Hugo_Symbol	Entrez_Gene_Id	Center	NCBI_Build	Chromosome	Start_position	End_position	Strand	Variant_Classification	Variant_Type	Reference_Allele	Tumor_Seq_Allele1	Tumor_Seq_Allele2	dbSNP_RS	dbSNP_Val_Status	Tumor_Sample_Barcode	Matched_Norm_Sample_Barcode	Match_Norm_Seq_Allele1	Match_Norm_Seq_Allele2	Tumor_Validation_Allele1	Tumor_Validation_Allele2	Match_Norm_Validation_Allele1	Match_Norm_Validation_Allele2	Verification_Status	Validation_Status	Mutation_Status	Sequencing_Phase	Sequence_Source	Validation_Method	Score	BAM_file	Sequencer	Tumor_Sample_UUID	Matched_Norm_Sample_UUID	Genome_Change	Annotation_Transcript	Transcript_Strand	Transcript_Exon	Transcript_Position	cDNA_Change	Codon_Change	Protein_Change	Other_Transcripts	Refseq_mRNA_Id	Refseq_prot_Id	SwissProt_acc_Id	SwissProt_entry_Id	Description	UniProt_AApos	UniProt_Region	UniProt_Site	UniProt_Natural_Variations	UniProt_Experimental_Info	GO_Biological_Process	GO_Cellular_Component	GO_Molecular_Function	COSMIC_overlapping_mutations	COSMIC_fusion_genes	COSMIC_tissue_types_affected	COSMIC_total_alterations_in_gene	Tumorscape_Amplification_Peaks	Tumorscape_Deletion_Peaks	TCGAscape_Amplification_Peaks	TCGAscape_Deletion_Peaks	DrugBank	ref_context	gc_content	CCLE_ONCOMAP_overlapping_mutations	CCLE_ONCOMAP_total_mutations_in_gene	CGC_Mutation_Type	CGC_Translocation_Partner	CGC_Tumor_Types_Somatic	CGC_Tumor_Types_Germline	CGC_Other_Diseases	DNARepairGenes_Role	FamilialCancerDatabase_Syndromes	MUTSIG_Published_Results	OREGANNO_ID	OREGANNO_Values	t_alt_count	t_ref_count	validation_status	validation_method	validation_tumor_sample	validation_alt_allele	filter
CROCCL1	84809	broad.mit.edu	37	1	16946438	16946438	+	RNA	SNP	G	A	A	rs28392876	by1000genomes	TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr1:16946438G>A	uc010ocf.1	-	3		c.460C>T			CROCCL1_uc009vov.1_RNA|CROCCL1_uc001aze.2_RNA|CROCCL1_uc001azf.2_RNA					Homo sapiens mRNA for FLJ00313 protein.												0						GCCTTCCGCCGGGCCAGCAGC	0.672													5	12	---	---	---	---	PASS
ABCA4	24	broad.mit.edu	37	1	94506837	94506837	+	Silent	SNP	G	A	A			TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr1:94506837G>A	uc001dqh.2	-	23	3554	c.3450C>T	c.(3448-3450)TGC>TGT	p.C1150C		NM_000350	NP_000341	P78363	ABCA4_HUMAN	ATP-binding cassette, sub-family A member 4	1150	Cytoplasmic.|ABC transporter 1.				phototransduction, visible light|visual perception	integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)|skin(4)|central_nervous_system(2)|upper_aerodigestive_tract(1)|breast(1)	12		all_lung(203;0.000757)|Lung NSC(277;0.00335)		all cancers(265;0.00432)|GBM - Glioblastoma multiforme(16;0.00715)|Epithelial(280;0.171)		CTGTGCCAAAGCAGTTCTTCA	0.562													19	75	---	---	---	---	PASS
SPRR2F	6705	broad.mit.edu	37	1	153085079	153085079	+	Missense_Mutation	SNP	G	A	A			TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr1:153085079G>A	uc001fbi.2	-	2	190	c.131C>T	c.(130-132)TCC>TTC	p.S44F	SPRR2D_uc009wnz.2_Intron|SPRR2A_uc001fbf.2_Intron|SPRR2A_uc009woa.2_Intron	NM_001014450	NP_001014450	Q96RM1	SPR2F_HUMAN	small proline-rich protein 2F	44	3 X 9 AA tandem repeats of [PS]-K-C-P- [EQ]-[PS]-C-P-P.|3.				keratinization	cornified envelope|cytoplasm					0	Lung NSC(65;1.49e-28)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.171)			AGGTGGGCAGGACTGTGGACA	0.617													54	313	---	---	---	---	PASS
C1orf110	339512	broad.mit.edu	37	1	162824943	162824943	+	Missense_Mutation	SNP	C	T	T			TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr1:162824943C>T	uc001gck.2	-	4	696	c.521G>A	c.(520-522)GGC>GAC	p.G174D	C1orf110_uc009wuw.1_Intron|C1orf110_uc009wux.1_Missense_Mutation_p.G173D	NM_178550	NP_848645	Q86UF4	CA110_HUMAN	hypothetical protein LOC339512	174											0						AACAGAGATGCCCTTGCTGGG	0.463													59	306	---	---	---	---	PASS
RASAL2	9462	broad.mit.edu	37	1	178269157	178269157	+	Missense_Mutation	SNP	A	G	G			TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr1:178269157A>G	uc001glq.2	+	3	1125	c.361A>G	c.(361-363)ACA>GCA	p.T121A	RASAL2_uc009wxb.2_Missense_Mutation_p.T121A	NM_170692	NP_733793	Q9UJF2	NGAP_HUMAN	RAS protein activator like 2 isoform 2	Error:Variant_position_missing_in_Q9UJF2_after_alignment					negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity			ovary(2)|breast(2)|large_intestine(1)	5						GGAGCAGCAGACAGATTCCAC	0.473											OREG0014010	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	66	---	---	---	---	PASS
OBSCN	84033	broad.mit.edu	37	1	228509861	228509861	+	Missense_Mutation	SNP	C	T	T			TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr1:228509861C>T	uc009xez.1	+	55	15363	c.15319C>T	c.(15319-15321)CCT>TCT	p.P5107S	OBSCN_uc001hsn.2_Missense_Mutation_p.P5107S	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	5107					apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				CAAAGAGACTCCTGCCCCTGT	0.597													4	37	---	---	---	---	PASS
SPAST	6683	broad.mit.edu	37	2	32368485	32368485	+	Splice_Site	SNP	G	T	T			TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr2:32368485G>T	uc002roc.2	+	14	1837	c.1616_splice	c.e14+1	p.R539_splice	SPAST_uc002rod.2_Splice_Site_p.R507_splice	NM_014946	NP_055761	Q9UBP0	SPAST_HUMAN	spastin isoform 1						cell cycle|cell death|cell differentiation|cytokinesis, completion of separation|ER to Golgi vesicle-mediated transport|microtubule bundle formation|microtubule severing|nervous system development|protein hexamerization|protein homooligomerization	endoplasmic reticulum|endosome|integral to membrane|microtubule|microtubule organizing center|nucleus|perinuclear region of cytoplasm|spindle	alpha-tubulin binding|ATP binding|beta-tubulin binding|microtubule binding|microtubule-severing ATPase activity			breast(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.208)					AACTTGCTAGGTGAGTAATTT	0.239													3	42	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	2	132292791	132292791	+	RNA	SNP	T	C	C	rs3101988	by1000genomes	TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr2:132292791T>C	uc002ttc.1	-	2		c.257A>G								full-length cDNA clone CS0DI014YM20 of Placenta Cot 25-normalized of Homo sapiens (human).																		GTGGATGCTCTGGGCACAGGT	0.627													3	5	---	---	---	---	PASS
NRP2	8828	broad.mit.edu	37	2	206562286	206562286	+	Missense_Mutation	SNP	G	A	A			TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr2:206562286G>A	uc002vaw.2	+	2	883	c.92G>A	c.(91-93)CGT>CAT	p.R31H	NRP2_uc002vat.2_Missense_Mutation_p.R31H|NRP2_uc002vau.2_Missense_Mutation_p.R31H|NRP2_uc002vav.2_Missense_Mutation_p.R31H|NRP2_uc002vax.2_Missense_Mutation_p.R31H|NRP2_uc002vay.2_Missense_Mutation_p.R31H|NRP2_uc010fud.2_Missense_Mutation_p.R31H	NM_201266	NP_957718	O60462	NRP2_HUMAN	neuropilin 2 isoform 1 precursor	31	Extracellular (Potential).|CUB 1.				angiogenesis|axon guidance|cell adhesion	integral to membrane|membrane fraction|plasma membrane	heparin binding|metal ion binding|semaphorin receptor activity|vascular endothelial growth factor receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4						TGCGGAGGTCGTTTGAATTCC	0.517													24	462	---	---	---	---	PASS
ABCB6	10058	broad.mit.edu	37	2	220081146	220081146	+	Missense_Mutation	SNP	A	G	G			TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr2:220081146A>G	uc002vkc.1	-	4	1187	c.910T>C	c.(910-912)TGG>CGG	p.W304R	ABCB6_uc010fwe.1_Missense_Mutation_p.W258R|ABCB6_uc010zku.1_RNA	NM_005689	NP_005680	Q9NP58	ABCB6_HUMAN	ATP-binding cassette, sub-family B, member 6	304	ABC transmembrane type-1.				cadmium ion transmembrane transport|cellular iron ion homeostasis|detoxification of cadmium ion|porphyrin biosynthetic process	ATP-binding cassette (ABC) transporter complex|Golgi apparatus|integral to mitochondrial outer membrane|plasma membrane|vacuolar membrane	ATP binding|efflux transmembrane transporter activity|heme binding|heme-transporting ATPase activity			breast(1)|central_nervous_system(1)	2		Renal(207;0.0474)		Epithelial(149;1.22e-06)|all cancers(144;0.000201)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GTAACAGTCCAGGCCAGAGAG	0.547													16	46	---	---	---	---	PASS
GRM7	2917	broad.mit.edu	37	3	7721859	7721859	+	Missense_Mutation	SNP	C	T	T			TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr3:7721859C>T	uc003bqm.2	+	9	2849	c.2575C>T	c.(2575-2577)CGG>TGG	p.R859W	GRM7_uc011ata.1_RNA|GRM7_uc011atb.1_RNA|GRM7_uc010hcf.2_RNA|GRM7_uc011atc.1_RNA|GRM7_uc010hcg.2_Missense_Mutation_p.R859W|GRM7_uc003bql.2_Missense_Mutation_p.R859W|GRM7_uc003bqn.1_Missense_Mutation_p.R442W	NM_000844	NP_000835	Q14831	GRM7_HUMAN	glutamate receptor, metabotropic 7 isoform a	859	Cytoplasmic (Potential).				negative regulation of adenylate cyclase activity|negative regulation of cAMP biosynthetic process|negative regulation of glutamate secretion|sensory perception of smell|sensory perception of sound|synaptic transmission	asymmetric synapse|axon|cell cortex|dendritic shaft|integral to plasma membrane|postsynaptic membrane|presynaptic active zone	adenylate cyclase inhibitor activity|calcium ion binding|glutamate binding|group III metabotropic glutamate receptor activity|PDZ domain binding|serine binding			ovary(4)|lung(3)	7					L-Glutamic Acid(DB00142)	TGTCCAGAAACGGAAGCGAAG	0.512													4	89	---	---	---	---	PASS
PRSS48	345062	broad.mit.edu	37	4	152201037	152201037	+	Missense_Mutation	SNP	G	A	A			TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr4:152201037G>A	uc011cif.1	+	2	142	c.142G>A	c.(142-144)GAC>AAC	p.D48N	PRSS48_uc011cig.1_Intron	NM_183375	NP_899231	Q7RTY5	PRS48_HUMAN	epidermis-specific serine protease-like protein	48	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			large_intestine(1)	1						CCTACACTTTGACCACAACTT	0.542													22	153	---	---	---	---	PASS
GPR98	84059	broad.mit.edu	37	5	90106488	90106488	+	Silent	SNP	C	T	T			TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr5:90106488C>T	uc003kju.2	+	74	15507	c.15411C>T	c.(15409-15411)TTC>TTT	p.F5137F	GPR98_uc003kjt.2_Silent_p.F2843F|GPR98_uc003kjw.2_Silent_p.F798F	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	5137	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)		ATATTTCCTTCCCCGAGACAA	0.443													48	300	---	---	---	---	PASS
PCDHB6	56130	broad.mit.edu	37	5	140531277	140531277	+	Missense_Mutation	SNP	T	C	C	rs145154187		TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr5:140531277T>C	uc003lir.2	+	1	1439	c.1439T>C	c.(1438-1440)ATC>ACC	p.I480T	PCDHB6_uc011dah.1_Missense_Mutation_p.I344T	NM_018939	NP_061762	Q9Y5E3	PCDB6_HUMAN	protocadherin beta 6 precursor	480	Cadherin 5.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GACTCAGGCATCAACGCCCAG	0.652													8	218	---	---	---	---	PASS
RELL2	285613	broad.mit.edu	37	5	141017909	141017909	+	Silent	SNP	C	G	G			TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr5:141017909C>G	uc003lli.2	+	2	965	c.117C>G	c.(115-117)CTC>CTG	p.L39L	HDAC3_uc003llf.2_5'Flank|HDAC3_uc010jgd.1_5'Flank|HDAC3_uc010jge.1_5'Flank|RELL2_uc003llh.2_Silent_p.L39L|RELL2_uc003llg.2_Intron|RELL2_uc010jgf.2_Intron	NM_001130029	NP_001123501	Q8NC24	RELL2_HUMAN	RELT-like 2	39						integral to membrane|plasma membrane					0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCCACGTGCTCAAGAAGAAGG	0.597													6	158	---	---	---	---	PASS
STK19	8859	broad.mit.edu	37	6	31940215	31940215	+	Silent	SNP	C	T	T			TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr6:31940215C>T	uc003nyv.2	+	2	485	c.357C>T	c.(355-357)ATC>ATT	p.I119I	DOM3Z_uc003nyo.1_5'Flank|DOM3Z_uc003nyp.1_5'Flank|DOM3Z_uc003nyq.1_5'Flank|DOM3Z_uc003nyr.1_5'Flank|DOM3Z_uc003nys.1_5'Flank|DOM3Z_uc010jtl.1_5'Flank|STK19_uc003nyt.2_Silent_p.I76I|DOM3Z_uc003nyu.1_5'Flank|STK19_uc011dow.1_Silent_p.I119I|STK19_uc011dox.1_Silent_p.I76I|STK19_uc003nyw.2_Silent_p.I119I|STK19_uc010jtn.1_RNA	NM_032454	NP_115830	P49842	STK19_HUMAN	serine/threonine kinase 19 isoform 2	119						nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			skin(4)	4						ATCACCTGATCCCGGAGACCT	0.597													15	119	---	---	---	---	PASS
PPT2	9374	broad.mit.edu	37	6	32122416	32122416	+	Silent	SNP	G	A	A			TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr6:32122416G>A	uc003nzx.2	+	2	613	c.45G>A	c.(43-45)CTG>CTA	p.L15L	PRRT1_uc003nzs.2_5'Flank|PRRT1_uc003nzt.2_5'Flank|PRRT1_uc003nzu.2_5'Flank|uc003nzv.3_5'Flank|PPT2_uc003nzw.2_Silent_p.L21L|PPT2_uc011dpi.1_RNA|PPT2_uc003nzy.1_RNA|PPT2_uc003nzz.2_Silent_p.L15L|PPT2_uc003oaa.2_Silent_p.L15L|PPT2_uc010jtu.1_Silent_p.L15L	NM_005155	NP_005146	Q9UMR5	PPT2_HUMAN	palmitoyl-protein thioesterase 2 isoform a	15					protein modification process	lysosome	palmitoyl-(protein) hydrolase activity				0						CGTGGGTCCTGCTTCTGTTGC	0.672													32	152	---	---	---	---	PASS
PRIM2	5558	broad.mit.edu	37	6	57393144	57393144	+	Missense_Mutation	SNP	A	T	T	rs3763183	by1000genomes	TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr6:57393144A>T	uc003pdx.2	+	9	881	c.794A>T	c.(793-795)CAG>CTG	p.Q265L		NM_000947	NP_000938	P49643	PRI2_HUMAN	DNA primase polypeptide 2	265					DNA replication, synthesis of RNA primer|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|nucleoplasm	4 iron, 4 sulfur cluster binding|DNA binding|DNA primase activity|metal ion binding				0				Colorectal(6;0.041)|READ - Rectum adenocarcinoma(7;0.193)		TACAGTACCCAGGGAAATGTT	0.294													3	10	---	---	---	---	PASS
INHBA	3624	broad.mit.edu	37	7	41739857	41739857	+	Missense_Mutation	SNP	G	A	A			TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr7:41739857G>A	uc003thq.2	-	1	351	c.116C>T	c.(115-117)GCG>GTG	p.A39V	LOC285954_uc003tht.3_Intron|INHBA_uc003thr.2_Missense_Mutation_p.A39V|LOC285954_uc003ths.2_Intron	NM_002192	NP_002183	P08476	INHBA_HUMAN	inhibin beta A precursor	39					cell cycle arrest|cell surface receptor linked signaling pathway|defense response|erythrocyte differentiation|eyelid development in camera-type eye|G1/S transition of mitotic cell cycle|growth|hair follicle development|hemoglobin biosynthetic process|hemopoietic progenitor cell differentiation|induction of apoptosis|male gonad development|negative regulation of B cell differentiation|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of follicle-stimulating hormone secretion|negative regulation of interferon-gamma biosynthetic process|negative regulation of macrophage differentiation|negative regulation of phosphorylation|nervous system development|odontogenesis|ovarian follicle development|palate development|positive regulation of erythrocyte differentiation|positive regulation of follicle-stimulating hormone secretion|positive regulation of ovulation|positive regulation of transcription from RNA polymerase II promoter|progesterone secretion|regulation of activin receptor signaling pathway	activin A complex|inhibin A complex	cytokine activity|follistatin binding|growth factor activity|hormone activity|identical protein binding|signal transducer activity			lung(5)|ovary(1)	6						GGCGGCCAGCGCACAGGACGG	0.577										TSP Lung(11;0.080)			57	374	---	---	---	---	PASS
C7orf44	55744	broad.mit.edu	37	7	43687182	43687182	+	Missense_Mutation	SNP	C	T	T			TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr7:43687182C>T	uc003tin.1	-	3	161	c.67G>A	c.(67-69)GGT>AGT	p.G23S	C7orf44_uc003til.2_RNA|C7orf44_uc003tii.2_RNA|C7orf44_uc003tij.2_RNA|C7orf44_uc010kxu.1_RNA|C7orf44_uc003tik.2_RNA|C7orf44_uc003tim.1_RNA|C7orf44_uc003tio.1_Missense_Mutation_p.G23S|C7orf44_uc003tiq.1_Missense_Mutation_p.G23S|C7orf44_uc003tip.1_Missense_Mutation_p.G23S	NM_018224	NP_060694	Q9GZY4	CG044_HUMAN	hypothetical protein LOC55744	23	Helical; (Potential).					integral to membrane				ovary(1)	1						TAGAACACACCGTGGAAAAGG	0.493													5	94	---	---	---	---	PASS
ABCA13	154664	broad.mit.edu	37	7	48443343	48443343	+	Silent	SNP	C	A	A			TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr7:48443343C>A	uc003toq.2	+	39	11962	c.11937C>A	c.(11935-11937)GGC>GGA	p.G3979G	ABCA13_uc010kys.1_Silent_p.G1053G|ABCA13_uc003tos.1_Silent_p.G805G|ABCA13_uc010kyt.1_RNA	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	3979	ABC transporter 1.				transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						TGTCTGGAGGCCTGAAGAGGA	0.527													10	42	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	7	64498737	64498737	+	RNA	SNP	C	A	A			TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr7:64498737C>A	uc003ttt.1	+	1		c.6C>A			uc010kzt.1_RNA					Homo sapiens cDNA clone IMAGE:4215179, partial cds.																		gaggcggtggcggcggcggca	0.343													4	23	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	7	100609631	100609631	+	Missense_Mutation	SNP	C	T	T	rs114167943	by1000genomes	TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr7:100609631C>T	uc003uxl.1	+	8	2863	c.2063C>T	c.(2062-2064)GCC>GTC	p.A688V	uc003uxm.1_5'Flank|uc003uxn.1_RNA|uc010lhn.1_Intron					SubName: Full=Intestinal mucin; Flags: Fragment;																		ACGGCCGGCGCCGCGCTGCTG	0.721													4	3	---	---	---	---	PASS
SGK223	157285	broad.mit.edu	37	8	8238940	8238940	+	Silent	SNP	G	C	C			TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr8:8238940G>C	uc003wsh.3	-	1	318	c.318C>G	c.(316-318)GCC>GCG	p.A106A		NM_001080826	NP_001074295	Q86YV5	SG223_HUMAN	pragmin	106							ATP binding|non-membrane spanning protein tyrosine kinase activity				0						GCGAGACTTCGGCACTCAGGT	0.562													14	75	---	---	---	---	PASS
IFNA13	3447	broad.mit.edu	37	9	21367472	21367472	+	Missense_Mutation	SNP	T	C	C			TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr9:21367472T>C	uc003zpa.2	-	1	604	c.538A>G	c.(538-540)ACA>GCA	p.T180A		NM_006900	NP_008831	P01562	IFNA1_HUMAN	interferon, alpha 13 precursor	179					blood coagulation|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|interferon-alpha/beta receptor binding			ovary(1)	1				Lung(24;7.66e-27)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)|OV - Ovarian serous cystadenocarcinoma(39;0.0173)		TGCAAGTTTGTTGATAAAGAG	0.408													30	155	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	9	43818062	43818062	+	RNA	SNP	T	A	A	rs78142446	by1000genomes	TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr9:43818062T>A	uc004acz.1	+	7		c.1181T>A								Homo sapiens cDNA FLJ30083 fis, clone BGGI12001097, weakly similar to Homo sapiens contactin associated protein (Caspr) mRNA.																		GGGAATTCTGTCACCCGGAAG	0.338													3	37	---	---	---	---	PASS
FAM69B	138311	broad.mit.edu	37	9	139617909	139617909	+	Missense_Mutation	SNP	C	T	T			TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr9:139617909C>T	uc004cik.2	+	5	1073	c.979C>T	c.(979-981)CGC>TGC	p.R327C	FAM69B_uc004cil.2_Missense_Mutation_p.R240C|SNHG7_uc004cim.2_Intron	NM_152421	NP_689634	Q5VUD6	FA69B_HUMAN	hypothetical protein LOC138311	327	Lumenal (Potential).					endoplasmic reticulum membrane|integral to membrane					0	all_cancers(76;0.0882)|all_epithelial(76;0.228)	Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;1.03e-05)|Epithelial(140;0.00013)		CACCGTGCGCCGCTTCCTGCA	0.667													5	31	---	---	---	---	PASS
FAM166A	401565	broad.mit.edu	37	9	140140297	140140297	+	Missense_Mutation	SNP	C	T	T			TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr9:140140297C>T	uc004cmi.1	-	2	120	c.65G>A	c.(64-66)GGC>GAC	p.G22D		NM_001001710	NP_001001710	Q6J272	F166A_HUMAN	hypothetical protein LOC401565	22										ovary(1)	1						CGGAAAGAAGCCGGCATAGCT	0.562													3	43	---	---	---	---	PASS
KLC2	64837	broad.mit.edu	37	11	66026227	66026227	+	Silent	SNP	G	T	T			TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr11:66026227G>T	uc010rov.1	+	2	405	c.162G>T	c.(160-162)TCG>TCT	p.S54S	KLC2_uc010row.1_Silent_p.S54S|KLC2_uc009yra.2_Silent_p.S54S|KLC2_uc001ohb.2_Silent_p.S54S|KLC2_uc010rox.1_Silent_p.S54S|KLC2_uc001ohc.2_Silent_p.S54S|KLC2_uc001ohd.2_Silent_p.S54S|KLC2_uc001ohe.1_5'Flank	NM_001134775	NP_001128247	Q9H0B6	KLC2_HUMAN	kinesin light chain 2 isoform 1	54					blood coagulation	cytosol|kinesin complex|microtubule	microtubule motor activity|protein binding				0						AGCCTGGCTCGCAGGAGCGCT	0.667											OREG0021097	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	61	---	---	---	---	PASS
GUCY1A2	2977	broad.mit.edu	37	11	106558447	106558447	+	Missense_Mutation	SNP	G	A	A			TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr11:106558447G>A	uc001pjg.1	-	8	2417	c.2027C>T	c.(2026-2028)CCG>CTG	p.P676L	GUCY1A2_uc010rvo.1_Missense_Mutation_p.P697L|GUCY1A2_uc009yxn.1_Missense_Mutation_p.P707L	NM_000855	NP_000846	P33402	GCYA2_HUMAN	guanylate cyclase 1, soluble, alpha 2	676					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)		ACGAGACCGCGGAATGAATGT	0.418													13	154	---	---	---	---	PASS
PRB1	5542	broad.mit.edu	37	12	11506669	11506669	+	Missense_Mutation	SNP	G	T	T	rs74903687	by1000genomes	TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr12:11506669G>T	uc001qzw.1	-	3	405	c.368C>A	c.(367-369)CCA>CAA	p.P123Q	PRB1_uc001qzu.1_Intron|PRB1_uc001qzv.1_Intron	NM_005039	NP_005030	P04280	PRP1_HUMAN	proline-rich protein BstNI subfamily 1 isoform 1	184	7.|15 X 20 AA approximate tandem repeats of P-P-G-K-P-Q-G-P-P-[PAQ]-Q-[GE]-[GD]- [NKS]-[KSQRN]-[PRQS]-[QS] [GPS]-[PQAR]- [PSR].		Missing (in clone CP-4).|Missing (in clone CP-5).|Missing (in allele S).			extracellular region					0			OV - Ovarian serous cystadenocarcinoma(49;0.185)			GCCTCCTTGTGGGGGTGGTCC	0.612													14	279	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	12	31282765	31282765	+	Missense_Mutation	SNP	A	T	T	rs2536839	by1000genomes	TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr12:31282765A>T	uc010sjy.1	-	24	3119	c.3119T>A	c.(3118-3120)TTT>TAT	p.F1040Y						RecName: Full=Ovostatin homolog 1; Flags: Precursor;																		AATGAATACAAATTTTTTCAT	0.363													3	15	---	---	---	---	PASS
NCKAP5L	57701	broad.mit.edu	37	12	50186731	50186731	+	Missense_Mutation	SNP	C	T	T			TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr12:50186731C>T	uc009zlk.2	-	11	3581	c.3379G>A	c.(3379-3381)GGG>AGG	p.G1127R	NCKAP5L_uc001rvc.3_Missense_Mutation_p.G331R|NCKAP5L_uc001rvb.2_Missense_Mutation_p.G720R	NM_001037806	NP_001032895	Q9HCH0	NCK5L_HUMAN	NCK-associated protein 5-like	1123	Pro-rich.									central_nervous_system(1)	1						GGGAAGGTCCCAATGCCACTG	0.652													6	19	---	---	---	---	PASS
ZFYVE26	23503	broad.mit.edu	37	14	68220894	68220894	+	Missense_Mutation	SNP	G	T	T			TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr14:68220894G>T	uc001xka.2	-	38	7161	c.7022C>A	c.(7021-7023)ACC>AAC	p.T2341N	ZFYVE26_uc010tsz.1_RNA|ZFYVE26_uc001xkb.2_Missense_Mutation_p.T187N	NM_015346	NP_056161	Q68DK2	ZFY26_HUMAN	zinc finger, FYVE domain containing 26	2341					cell cycle|cell death|cytokinesis|double-strand break repair via homologous recombination	centrosome|midbody	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			ovary(9)|breast(2)	11				all cancers(60;0.000763)|OV - Ovarian serous cystadenocarcinoma(108;0.0011)|BRCA - Breast invasive adenocarcinoma(234;0.0115)		CAAGAACCTGGTCACTTCCAT	0.527													27	188	---	---	---	---	PASS
ZFYVE26	23503	broad.mit.edu	37	14	68220896	68220896	+	Silent	SNP	C	A	A			TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr14:68220896C>A	uc001xka.2	-	38	7159	c.7020G>T	c.(7018-7020)GTG>GTT	p.V2340V	ZFYVE26_uc010tsz.1_RNA|ZFYVE26_uc001xkb.2_Silent_p.V186V	NM_015346	NP_056161	Q68DK2	ZFY26_HUMAN	zinc finger, FYVE domain containing 26	2340					cell cycle|cell death|cytokinesis|double-strand break repair via homologous recombination	centrosome|midbody	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			ovary(9)|breast(2)	11				all cancers(60;0.000763)|OV - Ovarian serous cystadenocarcinoma(108;0.0011)|BRCA - Breast invasive adenocarcinoma(234;0.0115)		AGAACCTGGTCACTTCCATCT	0.522													26	187	---	---	---	---	PASS
LRRC57	255252	broad.mit.edu	37	15	42839684	42839684	+	Silent	SNP	C	A	A			TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr15:42839684C>A	uc001zqd.1	-	3	635	c.267G>T	c.(265-267)ACG>ACT	p.T89T	HAUS2_uc001zqe.2_5'Flank|HAUS2_uc010udi.1_5'Flank|HAUS2_uc001zqf.2_5'Flank|LRRC57_uc001zqc.2_Silent_p.T89T	NM_153260	NP_694992	Q8N9N7	LRC57_HUMAN	leucine rich repeat containing 57	89	LRR 3.										0		all_cancers(109;1.99e-12)|all_epithelial(112;5.11e-11)|Lung NSC(122;4.53e-07)|all_lung(180;1.64e-06)|Melanoma(134;0.0262)		GBM - Glioblastoma multiforme(94;6.87e-07)		TTAGGCTTAGCGTCTCTAGTT	0.438													14	95	---	---	---	---	PASS
GLDN	342035	broad.mit.edu	37	15	51676022	51676022	+	Silent	SNP	G	A	A			TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr15:51676022G>A	uc002aba.2	+	4	643	c.474G>A	c.(472-474)TTG>TTA	p.L158L	GLDN_uc010bez.1_Nonsense_Mutation_p.W141*|GLDN_uc002abb.2_Silent_p.L34L	NM_181789	NP_861454	Q6ZMI3	GLDN_HUMAN	gliomedin	158	Extracellular (Potential).|Collagen-like 1.				cell differentiation|nervous system development	collagen|integral to membrane|plasma membrane				ovary(2)	2				all cancers(107;0.00194)|GBM - Glioblastoma multiforme(94;0.00942)		ACAACGGATTGGATGGACAGC	0.433													9	44	---	---	---	---	PASS
DMXL2	23312	broad.mit.edu	37	15	51795002	51795002	+	Splice_Site	SNP	C	T	T			TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr15:51795002C>T	uc002abf.2	-	17	3217	c.2992_splice	c.e17+1	p.G998_splice	DMXL2_uc010ufy.1_Splice_Site_p.G998_splice|DMXL2_uc010bfa.2_Intron	NM_015263	NP_056078	Q8TDJ6	DMXL2_HUMAN	Dmx-like 2							cell junction|synaptic vesicle membrane	Rab GTPase binding			ovary(6)|skin(3)	9				all cancers(107;0.00494)		AGTGACCTTACCTGCTGAAGG	0.393													12	74	---	---	---	---	PASS
CYP1A1	1543	broad.mit.edu	37	15	75013056	75013056	+	Missense_Mutation	SNP	G	A	A			TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr15:75013056G>A	uc002ayp.3	-	7	1435	c.1313C>T	c.(1312-1314)GCT>GTT	p.A438V	CYP1A1_uc010bjv.2_RNA|CYP1A1_uc010bjw.2_RNA|CYP1A1_uc010bju.2_Missense_Mutation_p.A174V|CYP1A1_uc010bjx.2_Missense_Mutation_p.A174V|CYP1A1_uc002ayq.3_Missense_Mutation_p.A438V|CYP1A1_uc010bjy.2_Missense_Mutation_p.A409V	NM_000499	NP_000490	P04798	CP1A1_HUMAN	cytochrome P450, family 1, subfamily A,	438					cellular lipid metabolic process|drug metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding|vitamin D 24-hydroxylase activity			ovary(2)|breast(2)|pancreas(1)	5					Arsenic trioxide(DB01169)|Benzphetamine(DB00865)|Bleomycin(DB00290)|Chlorzoxazone(DB00356)|Dacarbazine(DB00851)|Dactinomycin(DB00970)|Esomeprazole(DB00736)|Estrone(DB00655)|Fluvastatin(DB01095)|Fluvoxamine(DB00176)|Ginseng(DB01404)|Granisetron(DB00889)|Ketoconazole(DB01026)|Menadione(DB00170)|Picrotoxin(DB00466)|Primaquine(DB01087)|Quinidine(DB00908)|Quinine(DB00468)|Thiabendazole(DB00730)	CTTGTCGATAGCACCATCAGG	0.522									Endometrial_Cancer_Familial_Clustering_of|ACTH-independent_macronodular_adrenal_hyperplasia				36	157	---	---	---	---	PASS
AP3B2	8120	broad.mit.edu	37	15	83349301	83349301	+	Missense_Mutation	SNP	C	G	G			TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr15:83349301C>G	uc010uoh.1	-	8	1155	c.978G>C	c.(976-978)CAG>CAC	p.Q326H	AP3B2_uc010uoi.1_Missense_Mutation_p.Q326H|AP3B2_uc010uoj.1_Missense_Mutation_p.Q294H|AP3B2_uc010uog.1_5'Flank	NM_004644	NP_004635	Q13367	AP3B2_HUMAN	adaptor-related protein complex 3, beta 2	326					endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport	clathrin coated vesicle membrane|COPI-coated vesicle|membrane coat	binding|protein transporter activity			ovary(3)|breast(1)|pancreas(1)	5			BRCA - Breast invasive adenocarcinoma(143;0.229)			GGAAGTAGAGCTGCGCCACCG	0.632													3	15	---	---	---	---	PASS
NOMO3	408050	broad.mit.edu	37	16	16350005	16350005	+	Missense_Mutation	SNP	G	A	A			TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr16:16350005G>A	uc002deq.2	+	11	1345	c.1210G>A	c.(1210-1212)GTT>ATT	p.V404I	NOMO3_uc002dep.2_Missense_Mutation_p.V404I|NOMO3_uc010bvp.1_Missense_Mutation_p.V237I	NM_001004067	NP_001004067	P69849	NOMO3_HUMAN	nodal modulator 3 precursor	404	Extracellular (Potential).					integral to membrane	carbohydrate binding|carboxypeptidase activity				0				UCEC - Uterine corpus endometrioid carcinoma (3;0.123)		GGCTGACATTGTTGCAACAGG	0.473													5	87	---	---	---	---	PASS
ZNF629	23361	broad.mit.edu	37	16	30794665	30794665	+	Silent	SNP	G	T	T			TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr16:30794665G>T	uc002dzs.1	-	3	1192	c.984C>A	c.(982-984)ATC>ATA	p.I328I		NM_001080417	NP_001073886	Q9UEG4	ZN629_HUMAN	zinc finger protein 629	328	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			Colorectal(24;0.198)			CCGAGCTCTGGATGAAGCTCT	0.637													4	76	---	---	---	---	PASS
MIR1826	100302162	broad.mit.edu	37	16	33965563	33965563	+	RNA	SNP	C	T	T	rs142154618	by1000genomes	TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr16:33965563C>T	hsa-mir-1826|MI0008194	+			c.56C>T																				0						CAGGGCTTTGCCTGTCTGAGC	0.617													4	34	---	---	---	---	PASS
C16orf3	750	broad.mit.edu	37	16	90095561	90095561	+	Missense_Mutation	SNP	C	T	T	rs3785183	by1000genomes	TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr16:90095561C>T	uc002fqk.1	-	1	749	c.190G>A	c.(190-192)GTA>ATA	p.V64I	GAS8_uc010vps.1_Intron|GAS8_uc002fqh.2_Intron|GAS8_uc010vpt.1_Intron|GAS8_uc010vpu.1_Intron|GAS8_uc010vpv.1_Intron|GAS8_uc010cjc.1_Intron|GAS8_uc002fqi.1_Intron|GAS8_uc010vpw.1_Intron|GAS8_uc002fqj.1_Intron	NM_001214	NP_001205	O95177	CP003_HUMAN	hypothetical protein LOC750	72											0		all_cancers(9;9.01e-08)|Hepatocellular(780;0.000325)|Lung NSC(15;0.0104)|all_lung(18;0.0239)		BRCA - Breast invasive adenocarcinoma(80;0.0272)		gggcagcctacggggcaggct	0.363													11	15	---	---	---	---	PASS
PEMT	10400	broad.mit.edu	37	17	17409560	17409560	+	Missense_Mutation	SNP	C	T	T	rs7946	byFrequency	TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr17:17409560C>T	uc002grj.2	-	6	590	c.523G>A	c.(523-525)GTG>ATG	p.V175M	PEMT_uc002grk.2_Missense_Mutation_p.V175M|PEMT_uc002grl.2_Missense_Mutation_p.V212M|PEMT_uc010vwx.1_Missense_Mutation_p.S222N	NM_148173	NP_680478	Q9UBM1	PEMT_HUMAN	phosphatidylethanolamine N-methyltransferase	175	Helical; (Potential).				cell proliferation|phosphatidylcholine biosynthetic process	endoplasmic reticulum membrane|integral to membrane|mitochondrial membrane	phosphatidylethanolamine N-methyltransferase activity				0				Colorectal(2;0.0157)|READ - Rectum adenocarcinoma(2;0.0891)		AGGAGAGCCACTATGTAGGTG	0.657													6	6	---	---	---	---	PASS
CDC27	996	broad.mit.edu	37	17	45234749	45234749	+	Silent	SNP	A	C	C	rs148497428		TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr17:45234749A>C	uc002ild.3	-	6	604	c.477T>G	c.(475-477)GGT>GGG	p.G159G	CDC27_uc002ile.3_Silent_p.G159G|CDC27_uc002ilf.3_Silent_p.G159G|CDC27_uc010wkp.1_Silent_p.G98G|CDC27_uc010wkq.1_RNA	NM_001256	NP_001247	P30260	CDC27_HUMAN	cell division cycle protein 27 isoform 2	159					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell proliferation|mitotic cell cycle spindle assembly checkpoint|mitotic metaphase/anaphase transition|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|centrosome|cytosol|nucleoplasm|spindle microtubule	protein phosphatase binding			lung(2)|breast(2)|ovary(1)	5						CTGGCTTTTCACCTGTGAAGA	0.358													10	30	---	---	---	---	PASS
CATSPERG	57828	broad.mit.edu	37	19	38851455	38851455	+	Missense_Mutation	SNP	A	C	C			TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr19:38851455A>C	uc002oih.3	+	16	1939	c.1852A>C	c.(1852-1854)ACC>CCC	p.T618P	CATSPERG_uc002oig.3_Missense_Mutation_p.T578P|CATSPERG_uc002oif.3_Missense_Mutation_p.T258P|CATSPERG_uc010efw.2_RNA	NM_021185	NP_067008	Q6ZRH7	CTSRG_HUMAN	cation channel, sperm-associated, gamma	618	Extracellular (Potential).				cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane				ovary(1)|skin(1)	2						TCAACAGCACACCAGCCACTA	0.478													5	12	---	---	---	---	PASS
SIGLEC16	400709	broad.mit.edu	37	19	50473221	50473221	+	RNA	SNP	T	C	C	rs117072442	by1000genomes	TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr19:50473221T>C	uc002prf.2	+	2		c.240T>C			SIGLEC16_uc010ybj.1_5'Flank|uc010ybk.1_5'Flank	NR_002825				Homo sapiens cDNA FLJ50062 complete cds, highly similar to Sialic acid-binding Ig-like lectin 11 precursor.												0						GTTCAAAGGATGGACCAGCCC	0.602													5	86	---	---	---	---	PASS
LOC96610	96610	broad.mit.edu	37	22	23029608	23029608	+	RNA	SNP	T	C	C			TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr22:23029608T>C	uc011aim.1	+	128		c.8247T>C								Parts of antibodies, mostly variable regions.												0						ATAAAGACAGTGAGAGGCCCT	0.542													6	98	---	---	---	---	PASS
PRRG1	5638	broad.mit.edu	37	X	37285150	37285150	+	Missense_Mutation	SNP	G	A	A			TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chrX:37285150G>A	uc004ddn.2	+	4	321	c.68G>A	c.(67-69)GGG>GAG	p.G23E	PRRG1_uc004ddo.2_Missense_Mutation_p.G23E|PRRG1_uc010ngx.1_RNA	NM_000950	NP_000941	O14668	TMG1_HUMAN	proline rich Gla (G-carboxyglutamic acid) 1	23	Gla.|Extracellular (Potential).					extracellular region|integral to plasma membrane	calcium ion binding			ovary(1)|breast(1)	2						AGAGCTAATGGGTTTTTTGAA	0.338													4	32	---	---	---	---	PASS
MID1IP1	58526	broad.mit.edu	37	X	38664272	38664272	+	Missense_Mutation	SNP	G	A	A			TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chrX:38664272G>A	uc004dei.3	+	3	497	c.73G>A	c.(73-75)GTG>ATG	p.V25M	MID1IP1_uc010ngz.2_Missense_Mutation_p.V25M|MID1IP1_uc004dej.3_Missense_Mutation_p.V25M	NM_001098790	NP_001092260	Q9NPA3	M1IP1_HUMAN	MID1 interacting G12-like protein	25					lipid biosynthetic process|negative regulation of microtubule depolymerization|positive regulation of fatty acid biosynthetic process|positive regulation of ligase activity|protein polymerization	cytosol|microtubule|nucleus					0						CATTGGCGCCGTGAACAACAT	0.607													3	29	---	---	---	---	PASS
MAGEA12	4111	broad.mit.edu	37	X	151900633	151900633	+	Silent	SNP	G	A	A			TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chrX:151900633G>A	uc010ntp.2	-	3	522	c.168C>T	c.(166-168)GCC>GCT	p.A56A	MAGEA12_uc004fgb.2_Intron|MAGEA12_uc004fgc.2_Silent_p.A56A|CSAG1_uc004fge.2_5'Flank|CSAG1_uc004fgf.2_5'Flank|CSAG1_uc004fgd.2_5'Flank	NM_005367	NP_005358	P43365	MAGAC_HUMAN	melanoma antigen family A, 12	56										skin(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)					TTGGTGACTCGGCAGCAGGCA	0.612													24	59	---	---	---	---	PASS
PTPN14	5784	broad.mit.edu	37	1	214557049	214557051	+	In_Frame_Del	DEL	CCT	-	-			TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr1:214557049_214557051delCCT	uc001hkk.1	-	13	2418_2420	c.2147_2149delAGG	c.(2146-2151)GAGGCT>GCT	p.E716del	PTPN14_uc010pty.1_In_Frame_Del_p.E617del	NM_005401	NP_005392	Q15678	PTN14_HUMAN	protein tyrosine phosphatase, non-receptor type	716	Poly-Glu.				lymphangiogenesis	cytoplasm|cytoskeleton	protein tyrosine phosphatase activity|receptor tyrosine kinase binding			breast(2)|ovary(1)|kidney(1)|skin(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.00181)|all cancers(67;0.00194)|Epithelial(68;0.0157)|GBM - Glioblastoma multiforme(131;0.155)		GATTCTGGAGCCTCCTCCTCCTC	0.626													97	7	---	---	---	---	
ANKRD56	345079	broad.mit.edu	37	4	77818628	77818629	+	In_Frame_Ins	INS	-	CGC	CGC			TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr4:77818628_77818629insCGC	uc003hki.2	-	1	374_375	c.374_375insGCG	c.(373-375)CGC>CGGCGC	p.125_125R>RR		NM_001029870	NP_001025041	A6NEL2	ANR56_HUMAN	ankyrin repeat domain 56	125	Poly-Arg.										0						GCTCCTTCTCGCGCCGCCGCCG	0.792													3	3	---	---	---	---	
MALAT1	378938	broad.mit.edu	37	11	65273415	65273415	+	RNA	DEL	T	-	-			TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr11:65273415delT	uc010roh.1	+	1		c.8183delT			uc001ody.2_5'Flank	NR_002819				Homo sapiens clone alpha1 mRNA sequence.												0						CTGCTAAGACTTTTTCAGGTG	0.448													127	18	---	---	---	---	
ITPR2	3709	broad.mit.edu	37	12	26864155	26864156	+	Frame_Shift_Ins	INS	-	T	T			TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr12:26864155_26864156insT	uc001rhg.2	-	9	1318_1319	c.901_902insA	c.(901-903)AGCfs	p.S301fs		NM_002223	NP_002214	Q14571	ITPR2_HUMAN	inositol 1,4,5-triphosphate receptor, type 2	301	Cytoplasmic (Potential).|MIR 4.				activation of phospholipase C activity|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	integral to membrane|plasma membrane enriched fraction|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity			kidney(6)|ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	14	Colorectal(261;0.0847)					TCTGAACAAGCTGTTCCACTGT	0.416													74	7	---	---	---	---	
TXNDC11	51061	broad.mit.edu	37	16	11782231	11782236	+	In_Frame_Del	DEL	GGCAGA	-	-			TCGA-G9-6378-01A-11D-1786-08	TCGA-G9-6378-10A-01D-1786-08									Somatic	Phase_I	Capture				Illumina GAIIx	5e0102ae-f348-417d-b442-b660a411fd1a	812bc9a9-75fc-4ab0-99d7-8e2d45c17f4c	g.chr16:11782231_11782236delGGCAGA	uc010buu.1	-	10	2109_2114	c.2047_2052delTCTGCC	c.(2047-2052)TCTGCCdel	p.SA683del	TXNDC11_uc002dbg.1_In_Frame_Del_p.SA656del	NM_015914	NP_056998	Q6PKC3	TXD11_HUMAN	thioredoxin domain containing 11	683_684	Thioredoxin 2.				cell redox homeostasis	endoplasmic reticulum membrane|integral to membrane					0						ACGGGAACTGGGCAGAGCCACTTCCA	0.398													91	13	---	---	---	---	
