>T	c.(34-36)AGG>AGT	p.R12S	CDK5RAP1_uc002wyy.2_Intron|CDK5RAP1_uc002wyz.2_Missense_Mutation_p.R12S|CDK5RAP1_uc002wza.2_Missense_Mutation_p.R12S|CDK5RAP1_uc010gel.2_Intron|CDK5RAP1_uc010gem.2_Missense_Mutation_p.R12S|CDK5RAP1_uc002wzc.1_Missense_Mutation_p.R12S|CDK5RAP1_uc010gen.2_Missense_Mutation_p.R12S	NM_016408	NP_057492	Q96SZ6	CK5P1_HUMAN	CDK5 regulatory subunit associated protein 1	12					brain development|negative regulation of cyclin-dependent protein kinase activity|regulation of neuron differentiation|tRNA modification	cytoplasm	4 iron, 4 sulfur cluster binding|metal ion binding|neuronal Cdc2-like kinase binding|transferase activity			ovary(2)|skin(2)|lung(1)	5						ACCCCAGAGACCTCTGCACTT	0.478													118	93	---	---	---	---	PASS
PXMP4	11264	broad.mit.edu	37	20	32302479	32302479	+	Splice_Site	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:32302479C>A	uc002wzv.2	-	2	299	c.176_splice	c.e2+1	p.S59_splice	PXMP4_uc002wzw.2_Splice_Site_p.R59_splice|PXMP4_uc010zuh.1_Splice_Site_p.R59_splice	NM_007238	NP_009169	Q9Y6I8	PXMP4_HUMAN	peroxisomal membrane protein 4 isoform a							integral to membrane|membrane fraction|mitochondrial inner membrane|peroxisomal membrane	protein transporter activity				0						GGGATGTGTACCTGCCATTCC	0.522													91	241	---	---	---	---	PASS
PXMP4	11264	broad.mit.edu	37	20	32302480	32302480	+	Missense_Mutation	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:32302480C>A	uc002wzv.2	-	2	299	c.176G>T	c.(175-177)AGC>ATC	p.S59I	PXMP4_uc002wzw.2_Missense_Mutation_p.R59I|PXMP4_uc010zuh.1_Missense_Mutation_p.R59M	NM_007238	NP_009169	Q9Y6I8	PXMP4_HUMAN	peroxisomal membrane protein 4 isoform a	59						integral to membrane|membrane fraction|mitochondrial inner membrane|peroxisomal membrane	protein transporter activity				0						GGATGTGTACCTGCCATTCCG	0.522													92	251	---	---	---	---	PASS
PTPRT	11122	broad.mit.edu	37	20	41385101	41385101	+	Splice_Site	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:41385101C>A	uc002xkg.2	-	6	1043	c.859_splice	c.e6+1	p.E287_splice	PTPRT_uc010ggj.2_Splice_Site_p.E287_splice	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T						homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				GAGGCACTCACCTTTCACGAT	0.567													11	57	---	---	---	---	PASS
PTPRT	11122	broad.mit.edu	37	20	41385102	41385102	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:41385102C>A	uc002xkg.2	-	6	1043	c.859G>T	c.(859-861)GAG>TAG	p.E287*	PTPRT_uc010ggj.2_Nonsense_Mutation_p.E287*	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	287	Extracellular (Potential).				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				AGGCACTCACCTTTCACGATC	0.567													12	57	---	---	---	---	PASS
NFATC2	4773	broad.mit.edu	37	20	50139876	50139876	+	Missense_Mutation	SNP	C	A	A	rs61735418	by1000genomes	TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:50139876C>A	uc002xwd.2	-	2	1124	c.904G>T	c.(904-906)GTG>TTG	p.V302L	NFATC2_uc002xwc.2_Missense_Mutation_p.V302L|NFATC2_uc010zyv.1_Missense_Mutation_p.V83L|NFATC2_uc010zyw.1_Missense_Mutation_p.V83L|NFATC2_uc010zyx.1_Missense_Mutation_p.V282L|NFATC2_uc010zyy.1_Missense_Mutation_p.V83L|NFATC2_uc010zyz.1_Missense_Mutation_p.V83L|NFATC2_uc002xwe.2_Missense_Mutation_p.V282L	NM_173091	NP_775114	Q13469	NFAC2_HUMAN	nuclear factor of activated T-cells,	302					B cell receptor signaling pathway|positive regulation of B cell proliferation|response to DNA damage stimulus|response to drug	actin cytoskeleton|nucleus|plasma membrane	protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2	Hepatocellular(150;0.248)					TCCATGATCACGGCAGAGCCA	0.701													8	15	---	---	---	---	PASS
BCAS1	8537	broad.mit.edu	37	20	52645090	52645090	+	Silent	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:52645090G>A	uc002xws.2	-	4	902	c.564C>T	c.(562-564)CCC>CCT	p.P188P	BCAS1_uc010zzb.1_Silent_p.P91P|BCAS1_uc010gim.2_Silent_p.P91P|BCAS1_uc002xwt.2_Silent_p.P188P|BCAS1_uc010gil.1_Silent_p.P188P|BCAS1_uc010zzc.1_Silent_p.P91P	NM_003657	NP_003648	O75363	BCAS1_HUMAN	breast carcinoma amplified sequence 1	188						cytoplasm	protein binding			ovary(2)|central_nervous_system(1)	3	Breast(2;9.53e-15)|Lung NSC(4;5.57e-06)|all_lung(4;1.44e-05)		STAD - Stomach adenocarcinoma(23;0.116)|Colorectal(105;0.198)			TGGAGTCCTTGGGCTTGGAGG	0.592													198	296	---	---	---	---	PASS
OPRL1	4987	broad.mit.edu	37	20	62724080	62724080	+	Missense_Mutation	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:62724080C>A	uc002yic.2	+	3	409	c.7C>A	c.(7-9)CCC>ACC	p.P3T	OPRL1_uc002yid.2_Missense_Mutation_p.P3T|OPRL1_uc002yif.3_Missense_Mutation_p.P3T	NM_182647	NP_872588	P41146	OPRX_HUMAN	opiate receptor-like 1	3	Extracellular (Potential).				elevation of cytosolic calcium ion concentration|inhibition of adenylate cyclase activity by G-protein signaling pathway|sensory perception	integral to plasma membrane	protein binding|X-opioid receptor activity			central_nervous_system(1)|skin(1)	2	all_cancers(38;4.74e-11)|all_epithelial(29;1.33e-12)|Lung NSC(23;3.27e-09)|all_lung(23;1.02e-08)					TGGCATGGAGCCCCTCTTCCC	0.637													97	68	---	---	---	---	PASS
ADAMTS5	11096	broad.mit.edu	37	21	28327120	28327120	+	Missense_Mutation	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:28327120C>A	uc002ymg.2	-	2	1904	c.1175G>T	c.(1174-1176)CGC>CTC	p.R392L		NM_007038	NP_008969	Q9UNA0	ATS5_HUMAN	ADAM metallopeptidase with thrombospondin type 1	392	Peptidase M12B.				proteolysis	proteinaceous extracellular matrix	integrin binding|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4						AGCACAGCTGCGCTCTGGAGA	0.493													33	75	---	---	---	---	PASS
SON	6651	broad.mit.edu	37	21	34931601	34931601	+	Silent	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:34931601G>A	uc002yse.1	+	5	6436	c.6387G>A	c.(6385-6387)TCG>TCA	p.S2129S	SON_uc002ysc.2_Silent_p.S2129S|SON_uc002ysd.2_Silent_p.S1120S|SON_uc002ysf.1_Silent_p.S157S|SON_uc002ysg.2_Silent_p.S1120S	NM_138927	NP_620305	P18583	SON_HUMAN	SON DNA-binding protein isoform F	2129					anti-apoptosis|cytokinesis|mRNA processing|regulation of cell cycle|regulation of RNA splicing|RNA splicing|spindle pole body separation	nuclear speck	DNA binding|double-stranded RNA binding			ovary(4)|skin(2)	6						CTCATGTTTCGGATGAAGAGG	0.313													66	123	---	---	---	---	PASS
KRTAP10-7	386675	broad.mit.edu	37	21	46021444	46021444	+	Missense_Mutation	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:46021444G>T	uc002zfn.3	+	2	933	c.908G>T	c.(907-909)TGC>TTC	p.C303F	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198689	NP_941962	P60409	KR107_HUMAN	keratin associated protein 10-7	308	27.|30 X 5 AA repeats of C-C-X(3).					keratin filament					0						ACCTCCTGCTGCAGACCCTCC	0.672													129	48	---	---	---	---	PASS
DIP2A	23181	broad.mit.edu	37	21	47971581	47971581	+	Silent	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:47971581G>T	uc002zjo.2	+	24	3057	c.2874G>T	c.(2872-2874)CTG>CTT	p.L958L	DIP2A_uc011afy.1_Silent_p.L894L|DIP2A_uc011afz.1_Silent_p.L954L	NM_015151	NP_055966	Q14689	DIP2A_HUMAN	disco-interacting protein 2A isoform a	958					multicellular organismal development	nucleus	catalytic activity|transcription factor binding			ovary(2)	2	Breast(49;0.0933)			Epithelial(3;3.12e-06)|OV - Ovarian serous cystadenocarcinoma(3;5.68e-06)|all cancers(3;4.08e-05)|Colorectal(79;0.0129)|COAD - Colon adenocarcinoma(84;0.0824)		TGGGGAACCTGGTTGCTGGGA	0.552													30	54	---	---	---	---	PASS
CCT8L2	150160	broad.mit.edu	37	22	17072642	17072642	+	Missense_Mutation	SNP	G	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:17072642G>C	uc002zlp.1	-	1	1059	c.799C>G	c.(799-801)CTA>GTA	p.L267V		NM_014406	NP_055221	Q96SF2	TCPQM_HUMAN	T-complex protein 1	267					cellular protein metabolic process	cytoplasm	anion channel activity|ATP binding|calcium-activated potassium channel activity			ovary(1)	1	all_hematologic(4;0.00567)|Acute lymphoblastic leukemia(84;0.0977)	all_epithelial(15;0.0157)|Lung NSC(13;0.147)|all_lung(157;0.175)				AATTGAGCTAGATCAGCAGGA	0.512													91	159	---	---	---	---	PASS
IL17RA	23765	broad.mit.edu	37	22	17579730	17579730	+	Missense_Mutation	SNP	T	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:17579730T>A	uc002zly.2	+	4	509	c.376T>A	c.(376-378)TGC>AGC	p.C126S	IL17RA_uc010gqt.2_Missense_Mutation_p.C126S	NM_014339	NP_055154	Q96F46	I17RA_HUMAN	interleukin 17A receptor precursor	126	Extracellular (Potential).				fibroblast activation|positive regulation of interleukin-23 production	integral to plasma membrane	interleukin-17 receptor activity			skin(2)	2		all_epithelial(15;0.0181)|Lung NSC(13;0.109)|all_lung(157;0.132)		Colorectal(9;0.241)		TGAACGTTTGTGCGTCAGGTT	0.507													27	78	---	---	---	---	PASS
SEPT5	5413	broad.mit.edu	37	22	19708061	19708061	+	Intron	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:19708061G>T	uc002zpv.1	+						SEPT5_uc002zpw.1_Intron|SEPT5_uc002zpx.1_Intron|SEPT5_uc002zpy.1_5'Flank	NM_002688	NP_002679	Q99719	SEPT5_HUMAN	septin 5						cell cycle|cytokinesis|regulation of exocytosis|synaptic vesicle targeting	plasma membrane|septin complex|synaptic vesicle	GTP binding|GTPase activity|protein binding|structural molecule activity			lung(1)	1	Colorectal(54;0.0993)					ACCCTTGGCTGCTCTCGGCAG	0.617													15	53	---	---	---	---	PASS
LOC96610	96610	broad.mit.edu	37	22	22730834	22730834	+	RNA	SNP	A	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:22730834A>G	uc011aim.1	+	44		c.5001A>G								Parts of antibodies, mostly variable regions.												0						TCTGAGGATGAGGCTGACTAT	0.537													91	206	---	---	---	---	PASS
LOC96610	96610	broad.mit.edu	37	22	22782255	22782255	+	RNA	SNP	A	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:22782255A>C	uc011aim.1	+	63		c.6547A>C								Parts of antibodies, mostly variable regions.												0						TGGAGTCCCCAGCCGCTTCTC	0.512													56	105	---	---	---	---	PASS
FAM19A5	25817	broad.mit.edu	37	22	49103557	49103557	+	Nonsense_Mutation	SNP	T	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:49103557T>A	uc003bim.3	+	3	408	c.291T>A	c.(289-291)TGT>TGA	p.C97*	FAM19A5_uc003bio.3_Nonsense_Mutation_p.C90*	NM_001082967	NP_001076436	Q7Z5A7	F19A5_HUMAN	family with sequence similarity 19 (chemokine	97						extracellular region|integral to membrane				large_intestine(1)	1		all_cancers(38;2.95e-11)|all_epithelial(38;3.07e-10)|all_lung(38;2.89e-05)|Breast(42;0.000396)|Lung NSC(38;0.000471)|Ovarian(80;0.00934)|Lung SC(80;0.195)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0227)|BRCA - Breast invasive adenocarcinoma(115;0.119)		AGCAGTGGTGTGACATGCTTC	0.572													29	62	---	---	---	---	PASS
HDHD1A	8226	broad.mit.edu	37	X	6995377	6995377	+	Missense_Mutation	SNP	T	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:6995377T>A	uc004crv.2	-	3	471	c.394A>T	c.(394-396)AGC>TGC	p.S132C	HDHD1A_uc011mhm.1_Missense_Mutation_p.S155C|HDHD1A_uc011mhn.1_Missense_Mutation_p.S89C|HDHD1A_uc010ndl.2_Intron|HDHD1A_uc011mho.1_Missense_Mutation_p.S132C	NM_012080	NP_036212	Q08623	HDHD1_HUMAN	haloacid dehalogenase-like hydrolase domain	132					nucleotide metabolic process		metal ion binding|phosphatase activity				0		Colorectal(8;0.0114)|Medulloblastoma(8;0.184)				GAAAACAAGCTGAAGAACTCC	0.572													14	2	---	---	---	---	PASS
NR0B1	190	broad.mit.edu	37	X	30323930	30323930	+	Intron	SNP	A	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:30323930A>C	uc004dcf.3	-							NM_000475	NP_000466	P51843	NR0B1_HUMAN	nuclear receptor subfamily 0, group B, member 1						adrenal gland development|hypothalamus development|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of steroid hormone receptor signaling pathway|pituitary gland development|protein localization|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|steroid biosynthetic process	cytoplasm|membrane fraction|nucleoplasm|nucleus|polysomal ribosome	AF-2 domain binding|DNA hairpin binding|ligand-regulated transcription factor activity|protein domain specific binding|protein homodimerization activity|RNA binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|steroid hormone receptor binding|transcription corepressor activity|transcription factor binding			ovary(1)|lung(1)	2					Dexamethasone(DB01234)|Tretinoin(DB00755)	CACTTGGTTTAAATGATGTTA	0.348													8	3	---	---	---	---	PASS
GK	2710	broad.mit.edu	37	X	30738731	30738731	+	Intron	SNP	A	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:30738731A>T	uc004dch.3	+						GK_uc010ngj.2_Intron|GK_uc004dci.3_Intron|GK_uc011mjz.1_Intron|GK_uc011mka.1_Intron|GK_uc010ngk.2_Intron	NM_203391	NP_976325	P32189	GLPK_HUMAN	glycerol kinase isoform a						glycerol-3-phosphate metabolic process|triglyceride biosynthetic process	cytosol|mitochondrial outer membrane	ATP binding|glycerol kinase activity			central_nervous_system(1)	1						GCACTGGTTTATTTAAGATTT	0.269													107	26	---	---	---	---	PASS
FTHL17	53940	broad.mit.edu	37	X	31089712	31089712	+	Missense_Mutation	SNP	T	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:31089712T>A	uc004dcl.1	-	1	462	c.359A>T	c.(358-360)CAG>CTG	p.Q120L		NM_031894	NP_114100	Q9BXU8	FHL17_HUMAN	ferritin, heavy polypeptide-like 17	120	Ferritin-like diiron.				cellular iron ion homeostasis|iron ion transport		ferric iron binding|oxidoreductase activity				0						CACGGCCAGCTGGTACAGATC	0.617													111	29	---	---	---	---	PASS
DMD	1756	broad.mit.edu	37	X	32583829	32583829	+	Missense_Mutation	SNP	C	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:32583829C>G	uc004dda.1	-	16	2226	c.1982G>C	c.(1981-1983)AGT>ACT	p.S661T	DMD_uc004dcz.2_Missense_Mutation_p.S538T|DMD_uc004dcy.1_Missense_Mutation_p.S657T|DMD_uc004ddb.1_Missense_Mutation_p.S653T|DMD_uc010ngo.1_Intron|DMD_uc004ddf.2_Missense_Mutation_p.S653T	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	661	Spectrin 3.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				CTGTGCTGTACTCTTTTCAAG	0.388													103	39	---	---	---	---	PASS
CXorf22	170063	broad.mit.edu	37	X	35985769	35985769	+	Missense_Mutation	SNP	A	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:35985769A>T	uc004ddj.2	+	10	1693	c.1634A>T	c.(1633-1635)AAG>ATG	p.K545M	CXorf22_uc010ngv.2_RNA	NM_152632	NP_689845	Q6ZTR5	CX022_HUMAN	hypothetical protein LOC170063	545										large_intestine(1)|lung(1)|ovary(1)	3						CCCACGGGAAAGTTTGTGGTC	0.363													74	21	---	---	---	---	PASS
CASK	8573	broad.mit.edu	37	X	41495833	41495833	+	Nonsense_Mutation	SNP	T	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:41495833T>A	uc004dfl.3	-	9	959	c.913A>T	c.(913-915)AAG>TAG	p.K305*	CASK_uc004dfk.3_Nonsense_Mutation_p.K120*|CASK_uc004dfm.3_Nonsense_Mutation_p.K305*|CASK_uc004dfn.3_Nonsense_Mutation_p.K305*	NM_003688	NP_003679	O14936	CSKP_HUMAN	calcium/calmodulin-dependent serine protein	305	Calmodulin-binding.				cell adhesion	actin cytoskeleton|cytoplasm|nucleus|plasma membrane	ATP binding|calmodulin binding|guanylate kinase activity|protein serine/threonine kinase activity			ovary(3)|lung(2)|stomach(1)	6						TAATTTACCTTTAGTTTCCTC	0.358													57	90	---	---	---	---	PASS
CASK	8573	broad.mit.edu	37	X	41495834	41495834	+	Silent	SNP	T	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:41495834T>G	uc004dfl.3	-	9	958	c.912A>C	c.(910-912)CTA>CTC	p.L304L	CASK_uc004dfk.3_Silent_p.L119L|CASK_uc004dfm.3_Silent_p.L304L|CASK_uc004dfn.3_Silent_p.L304L	NM_003688	NP_003679	O14936	CSKP_HUMAN	calcium/calmodulin-dependent serine protein	304					cell adhesion	actin cytoskeleton|cytoplasm|nucleus|plasma membrane	ATP binding|calmodulin binding|guanylate kinase activity|protein serine/threonine kinase activity			ovary(3)|lung(2)|stomach(1)	6						AATTTACCTTTAGTTTCCTCC	0.358													59	90	---	---	---	---	PASS
SUV39H1	6839	broad.mit.edu	37	X	48558930	48558930	+	Missense_Mutation	SNP	A	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:48558930A>G	uc004dkn.2	+	3	659	c.614A>G	c.(613-615)TAC>TGC	p.Y205C	SUV39H1_uc011mmf.1_Missense_Mutation_p.Y216C|SUV39H1_uc011mmg.1_Intron	NM_003173	NP_003164	O43463	SUV91_HUMAN	suppressor of variegation 3-9 homolog 1	205	Pre-SET.				cell cycle|cell differentiation|chromatin silencing at rDNA|interspecies interaction between organisms|rRNA processing|transcription, DNA-dependent	chromatin silencing complex|chromosome, centromeric region|condensed nuclear chromosome|rDNA heterochromatin	chromatin binding|histone methyltransferase activity (H3-K9 specific)|protein N-terminus binding|zinc ion binding				0						AAGTTTGCCTACAATGACCAG	0.642													55	17	---	---	---	---	PASS
XIST	7503	broad.mit.edu	37	X	73065376	73065376	+	RNA	SNP	G	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:73065376G>T	uc004ebm.1	-	1		c.7213C>A				NR_001564				Homo sapiens cDNA: FLJ21545 fis, clone COL06195.												0						AGGCTTTCATGTCTATTACAC	0.478													126	19	---	---	---	---	PASS
BRWD3	254065	broad.mit.edu	37	X	80047436	80047436	+	Missense_Mutation	SNP	A	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:80047436A>T	uc004edt.2	-	6	610	c.347T>A	c.(346-348)CTA>CAA	p.L116Q	BRWD3_uc004edo.2_5'UTR|BRWD3_uc004edp.2_5'UTR|BRWD3_uc004edq.2_5'UTR|BRWD3_uc010nmj.1_5'UTR|BRWD3_uc004edr.2_Intron|BRWD3_uc004eds.2_5'UTR|BRWD3_uc004edu.2_Intron|BRWD3_uc004edv.2_5'UTR|BRWD3_uc004edw.2_5'UTR|BRWD3_uc004edx.2_5'UTR|BRWD3_uc004edy.2_5'UTR|BRWD3_uc004edz.2_5'UTR|BRWD3_uc004eea.2_5'UTR|BRWD3_uc004eeb.2_5'UTR	NM_153252	NP_694984	Q6RI45	BRWD3_HUMAN	bromodomain and WD repeat domain containing 3	116	WD 1.									ovary(4)	4						CCCATTCCATAGTGTACTCTT	0.373													37	4	---	---	---	---	PASS
HDX	139324	broad.mit.edu	37	X	83724271	83724271	+	Missense_Mutation	SNP	G	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:83724271G>A	uc004eek.1	-	3	569	c.460C>T	c.(460-462)CCT>TCT	p.P154S	HDX_uc011mqv.1_Missense_Mutation_p.P154S|HDX_uc004eel.1_Missense_Mutation_p.P96S	NM_144657	NP_653258	Q7Z353	HDX_HUMAN	highly divergent homeobox	154						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			upper_aerodigestive_tract(1)|ovary(1)	2						CTTTGGACAGGAATGTGTAAC	0.358													218	47	---	---	---	---	PASS
UBE2NL	389898	broad.mit.edu	37	X	142967238	142967238	+	Silent	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:142967238C>A	uc004fca.2	+	1	66	c.36C>A	c.(34-36)ACC>ACA	p.T12T		NM_001012989	NP_001013007	Q5JXB2	UE2NL_HUMAN	ubiquitin-conjugating enzyme E2N-like	12							acid-amino acid ligase activity				0	Acute lymphoblastic leukemia(192;6.56e-05)					TCAAGGAAACCCAGCGTTTGC	0.468													9	29	---	---	---	---	PASS
PNCK	139728	broad.mit.edu	37	X	152937080	152937080	+	Missense_Mutation	SNP	C	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:152937080C>A	uc011myu.1	-	6	897	c.711G>T	c.(709-711)ATG>ATT	p.M237I	PNCK_uc011myt.1_Missense_Mutation_p.M171I|PNCK_uc004fia.2_Missense_Mutation_p.M166I|PNCK_uc004fhz.3_Missense_Mutation_p.M52I|PNCK_uc010nuh.2_3'UTR|PNCK_uc011myv.1_Missense_Mutation_p.M181I|PNCK_uc011myw.1_Missense_Mutation_p.M181I	NM_001039582	NP_001034671	Q6P2M8	KCC1B_HUMAN	pregnancy upregulated non-ubiquitously expressed	154	Protein kinase.					cytoplasm|nucleus	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			breast(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					AGTCAGAGACCATGATCTTCG	0.592													127	54	---	---	---	---	PASS
TNFRSF18	8784	broad.mit.edu	37	1	1139493	1139493	+	Frame_Shift_Del	DEL	G	-	-			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:1139493delG	uc001adc.2	-	4	660	c.522delC	c.(520-522)GCCfs	p.A174fs	TNFRSF18_uc001ada.2_Frame_Shift_Del_p.A102fs|TNFRSF18_uc001adb.2_Frame_Shift_Del_p.A174fs|TNFRSF18_uc001add.2_Intron	NM_004195	NP_004186	Q9Y5U5	TNR18_HUMAN	tumor necrosis factor receptor superfamily,	174	Helical; (Potential).				anti-apoptosis|apoptosis	extracellular region|integral to plasma membrane	tumor necrosis factor receptor activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;3.73e-36)|OV - Ovarian serous cystadenocarcinoma(86;1.01e-21)|Colorectal(212;3.94e-05)|COAD - Colon adenocarcinoma(227;4.22e-05)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.0025)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.199)		GGACGCAGGCGGCCACGGCCA	0.677													12	11	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	25380784	25380787	+	IGR	DEL	CCTT	-	-			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:25380784_25380787delCCTT								RUNX3 (89172 upstream) : SYF2 (167980 downstream)																							tccctccctcccttcctccctccc	0.000													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	30196670	30196671	+	IGR	INS	-	ACC	ACC	rs148373610		TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:30196670_30196671insACC								PTPRU (543355 upstream) : MATN1 (987455 downstream)																							ccaccatcactaccaccaccac	0.000													4	2	---	---	---	---	
PDZK1IP1	10158	broad.mit.edu	37	1	47652871	47652876	+	Intron	DEL	CTTGAG	-	-	rs71572644	by1000genomes	TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:47652871_47652876delCTTGAG	uc001cqw.2	-							NM_005764	NP_005755	Q13113	PDZ1I_HUMAN	PDZK1 interacting protein 1							integral to membrane					0						tttcccttcccttgagcctcaggggg	0.175													3	3	---	---	---	---	
FAM73A	374986	broad.mit.edu	37	1	78329891	78329892	+	Intron	INS	-	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:78329891_78329892insA	uc001dhx.2	+						FAM73A_uc010ork.1_Intron|FAM73A_uc010orl.1_Intron	NM_198549	NP_940951	Q8NAN2	FA73A_HUMAN	hypothetical protein LOC374986							integral to membrane				ovary(1)	1				Colorectal(170;0.226)		actaaaaatacaaaaaaaaaaa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	82617156	82617163	+	IGR	DEL	AAGAAAGA	-	-	rs36191171	by1000genomes	TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:82617156_82617163delAAGAAAGA								LPHN2 (159050 upstream) : None (None downstream)																							ggaaggaaggaagaaagaaagaaagaaa	0.000													6	5	---	---	---	---	
SYPL2	284612	broad.mit.edu	37	1	110021992	110021993	+	Intron	INS	-	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:110021992_110021993insT	uc001dxp.2	+						SYPL2_uc010ovk.1_Intron	NM_001040709	NP_001035799	Q5VXT5	SYPL2_HUMAN	mitsugumin 29							integral to membrane|synaptic vesicle	transporter activity			ovary(1)	1		all_epithelial(167;2.83e-05)|all_lung(203;0.00016)|Lung NSC(277;0.000318)|Breast(1374;0.244)		Colorectal(144;0.0129)|Lung(183;0.0436)|READ - Rectum adenocarcinoma(129;0.0698)|Epithelial(280;0.0808)|all cancers(265;0.0869)|LUSC - Lung squamous cell carcinoma(189;0.231)		CCCCTGATGTCTTTGCAGCTCT	0.480													193	130	---	---	---	---	
PHTF1	10745	broad.mit.edu	37	1	114301137	114301137	+	Intron	DEL	T	-	-			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:114301137delT	uc009wgp.1	-						PHTF1_uc001edn.2_Intron|PHTF1_uc010own.1_Intron|PHTF1_uc001edp.2_Intron	NM_006608	NP_006599	Q9UMS5	PHTF1_HUMAN	putative homeodomain transcription factor 1							nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1	Lung SC(450;0.184)	all_cancers(81;3.78e-08)|all_epithelial(167;5.56e-08)|all_lung(203;6.97e-06)|Lung NSC(69;1.18e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		CTTGTACATCTTTTTTTTTTT	0.388													3	3	---	---	---	---	
TPR	7175	broad.mit.edu	37	1	186296921	186296921	+	Intron	DEL	T	-	-	rs71745453		TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:186296921delT	uc001grv.2	-							NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR						carbohydrate metabolic process|glucose transport|mitotic cell cycle spindle assembly checkpoint|mRNA transport|protein import into nucleus|regulation of glucose transport|seryl-tRNA aminoacylation|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytoplasm|nuclear membrane|nuclear pore|nucleoplasm	ATP binding|protein binding|serine-tRNA ligase activity			ovary(2)|lung(2)|urinary_tract(1)|central_nervous_system(1)|skin(1)	7		Breast(1374;0.000659)|Lung SC(1967;0.0262)|Prostate(1639;0.157)		Colorectal(1306;1.12e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00553)		TTTAATTTAAttttttttttt	0.139			T	NTRK1	papillary thyroid								4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	189767956	189767988	+	IGR	DEL	AAAAGAAAAGAAAGAAAGGGAAGGAAGGAAGGG	-	-	rs149604754	by1000genomes	TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:189767956_189767988delAAAAGAAAAGAAAGAAAGGGAAGGAAGGAAGGG								None (None upstream) : FAM5C (298809 downstream)																							gaaggaaggaaaaagaaaagaaagaaagggaaggaaggaagggaggaaggaaa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	248604559	248604560	+	IGR	INS	-	TC	TC	rs150497047	by1000genomes	TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:248604559_248604560insTC								OR2T1 (34155 upstream) : OR2T2 (11539 downstream)																							TTCCCCTGGCTTCTTTGCCCTC	0.515													4	2	---	---	---	---	
WDR35	57539	broad.mit.edu	37	2	20166297	20166298	+	Intron	INS	-	A	A	rs76964256		TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:20166297_20166298insA	uc002rdi.2	-						WDR35_uc002rdj.2_Intron|WDR35_uc010ext.2_Intron|WDR35_uc002rdh.2_Intron	NM_001006657	NP_001006658	Q9P2L0	WDR35_HUMAN	WD repeat domain 35 isoform 1											ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GCTGCTTGAAGAAAAAAAAAAT	0.351													5	3	---	---	---	---	
SIX3	6496	broad.mit.edu	37	2	45169041	45169042	+	5'UTR	DEL	GT	-	-			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:45169041_45169042delGT	uc002run.1	+	1						NM_005413	NP_005404	O95343	SIX3_HUMAN	SIX homeobox 3						visual perception	nucleus					0		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				ggctgcgcgggtgtgtgtgtgt	0.218													4	2	---	---	---	---	
UBR3	130507	broad.mit.edu	37	2	170871901	170871902	+	Intron	INS	-	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:170871901_170871902insA	uc010zdi.1	+						UBR3_uc002ufr.3_Intron|UBR3_uc010fqa.2_Intron|UBR3_uc002uft.3_Intron|UBR3_uc010zdj.1_Intron|UBR3_uc002ufu.3_Intron	NM_172070	NP_742067	Q6ZT12	UBR3_HUMAN	E3 ubiquitin-protein ligase UBR3						sensory perception of smell|suckling behavior|ubiquitin-dependent protein catabolic process	integral to membrane	ubiquitin-protein ligase activity|zinc ion binding				0						CTGCTAAATTTAAAAAAAATTC	0.317													27	24	---	---	---	---	
C2orf67	151050	broad.mit.edu	37	2	211018091	211018091	+	Intron	DEL	A	-	-			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:211018091delA	uc002vds.2	-						C2orf67_uc002vdt.2_Intron|C2orf67_uc002vdw.2_Intron|C2orf67_uc002vdy.1_3'UTR|C2orf67_uc002vdv.2_Intron|C2orf67_uc002vdx.1_Intron	NM_152519	NP_689732	A0AUZ9	CB067_HUMAN	hypothetical protein LOC151050											ovary(3)	3		Renal(323;0.202)		Epithelial(149;0.00435)|Lung(261;0.0529)|LUSC - Lung squamous cell carcinoma(261;0.0551)|all cancers(144;0.0696)		aataaaaattaaaaaaaaaaa	0.119													6	3	---	---	---	---	
FN1	2335	broad.mit.edu	37	2	216286748	216286749	+	Intron	INS	-	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:216286748_216286749insA	uc002vfa.2	-						FN1_uc002vfb.2_Intron|FN1_uc002vfc.2_Intron|FN1_uc002vfd.2_Intron|FN1_uc002vfe.2_Intron|FN1_uc002vff.2_Intron|FN1_uc002vfg.2_Intron|FN1_uc002vfh.2_Intron|FN1_uc002vfi.2_Intron|FN1_uc002vfj.2_Intron|FN1_uc002vfl.2_Intron	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein						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)	CAAGTTTTCATAAAAAAAAGTG	0.416													25	21	---	---	---	---	
GBE1	2632	broad.mit.edu	37	3	81541861	81541868	+	Intron	DEL	TTCCTTCC	-	-	rs67220037		TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:81541861_81541868delTTCCTTCC	uc003dqg.2	-							NM_000158	NP_000149	Q04446	GLGB_HUMAN	glucan (1,4-alpha-), branching enzyme 1						glucose metabolic process|glycogen biosynthetic process	cytosol	1,4-alpha-glucan branching enzyme activity|cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(3)	3		Lung NSC(201;0.0117)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0654)|Epithelial(33;0.00305)|LUSC - Lung squamous cell carcinoma(29;0.00646)|BRCA - Breast invasive adenocarcinoma(55;0.00813)|Lung(72;0.0129)|KIRC - Kidney renal clear cell carcinoma(39;0.212)|Kidney(39;0.247)		ctttcttcctttccttccttccttcctt	0.000									Glycogen_Storage_Disease_type_IV				10	16	---	---	---	---	
EPHA3	2042	broad.mit.edu	37	3	89448278	89448278	+	Intron	DEL	A	-	-			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:89448278delA	uc003dqy.2	+						EPHA3_uc003dqx.1_Intron|EPHA3_uc010hon.1_Intron	NM_005233	NP_005224	P29320	EPHA3_HUMAN	ephrin receptor EphA3 isoform a precursor							extracellular region|integral to plasma membrane	ATP binding			lung(17)|ovary(7)|large_intestine(4)|central_nervous_system(2)|stomach(1)|skin(1)|pancreas(1)	33	all_cancers(8;0.0406)|Melanoma(1;0.00142)|all_epithelial(1;0.0612)	Lung NSC(201;0.0782)		LUSC - Lung squamous cell carcinoma(29;0.00344)|Lung(72;0.00942)		gactttgtctaaaaaaaaaaa	0.109										TSP Lung(6;0.00050)			4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	98907920	98907921	+	IGR	INS	-	GGAA	GGAA			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:98907920_98907921insGGAA								DCBLD2 (287387 upstream) : COL8A1 (449533 downstream)																							acaggaaggagggaaggaagga	0.000													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	142895155	142895155	+	IGR	DEL	C	-	-			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:142895155delC								CHST2 (53345 upstream) : SLC9A9 (88910 downstream)																							GGCCTCAGGGCCCCCCCCCAG	0.746													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	194712128	194712130	+	IGR	DEL	TCC	-	-	rs9838410		TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:194712128_194712130delTCC								FAM43A (302364 upstream) : C3orf21 (76885 downstream)																							ctcctcctcttcctcctcctcct	0.172													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	196395233	196395234	+	IGR	INS	-	AAATGA	AAATGA	rs143273785	by1000genomes	TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:196395233_196395234insAAATGA								LRRC33 (6361 upstream) : C3orf34 (37915 downstream)																							gagagagagagagaaatgaagg	0.084													10	5	---	---	---	---	
RFC1	5981	broad.mit.edu	37	4	39304919	39304919	+	Intron	DEL	A	-	-			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:39304919delA	uc003gty.1	-						RFC1_uc003gtx.1_Intron	NM_002913	NP_002904	P35251	RFC1_HUMAN	replication factor C large subunit						DNA strand elongation involved in DNA replication|nucleotide-excision repair, DNA gap filling|regulation of transcription, DNA-dependent|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|telomere maintenance via telomerase|transcription, DNA-dependent|transcription-coupled nucleotide-excision repair	DNA replication factor C complex|nucleoplasm	ATP binding|DNA clamp loader activity|enzyme activator activity|protein binding			ovary(2)|pancreas(1)|skin(1)	4						GTTGTTAAAGAAAAAAAAAAA	0.393													4	2	---	---	---	---	
UGDH	7358	broad.mit.edu	37	4	39507525	39507525	+	Intron	DEL	A	-	-	rs35867925		TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:39507525delA	uc003guk.1	-						UGDH_uc011byp.1_Intron|UGDH_uc003gul.1_Intron	NM_003359	NP_003350	O60701	UGDH_HUMAN	UDP-glucose dehydrogenase						glycosaminoglycan biosynthetic process|UDP-glucose metabolic process|UDP-glucuronate biosynthetic process|xenobiotic metabolic process	cytosol	electron carrier activity|NAD binding|UDP-glucose 6-dehydrogenase activity			large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4					NADH(DB00157)	CCTATGGATTAAAAAAAAAAA	0.229													5	5	---	---	---	---	
SCD5	79966	broad.mit.edu	37	4	83557605	83557606	+	Intron	INS	-	A	A	rs71666752		TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:83557605_83557606insA	uc003hna.2	-							NM_001037582	NP_001032671	Q86SK9	SCD5_HUMAN	stearoyl-CoA desaturase 5 isoform a						fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	iron ion binding|stearoyl-CoA 9-desaturase activity			ovary(1)	1		Colorectal(4;0.0323)|Hepatocellular(203;0.115)				ctctatctcggaaaaaaaaaaa	0.079													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	135967528	135967529	+	IGR	INS	-	G	G			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:135967528_135967529insG								PABPC4L (844625 upstream) : None (None downstream)																							AAGCTCTTCCTGGGGACAATGT	0.450													108	61	---	---	---	---	
ACCN5	51802	broad.mit.edu	37	4	156758139	156758150	+	Intron	DEL	ACTCTGAAACAA	-	-	rs35429748		TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:156758139_156758150delACTCTGAAACAA	uc003ipe.1	-							NM_017419	NP_059115	Q9NY37	ACCN5_HUMAN	amiloride-sensitive cation channel 5,							integral to membrane|plasma membrane				ovary(2)|skin(1)	3	all_hematologic(180;0.24)	Renal(120;0.0458)		KIRC - Kidney renal clear cell carcinoma(143;0.0464)|Kidney(143;0.058)|COAD - Colon adenocarcinoma(41;0.141)		AATGGTGTTTACTCTGAAACAAATATGTTACT	0.316													5	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	166469229	166469236	+	IGR	DEL	AATGTTAT	-	-			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:166469229_166469236delAATGTTAT								CPE (49748 upstream) : TLL1 (325174 downstream)																							GATCCATAGCAATGTTATAATACGTTTC	0.356													6	4	---	---	---	---	
DPYSL3	1809	broad.mit.edu	37	5	146804646	146804647	+	Intron	DEL	AT	-	-			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:146804646_146804647delAT	uc003lon.1	-						DPYSL3_uc003loo.2_Intron	NM_001387	NP_001378	Q14195	DPYL3_HUMAN	dihydropyrimidinase-like 3						axon guidance|pyrimidine base catabolic process|signal transduction	cytosol|growth cone	dihydropyrimidinase activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TACCAAAGACATATGTGTGCTC	0.376													12	6	---	---	---	---	
PHACTR1	221692	broad.mit.edu	37	6	13286469	13286469	+	Intron	DEL	T	-	-			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:13286469delT	uc010jpc.2	+						PHACTR1_uc003nah.1_Intron|TBC1D7_uc003naj.2_Intron|TBC1D7_uc011dis.1_Intron|uc003nak.1_Intron	NM_030948	NP_112210	Q9C0D0	PHAR1_HUMAN	phosphatase and actin regulator 1							cell junction|cytoplasm|synapse	actin binding|protein phosphatase inhibitor activity				0	Breast(50;0.0427)|Ovarian(93;0.12)	all_hematologic(90;0.122)|Lung SC(78;0.195)	Epithelial(50;0.146)|BRCA - Breast invasive adenocarcinoma(129;0.239)			GTATTAAGGGTTTTTTTTTTC	0.413													9	4	---	---	---	---	
HLA-DRB5	3127	broad.mit.edu	37	6	32547921	32547922	+	Intron	INS	-	AGAC	AGAC			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:32547921_32547922insAGAC	uc003obk.3	-						HLA-DRB1_uc011dqa.1_Intron|HLA-DRB6_uc003obo.1_Intron|uc010jub.1_5'Flank|HLA-DRB1_uc003obp.3_Intron|HLA-DRB1_uc011dqb.1_Intron	NM_002125	NP_002116	Q30154	DRB5_HUMAN	major histocompatibility complex, class II, DR						antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|immune response	endoplasmic reticulum membrane|Golgi apparatus|integral to membrane|late endosome membrane|lysosomal membrane|MHC class II protein complex					0						aacctcttgtaagaaaagttct	0.074													5	5	---	---	---	---	
RNF217	154214	broad.mit.edu	37	6	125330620	125330620	+	Intron	DEL	A	-	-	rs112538609		TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:125330620delA	uc003pzs.2	+						RNF217_uc003pzr.2_Intron|RNF217_uc003pzt.2_Intron	NM_152553	NP_689766	Q8TC41	RN217_HUMAN	ring finger protein 217						protein ubiquitination involved in ubiquitin-dependent protein catabolic process	integral to membrane	ubiquitin-protein ligase activity|zinc ion binding				0			LUSC - Lung squamous cell carcinoma(4;0.0263)|Lung(4;0.0828)	GBM - Glioblastoma multiforme(226;0.0162)		AAGAAGGCAGAAAAAAAAAAG	0.348													1	7	---	---	---	---	
STK31	56164	broad.mit.edu	37	7	23827361	23827370	+	Intron	DEL	ACACACACAC	-	-			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:23827361_23827370delACACACACAC	uc003sws.3	+						STK31_uc003swt.3_Intron|STK31_uc011jze.1_Intron|STK31_uc010kuq.2_Intron|STK31_uc003swv.1_5'Flank	NM_031414	NP_113602	Q9BXU1	STK31_HUMAN	serine/threonine kinase 31 isoform a								ATP binding|nucleic acid binding|protein serine/threonine kinase activity			skin(3)|lung(2)|ovary(2)|stomach(2)	9						gtATGATTGTacacacacacacacacacac	0.105													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	43607761	43607762	+	IGR	DEL	TG	-	-			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:43607761_43607762delTG								HECW1 (4823 upstream) : STK17A (14930 downstream)																							tttgtatgactgtgtgtgtgtg	0.000													3	3	---	---	---	---	
ABCA13	154664	broad.mit.edu	37	7	48682778	48682778	+	Intron	DEL	G	-	-			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:48682778delG	uc003toq.2	+						ABCA13_uc010kys.1_Intron|ABCA13_uc010kyt.1_Intron|ABCA13_uc010kyu.1_Intron	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),						transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						CCAACAATTTGGAGTAATTAC	0.289													26	59	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	56431160	56431161	+	IGR	INS	-	A	A	rs71528887		TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:56431160_56431161insA								PSPH (247070 upstream) : DKFZp434L192 (132755 downstream)																							CCTTCTCCCACGGGGGGTACAC	0.584													12	8	---	---	---	---	
XKR4	114786	broad.mit.edu	37	8	56120328	56120328	+	Intron	DEL	G	-	-			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:56120328delG	uc003xsf.2	+							NM_052898	NP_443130	Q5GH76	XKR4_HUMAN	XK, Kell blood group complex subunit-related							integral to membrane				pancreas(2)	2			Epithelial(17;0.000117)|all cancers(17;0.000836)			TACagggggagggggagaggg	0.264													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	67393250	67393251	+	IGR	INS	-	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:67393250_67393251insA								ADHFE1 (12208 upstream) : C8orf46 (12240 downstream)																							gactctgtctcaaaaaaaaaaa	0.144													6	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	116686698	116686699	+	IGR	INS	-	CCTC	CCTC	rs142743732	by1000genomes	TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:116686698_116686699insCCTC								TRPS1 (5470 upstream) : EIF3H (970357 downstream)																							cttccttccttcctccctccct	0.124													18	12	---	---	---	---	
ANKRD20A4	728747	broad.mit.edu	37	9	69391298	69391299	+	Intron	INS	-	TA	TA			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:69391298_69391299insTA	uc004afn.2	+						ANKRD20A4_uc010mnw.1_Intron	NM_001098805	NP_001092275	Q4UJ75	A20A4_HUMAN	ankyrin repeat domain 20 family, member A4												0						CTACTCCATCTTATACATTAGG	0.317													7	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	76811716	76811721	+	IGR	DEL	TCTGCC	-	-	rs140125319		TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:76811716_76811721delTCTGCC								None (None upstream) : RORB (300531 downstream)																							GCATAGAGGAtctgcctctgcctctg	0.155													3	3	---	---	---	---	
MRC1	4360	broad.mit.edu	37	10	17875520	17875520	+	Intron	DEL	A	-	-			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:17875520delA	uc001ipk.2	+							NM_002438	NP_002429	P22897	MRC1_HUMAN	mannose receptor C type 1 precursor						receptor-mediated endocytosis	endosome membrane|integral to plasma membrane	mannose binding|receptor activity				0						actctgtctcaaaaaaaaaaa	0.085													8	4	---	---	---	---	
PARD3	56288	broad.mit.edu	37	10	34737062	34737063	+	Intron	INS	-	GT	GT	rs142220985	by1000genomes	TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:34737062_34737063insGT	uc010qej.1	-						PARD3_uc010qek.1_Intron|PARD3_uc010qel.1_Intron|PARD3_uc010qem.1_Intron|PARD3_uc010qen.1_Intron|PARD3_uc010qeo.1_Intron|PARD3_uc010qep.1_Intron|PARD3_uc010qeq.1_Intron|PARD3_uc001ixp.1_Intron|PARD3_uc001ixq.1_Intron|PARD3_uc001ixr.1_Intron|PARD3_uc001ixt.1_Intron|PARD3_uc001ixu.1_Intron	NM_019619	NP_062565	Q8TEW0	PARD3_HUMAN	partitioning-defective protein 3 homolog						activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|asymmetric cell division|axonogenesis|cell cycle|establishment of epithelial cell polarity|protein complex assembly|protein targeting to membrane|tight junction assembly	cell cortex|cytoskeleton|cytosol|endomembrane system|tight junction	phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4,5-bisphosphate binding|protein binding			ovary(1)	1		Breast(68;0.0707)				atatacactgcgtgtgtgtgtg	0.000													6	3	---	---	---	---	
PRKG1	5592	broad.mit.edu	37	10	53822259	53822259	+	Intron	DEL	A	-	-			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:53822259delA	uc001jjm.2	+						PRKG1_uc001jjn.2_Intron|PRKG1_uc001jjo.2_Intron|PRKG1_uc009xow.1_Intron	NM_001098512	NP_001091982	Q13976	KGP1_HUMAN	protein kinase, cGMP-dependent, type I isoform						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)		CATTGTGGGTAAGCAGTGGAT	0.333													24	12	---	---	---	---	
RCN1	5954	broad.mit.edu	37	11	32072901	32072904	+	Intron	DEL	AAGG	-	-			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:32072901_32072904delAAGG	uc010rea.1	+							NM_002901	NP_002892	Q15293	RCN1_HUMAN	reticulocalbin 1 precursor							endoplasmic reticulum lumen	calcium ion binding			large_intestine(1)	1	Lung SC(675;0.225)					gggaggaagaaaggaaggaaggaa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	45609521	45609524	+	IGR	DEL	AGAA	-	-	rs11038557		TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:45609521_45609524delAGAA								SYT13 (301637 upstream) : CHST1 (60903 downstream)																							agaaagaaagagaaagaaagaaag	0.000													3	3	---	---	---	---	
NXF1	10482	broad.mit.edu	37	11	62564556	62564556	+	Intron	DEL	C	-	-	rs111331941		TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:62564556delC	uc001nvf.1	-						NXF1_uc001nvg.1_Intron|NXF1_uc009yog.1_Intron	NM_006362	NP_006353	Q9UBU9	NXF1_HUMAN	nuclear RNA export factor 1 isoform 1						gene expression|interspecies interaction between organisms	cytosol|nuclear speck	nucleotide binding|protein binding			skin(3)	3						aaaaaaaaaacaaaacaaaaa	0.244													14	7	---	---	---	---	
LRP5	4041	broad.mit.edu	37	11	68131124	68131125	+	Intron	INS	-	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:68131124_68131125insA	uc001ont.2	+						LRP5_uc009ysg.2_Intron	NM_002335	NP_002326	O75197	LRP5_HUMAN	low density lipoprotein receptor-related protein						adipose tissue development|bone marrow development|bone morphogenesis|canonical Wnt receptor signaling pathway|cholesterol homeostasis|endocytosis|glucose catabolic process|negative regulation of osteoblast differentiation|negative regulation of protein serine/threonine kinase activity|positive regulation of fat cell differentiation|positive regulation of mesenchymal cell proliferation|positive regulation of mitosis|positive regulation of transcription from RNA polymerase II promoter|regulation of blood pressure|regulation of canonical Wnt receptor signaling pathway|retina morphogenesis in camera-type eye|retinal blood vessel morphogenesis|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	endoplasmic reticulum|integral to membrane|plasma membrane|receptor complex	protein binding|receptor activity			lung(2)|skin(2)|ovary(1)|pancreas(1)|breast(1)	7						gactccatctcaaaaaaaaaaa	0.252													6	3	---	---	---	---	
MLL	4297	broad.mit.edu	37	11	118353037	118353038	+	Intron	INS	-	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:118353037_118353038insT	uc001pta.2	+						MLL_uc001ptb.2_Intron|MLL_uc001pte.1_Intron|MLL_uc009zab.1_Intron	NM_005933	NP_005924	Q03164	MLL1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia						apoptosis|embryonic hemopoiesis|histone H4-K16 acetylation|positive regulation of transcription, DNA-dependent|protein complex assembly|transcription from RNA polymerase II promoter	MLL1 complex	AT DNA binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-K4 specific)|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|unmethylated CpG binding|zinc ion binding			lung(7)|ovary(5)|kidney(5)|central_nervous_system(3)|pancreas(2)|urinary_tract(1)|breast(1)|skin(1)	25	all_hematologic(175;0.046)	all_hematologic(192;1.13e-50)|all_neural(223;3.18e-06)|Breast(348;1.07e-05)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.244)		OV - Ovarian serous cystadenocarcinoma(223;2.77e-44)|BRCA - Breast invasive adenocarcinoma(274;1.2e-11)|Lung(307;3.48e-06)|LUSC - Lung squamous cell carcinoma(976;7.92e-05)|Colorectal(284;0.144)		AGTTTAAATAGTTTTTTTTTTT	0.292			T|O	MLL|MLLT1|MLLT2|MLLT3|MLLT4|MLLT7|MLLT10|MLLT6|ELL|EPS15|AF1Q|CREBBP|SH3GL1|FNBP1|PNUTL1|MSF|GPHN|GMPS|SSH3BP1|ARHGEF12|GAS7|FOXO3A|LAF4|LCX|SEPT6|LPP|CBFA2T1|GRAF|EP300|PICALM|HEAB	AML|ALL								6	3	---	---	---	---	
CACNA1C	775	broad.mit.edu	37	12	2487990	2487991	+	Intron	INS	-	TCTT	TCTT	rs147464208	by1000genomes	TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:2487990_2487991insTCTT	uc009zdu.1	+						CACNA1C_uc009zdv.1_Intron|CACNA1C_uc001qkb.2_Intron|CACNA1C_uc001qkc.2_Intron|CACNA1C_uc001qke.2_Intron|CACNA1C_uc001qkf.2_Intron|CACNA1C_uc001qjz.2_Intron|CACNA1C_uc001qkd.2_Intron|CACNA1C_uc001qkg.2_Intron|CACNA1C_uc009zdw.1_Intron|CACNA1C_uc001qkh.2_Intron|CACNA1C_uc001qkl.2_Intron|CACNA1C_uc001qkn.2_Intron|CACNA1C_uc001qko.2_Intron|CACNA1C_uc001qkp.2_Intron|CACNA1C_uc001qkr.2_Intron|CACNA1C_uc001qku.2_Intron|CACNA1C_uc001qkq.2_Intron|CACNA1C_uc001qks.2_Intron|CACNA1C_uc001qkt.2_Intron|CACNA1C_uc001qka.1_Intron|CACNA1C_uc001qki.1_Intron|CACNA1C_uc001qkj.1_Intron|CACNA1C_uc001qkk.1_Intron|CACNA1C_uc001qkm.1_Intron	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,						axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	cttcctctctctctttccttct	0.248													4	4	---	---	---	---	
TEAD4	7004	broad.mit.edu	37	12	3129551	3129551	+	Intron	DEL	G	-	-	rs3837514		TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:3129551delG	uc010sej.1	+						TEAD4_uc010sek.1_Intron|TEAD4_uc001qln.2_Intron	NM_003213	NP_003204	Q15561	TEAD4_HUMAN	TEA domain family member 4 isoform 1						hippo signaling cascade|muscle organ development|skeletal system development		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0	Ovarian(42;0.211)		OV - Ovarian serous cystadenocarcinoma(31;0.000563)|COAD - Colon adenocarcinoma(12;0.0831)			CTTGCTCGGCGGTTCCATGCA	0.527													5	5	---	---	---	---	
LASS5	91012	broad.mit.edu	37	12	50535742	50535742	+	Intron	DEL	G	-	-	rs67484443		TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:50535742delG	uc001rwd.3	-						LASS5_uc001rwc.2_Intron|LASS5_uc001rwe.3_Intron|LASS5_uc001rwf.3_Intron|LASS5_uc010smq.1_Intron	NM_147190	NP_671723	Q8N5B7	CERS5_HUMAN	LAG1 homolog, ceramide synthase 5						ceramide biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome|nuclear membrane	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sphingosine N-acyltransferase activity				0						aaaaaaaaaagaaaagaaaaa	0.174													8	4	---	---	---	---	
C12orf51	283450	broad.mit.edu	37	12	112638689	112638690	+	Intron	DEL	GT	-	-	rs35054697		TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:112638689_112638690delGT	uc009zwc.2	-							NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						gcgtgcgtgcgtgtgtgtgtgt	0.218													76	46	---	---	---	---	
VSIG10	54621	broad.mit.edu	37	12	118517627	118517630	+	Intron	DEL	TTTC	-	-	rs66686401		TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:118517627_118517630delTTTC	uc001tws.2	-							NM_019086	NP_061959	Q8N0Z9	VSI10_HUMAN	V-set and immunoglobulin domain containing 10							integral to membrane					0						CACCTTTGCAtttctttctttctt	0.221													9	10	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	26809636	26809636	+	IGR	DEL	T	-	-			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:26809636delT								RNF6 (13128 upstream) : CDK8 (19120 downstream)																							CCATGAGCACTTTTTTTTTTC	0.323													4	2	---	---	---	---	
TBC1D4	9882	broad.mit.edu	37	13	75910897	75910898	+	Intron	INS	-	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:75910897_75910898insA	uc001vjl.1	-						TBC1D4_uc010aer.2_Intron|TBC1D4_uc010aes.2_Intron	NM_014832	NP_055647	O60343	TBCD4_HUMAN	TBC1 domain family, member 4							cytoplasm	Rab GTPase activator activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Prostate(6;0.014)|Breast(118;0.0982)		GBM - Glioblastoma multiforme(99;0.0116)		aaaaacaaaagaaaaaaaGATC	0.119													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	34669510	34669513	+	IGR	DEL	GATG	-	-			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:34669510_34669513delGATG								EGLN3 (249223 upstream) : C14orf147 (232632 downstream)																							aacagagcaagaTggatggatgga	0.000													9	5	---	---	---	---	
KIAA1409	57578	broad.mit.edu	37	14	94083843	94083843	+	Intron	DEL	T	-	-			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:94083843delT	uc001ybv.1	+						KIAA1409_uc001ybs.1_Intron	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578							integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		GCCCTGTTAATATATGCTCTA	0.318													3	8	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	30384348	30384349	+	5'Flank	INS	-	C	C			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:30384348_30384349insC	uc001zcx.1	-						uc010uau.1_5'Flank					DQ595055																		TGAGCCTGACTCCCCCTGCACC	0.604													11	15	---	---	---	---	
LPCAT4	254531	broad.mit.edu	37	15	34656628	34656628	+	Intron	DEL	T	-	-	rs10718217		TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:34656628delT	uc001zig.2	-						LPCAT4_uc010bav.1_Intron	NM_153613	NP_705841	Q643R3	LPCT4_HUMAN	lysophosphatidylcholine acyltransferase 4						phospholipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	acyltransferase activity|calcium ion binding				0						tttttttttctgttgttgttg	0.199													19	9	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	10297754	10297757	+	IGR	DEL	GAGG	-	-			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:10297754_10297757delGAGG								GRIN2A (21143 upstream) : ATF7IP2 (182155 downstream)																							gggagggagagagggagggaggga	0.005													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	27088704	27088705	+	IGR	INS	-	CTTT	CTTT	rs143025532	by1000genomes	TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:27088704_27088705insCTTT								C16orf82 (8218 upstream) : JMJD5 (126102 downstream)																							ctccttccttccttccttcctt	0.000													8	6	---	---	---	---	
NAE1	8883	broad.mit.edu	37	16	66839541	66839541	+	Intron	DEL	A	-	-			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:66839541delA	uc002eqf.2	-						NAE1_uc002eqe.2_Intron|NAE1_uc002eqg.2_Intron|NAE1_uc010cdv.2_Intron	NM_003905	NP_003896	Q13564	ULA1_HUMAN	NEDD8 activating enzyme E1 subunit 1 isoform a						apoptosis|cell cycle|DNA replication|mitotic cell cycle DNA replication checkpoint|protein neddylation|signal transduction	cytoplasm|insoluble fraction|plasma membrane	catalytic activity|protein heterodimerization activity			ovary(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0914)|Epithelial(162;0.214)	Adenosine triphosphate(DB00171)	actgcgtctcaaaaaaaaaaa	0.124													3	3	---	---	---	---	
CA7	766	broad.mit.edu	37	16	66886489	66886490	+	Intron	INS	-	A	A	rs111695989		TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:66886489_66886490insA	uc002eqi.2	+						uc002eqh.2_Intron|CA7_uc002eqj.2_Intron	NM_005182	NP_005173	P43166	CAH7_HUMAN	carbonic anhydrase VII isoform 1						one-carbon metabolic process	cytoplasm	carbonate dehydratase activity|zinc ion binding				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.088)|Epithelial(162;0.204)		gaaaagaaaagaaaaaaaaaag	0.139													11	5	---	---	---	---	
DPEP2	64174	broad.mit.edu	37	16	68023405	68023405	+	Intron	DEL	G	-	-			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:68023405delG	uc010cey.2	-						DPEP2_uc002evd.3_Intron|DPEP2_uc002eve.2_Intron|DPEP2_uc002evf.2_Intron	NM_022355	NP_071750	Q9H4A9	DPEP2_HUMAN	dipeptidase 2 precursor						hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process|proteolysis	anchored to membrane|plasma membrane	dipeptidase activity|dipeptidyl-peptidase activity|metal ion binding|metalloexopeptidase activity			skin(1)	1		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0119)|Epithelial(162;0.0489)|all cancers(182;0.239)		CTGTGGGCCAGGCAGGCTAAT	0.587													13	11	---	---	---	---	
FANCA	2175	broad.mit.edu	37	16	89818411	89818412	+	Intron	DEL	TG	-	-			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:89818411_89818412delTG	uc002fou.1	-						FANCA_uc010vpn.1_Intron|FANCA_uc010vpo.1_Intron	NM_000135	NP_000126	O15360	FANCA_HUMAN	Fanconi anemia, complementation group A isoform						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)		atctcctgactgtgtgatccgc	0.054			D|Mis|N|F|S			AML|leukemia		Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				68	42	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	3895175	3895176	+	IGR	INS	-	CTTC	CTTC	rs72199089		TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:3895175_3895176insCTTC								ATP2A3 (27439 upstream) : ZZEF1 (12564 downstream)																							ctctctctcttcttccttcctt	0.109													7	6	---	---	---	---	
TRIM16	10626	broad.mit.edu	37	17	15496417	15496417	+	Intron	DEL	A	-	-			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:15496417delA	uc002gor.1	-						CDRT1_uc010vvy.1_Intron|CDRT1_uc010vvz.1_Intron|CDRT1_uc002gov.3_Intron			O95361	TRI16_HUMAN	SubName: Full=Putative uncharacterized protein; Flags: Fragment;						histone H3 acetylation|histone H4 acetylation|positive regulation of interleukin-1 beta secretion|positive regulation of keratinocyte differentiation|positive regulation of retinoic acid receptor signaling pathway|positive regulation of transcription, DNA-dependent|response to growth hormone stimulus|response to organophosphorus|response to retinoic acid	cytoplasm|plasma membrane|PML body	DNA binding|interleukin-1 binding|NACHT domain binding|zinc ion binding			ovary(2)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (92;0.0839)|Epithelial(1;8.4e-29)|all cancers(1;3.06e-28)|Colorectal(1;1.57e-19)|OV - Ovarian serous cystadenocarcinoma(1;6.1e-17)|COAD - Colon adenocarcinoma(1;3.38e-12)|READ - Rectum adenocarcinoma(2;1.46e-05)|BRCA - Breast invasive adenocarcinoma(8;0.0559)		actatgtctcaaaaaaaaaaa	0.194													6	3	---	---	---	---	
C17orf50	146853	broad.mit.edu	37	17	34088119	34088119	+	Intron	DEL	T	-	-			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:34088119delT	uc002hjx.2	+						MMP28_uc002hjw.1_Intron	NM_145272	NP_660315	Q8WW18	CQ050_HUMAN	hypothetical protein LOC146853												0		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		CCTTCCTGAAttttttttttt	0.254													6	3	---	---	---	---	
NXPH3	11248	broad.mit.edu	37	17	47655757	47655757	+	Intron	DEL	G	-	-	rs36092852		TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:47655757delG	uc002ipa.2	+						NXPH3_uc010wlw.1_Intron	NM_007225	NP_009156	O95157	NXPH3_HUMAN	neurexophilin 3 precursor						neuropeptide signaling pathway	extracellular region				pancreas(1)|skin(1)	2	all_cancers(4;7.45e-14)|Breast(4;1.08e-27)|all_epithelial(4;2.27e-17)					AAAGGACAATGGGGGGGGGGG	0.532													7	4	---	---	---	---	
CCDC46	201134	broad.mit.edu	37	17	64025820	64025821	+	Intron	INS	-	TAAA	TAAA	rs144628903	by1000genomes	TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:64025820_64025821insTAAA	uc002jfl.2	-						CCDC46_uc010deo.2_Intron|CCDC46_uc002jfm.2_Intron|CCDC46_uc010dep.2_Intron	NM_145036	NP_659473	Q8N8E3	CE112_HUMAN	coiled-coil domain containing 46 isoform a							centrosome					0			BRCA - Breast invasive adenocarcinoma(6;1.53e-06)			gaccctgtctctaaataaacaa	0.114													2	5	---	---	---	---	
ABCA8	10351	broad.mit.edu	37	17	66932948	66932948	+	Intron	DEL	T	-	-			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:66932948delT	uc002jhp.2	-						ABCA8_uc002jhq.2_Intron|ABCA8_uc010wqq.1_Intron|ABCA8_uc010wqr.1_Intron|ABCA8_uc002jhr.2_Intron|ABCA8_uc002jhs.2_Intron|ABCA8_uc002jht.2_Intron	NM_007168	NP_009099	O94911	ABCA8_HUMAN	ATP-binding cassette, sub-family A member 8							integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3	Breast(10;4.56e-13)					CAAAAATGAATTTTTTTTTAA	0.234													4	7	---	---	---	---	
FBF1	85302	broad.mit.edu	37	17	73923096	73923096	+	Intron	DEL	G	-	-			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:73923096delG	uc002jqc.2	-						FBF1_uc002jqa.1_Intron|FBF1_uc010wsp.1_Intron|FBF1_uc002jqd.1_Intron	NM_001080542	NP_001074011	Q8TES7	FBF1_HUMAN	Fas (TNFRSF6) binding factor 1												0						TCTGGAGGGTGGGGCCTGGGG	0.617													2	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	48817897	48817904	+	IGR	DEL	TTCCTTCC	-	-	rs3080557		TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:48817897_48817904delTTCCTTCC								MEX3C (94207 upstream) : None (None downstream)																							ccctcccattttccttccttccttcctt	0.082													3	6	---	---	---	---	
TSPAN16	26526	broad.mit.edu	37	19	11409112	11409112	+	Intron	DEL	T	-	-	rs34774674		TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:11409112delT	uc002mqv.1	+						TSPAN16_uc002mqu.1_Intron	NM_012466	NP_036598	Q9UKR8	TSN16_HUMAN	transmembrane 4 superfamily member 16							integral to membrane				skin(1)	1						GTGTCACCTAttttttttttt	0.229													8	5	---	---	---	---	
NWD1	284434	broad.mit.edu	37	19	16846662	16846662	+	Intron	DEL	A	-	-			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:16846662delA	uc002neu.3	+						NWD1_uc002net.3_Intron|NWD1_uc002nev.3_Intron			Q149M9	NWD1_HUMAN	RecName: Full=NACHT and WD repeat domain-containing protein 1;								ATP binding			skin(3)|ovary(2)|pancreas(2)	7						ggaaggaaggaaggaaggaag	0.000													3	3	---	---	---	---	
ZCCHC3	85364	broad.mit.edu	37	20	278688	278690	+	In_Frame_Del	DEL	CGG	-	-	rs5839847		TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:278688_278690delCGG	uc002wdf.2	+	1	485_487	c.461_463delCGG	c.(460-465)CCGGCG>CCG	p.A158del	ZCCHC3_uc002wdg.2_Intron	NM_033089	NP_149080	Q9NUD5	ZCHC3_HUMAN	zinc finger, CCHC domain containing 3	158	Poly-Ala.						nucleic acid binding|zinc ion binding				0		all_cancers(10;0.000209)|Lung NSC(37;0.0417)|all_lung(30;0.0713)|all_epithelial(17;0.0748)|Breast(17;0.231)	OV - Ovarian serous cystadenocarcinoma(29;0.149)			CAGGATGAgccggcggcggcggc	0.635													4	2	---	---	---	---	
ACSS2	55902	broad.mit.edu	37	20	33506985	33506987	+	Intron	DEL	TCC	-	-			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:33506985_33506987delTCC	uc002xbd.2	+						ACSS2_uc002xbc.2_Intron|ACSS2_uc010zum.1_Intron|ACSS2_uc010gey.2_Intron|ACSS2_uc002xbe.2_Intron|ACSS2_uc002xbf.2_Intron	NM_018677	NP_061147	Q9NR19	ACSA_HUMAN	acyl-CoA synthetase short-chain family member 2						ethanol oxidation|lipid biosynthetic process|xenobiotic metabolic process	cytosol|nucleus	acetate-CoA ligase activity|ATP binding|protein binding				0					Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	agccaAGGGTTCCTCCTCAGCCT	0.305													4	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	42047887	42047890	+	IGR	DEL	AGGA	-	-	rs59445924	by1000genomes	TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:42047887_42047890delAGGA								PTPRT (229330 upstream) : SFRS6 (38614 downstream)																							gcagggagggaggaaggaaggaag	0.000													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	57159887	57159888	+	Intron	INS	-	CTTC	CTTC	rs142796198	by1000genomes	TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:57159887_57159888insCTTC	uc002xzg.1	+											Homo sapiens cDNA FLJ30075 fis, clone BGGI11000285.																		ctcccttctttcttccttcctt	0.000													13	11	---	---	---	---	
CYYR1	116159	broad.mit.edu	37	21	27852395	27852395	+	Intron	DEL	A	-	-			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:27852395delA	uc002ymd.2	-						CYYR1_uc011ack.1_Intron|CYYR1_uc002yme.2_Intron	NM_052954	NP_443186	Q96J86	CYYR1_HUMAN	cysteine and tyrosine-rich 1 protein precursor							integral to membrane					0						GAATACCTTCAAAAAAAAAGA	0.338													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	35712555	35712556	+	IGR	INS	-	AGGAGG	AGGAGG	rs145061950	by1000genomes	TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:35712555_35712556insAGGAGG								C21orf82 (150335 upstream) : KCNE2 (23767 downstream)																							GGACGTGGCCCaggaggaggag	0.505													4	2	---	---	---	---	
PARVG	64098	broad.mit.edu	37	22	44594739	44594740	+	Intron	INS	-	ATCC	ATCC	rs142865703	by1000genomes	TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:44594739_44594740insATCC	uc011aqe.1	+						PARVG_uc003bep.2_Intron|PARVG_uc011aqf.1_Intron|PARVG_uc003beq.2_Intron|PARVG_uc003ber.2_Intron	NM_001137605	NP_001131077	Q9HBI0	PARVG_HUMAN	parvin, gamma						cell-matrix adhesion	cytoplasm|cytoskeleton|focal adhesion	actin binding				0		Ovarian(80;0.024)|all_neural(38;0.0299)				TATGTCTGCCTatccatccatc	0.218													5	3	---	---	---	---	
DHRSX	207063	broad.mit.edu	37	X	2326917	2326918	+	Intron	INS	-	A	A			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:2326917_2326918insA	uc004cqf.3	-							NM_145177	NP_660160	Q8N5I4	DHRSX_HUMAN	dehydrogenase/reductase (SDR family) X-linked								binding|oxidoreductase activity				0		all_cancers(21;9e-05)|all_epithelial(21;6.22e-06)|all_lung(23;0.000597)|Lung NSC(23;0.00901)|Lung SC(21;0.186)				CTATTAACTGCAAAAAAAAAAA	0.347													12	8	---	---	---	---	
SSX5	6758	broad.mit.edu	37	X	48053437	48053438	+	Intron	INS	-	T	T			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:48053437_48053438insT	uc004dja.1	-						SSX5_uc004diz.1_Intron	NM_175723	NP_783729	O60225	SSX5_HUMAN	synovial sarcoma, X breakpoint 5 isoform b						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding				0						tctgcatgcaattttttttttt	0.173													8	5	---	---	---	---	
MED12	9968	broad.mit.edu	37	X	70351802	70351803	+	Intron	INS	-	TC	TC			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:70351802_70351803insTC	uc004dyy.2	+						MED12_uc011mpq.1_Intron|MED12_uc004dyz.2_Intron|MED12_uc004dza.2_Intron|MED12_uc010nla.2_Intron	NM_005120	NP_005111	Q93074	MED12_HUMAN	mediator complex subunit 12						androgen receptor signaling pathway|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|protein C-terminus binding|protein domain specific binding|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4	Renal(35;0.156)					TTGCGTTCCTATCTCCCCATCA	0.470													25	19	---	---	---	---	
Unknown	0	broad.mit.edu	37	Y	13496206	13496206	+	IGR	DEL	G	-	-			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrY:13496206delG								None (None upstream) : None (None downstream)																							CTTCTGTCATGTGAAATAATT	0.318													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	Y	13500860	13500860	+	IGR	DEL	G	-	-	rs76607402		TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrY:13500860delG								None (None upstream) : None (None downstream)																							TGATTTCTAAGACTTTTGAAA	0.274													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	Y	13637365	13637366	+	IGR	INS	-	GGGT	GGGT			TCGA-18-4083-01	TCGA-18-4083-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrY:13637365_13637366insGGGT								None (None upstream) : None (None downstream)																							GCCGCGGAGGCGGAGGGCAAAA	0.579													5	3	---	---	---	---	
