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
TNFRSF1B	7133	broad.mit.edu	37	1	12253005	12253005	+	Missense_Mutation	SNP	G	C	C			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:12253005G>C	uc001att.2	+	6	726	c.637G>C	c.(637-639)GCA>CCA	p.A213P	TNFRSF1B_uc001atu.2_Missense_Mutation_p.A18P|TNFRSF1B_uc009vnk.2_RNA	NM_001066	NP_001057	P20333	TNR1B_HUMAN	tumor necrosis factor receptor 2 precursor	213	Extracellular (Potential).				apoptosis	extracellular region|integral to membrane|membrane raft|plasma membrane	tumor necrosis factor receptor activity			liver(1)|central_nervous_system(1)|skin(1)	3	Ovarian(185;0.249)	Lung NSC(185;8.72e-05)|all_lung(284;9.92e-05)|Renal(390;0.000147)|Colorectal(325;0.000584)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0234)|Colorectal(212;5.52e-07)|COAD - Colon adenocarcinoma(227;0.000345)|BRCA - Breast invasive adenocarcinoma(304;0.000353)|Kidney(185;0.00102)|KIRC - Kidney renal clear cell carcinoma(229;0.00302)|STAD - Stomach adenocarcinoma(313;0.00815)|READ - Rectum adenocarcinoma(331;0.0284)	Etanercept(DB00005)|Infliximab(DB00065)	GGCCCCAGGGGCAGTACACTT	0.617													19	54	---	---	---	---	PASS
MST1P2	11209	broad.mit.edu	37	1	16975266	16975266	+	RNA	SNP	C	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:16975266C>T	uc010och.1	+	8		c.1635C>T			MST1P2_uc001azk.2_RNA|MST1P2_uc001azl.3_RNA|MST1P2_uc009vox.2_RNA|MST1P2_uc001azm.3_RNA	NR_027504				Homo sapiens cDNA FLJ43241 fis, clone HEART1000010, weakly  similar to Hepatocyte growth factor-like protein precursor.												0						GACCAGCCGCCATCAATCCTG	0.587													6	179	---	---	---	---	PASS
ACTL8	81569	broad.mit.edu	37	1	18152501	18152501	+	Silent	SNP	C	G	G			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:18152501C>G	uc001bat.2	+	3	804	c.588C>G	c.(586-588)CGC>CGG	p.R196R		NM_030812	NP_110439	Q9H568	ACTL8_HUMAN	actin-like 8	196						cytoplasm|cytoskeleton				ovary(4)	4		Colorectal(325;0.000147)|Renal(390;0.00145)|Breast(348;0.00186)|all_lung(284;0.0054)|Lung NSC(340;0.00566)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00583)|BRCA - Breast invasive adenocarcinoma(304;6.43e-06)|Kidney(64;0.000258)|KIRC - Kidney renal clear cell carcinoma(64;0.00348)|STAD - Stomach adenocarcinoma(196;0.00652)|READ - Rectum adenocarcinoma(331;0.0698)|Lung(427;0.201)		GCGATAGACGCTGCCTGTTTC	0.597											OREG0013157	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	63	---	---	---	---	PASS
RIMS3	9783	broad.mit.edu	37	1	41101634	41101634	+	Missense_Mutation	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:41101634G>A	uc001cfu.1	-	4	782	c.313C>T	c.(313-315)CGG>TGG	p.R105W	RIMS3_uc001cfv.1_Missense_Mutation_p.R105W	NM_014747	NP_055562	Q9UJD0	RIMS3_HUMAN	regulating synaptic membrane exocytosis 3	105					neurotransmitter transport	cell junction|synapse					0	Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1.47e-17)			GTGGACTCCCGGCTGCCCTGG	0.682													7	91	---	---	---	---	PASS
ELAVL4	1996	broad.mit.edu	37	1	50666658	50666658	+	Silent	SNP	T	C	C			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:50666658T>C	uc001csb.2	+	7	1219	c.951T>C	c.(949-951)TTT>TTC	p.F317F	ELAVL4_uc001cry.3_Silent_p.F306F|ELAVL4_uc001crz.3_Silent_p.F303F|ELAVL4_uc001csa.3_Silent_p.F320F|ELAVL4_uc001csc.3_Silent_p.F303F|ELAVL4_uc010omz.1_Silent_p.F308F	NM_021952	NP_068771	P26378	ELAV4_HUMAN	ELAV-like 4 isoform 1	317	RRM 3.				mRNA processing		AU-rich element binding|mRNA 3'-UTR binding|nucleotide binding			ovary(1)|pancreas(1)	2						GGCAGCTCTTTGGCCCCTTTG	0.507													34	123	---	---	---	---	PASS
BSND	7809	broad.mit.edu	37	1	55464829	55464829	+	5'UTR	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:55464829G>A	uc001cye.2	+	1						NM_057176	NP_476517	Q8WZ55	BSND_HUMAN	barttin							basolateral plasma membrane|cytoplasm|integral to plasma membrane|protein complex				ovary(1)|skin(1)	2						CTCTCCCGGGGGTGTGCAGGC	0.597													26	78	---	---	---	---	PASS
LHX8	431707	broad.mit.edu	37	1	75622760	75622760	+	Missense_Mutation	SNP	T	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:75622760T>A	uc001dgo.2	+	9	1657	c.993T>A	c.(991-993)GAT>GAA	p.D331E	LHX8_uc001dgq.2_Missense_Mutation_p.D270E	NM_001001933	NP_001001933	Q68G74	LHX8_HUMAN	LIM homeobox 8	331						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						GTTATATGGATGGTAGGTATC	0.418													57	58	---	---	---	---	PASS
HFM1	164045	broad.mit.edu	37	1	91739336	91739336	+	Missense_Mutation	SNP	C	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:91739336C>A	uc001doa.3	-	34	3805	c.3705G>T	c.(3703-3705)ATG>ATT	p.M1235I	HFM1_uc009wdb.2_RNA|HFM1_uc010osu.1_Missense_Mutation_p.M914I|HFM1_uc001dob.3_Missense_Mutation_p.M423I|HFM1_uc010osv.1_Missense_Mutation_p.M919I	NM_001017975	NP_001017975	A2PYH4	HFM1_HUMAN	HFM1 protein	1235							ATP binding|ATP-dependent helicase activity|nucleic acid binding				0		all_lung(203;0.00961)|Lung NSC(277;0.0351)		all cancers(265;0.000481)|Epithelial(280;0.00863)|OV - Ovarian serous cystadenocarcinoma(397;0.126)|KIRC - Kidney renal clear cell carcinoma(1967;0.171)		CCCACTGCTCCATTATAGGCA	0.308													14	164	---	---	---	---	PASS
LPPR4	9890	broad.mit.edu	37	1	99772549	99772549	+	Silent	SNP	C	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:99772549C>A	uc001dse.2	+	7	2381	c.2275C>A	c.(2275-2277)CGG>AGG	p.R759R	LPPR4_uc010oue.1_Silent_p.R701R	NM_014839	NP_055654	Q7Z2D5	LPPR4_HUMAN	plasticity related gene 1	759							phosphatidate phosphatase activity			ovary(3)	3		all_epithelial(167;3.54e-06)|all_lung(203;0.00139)|Lung NSC(277;0.00202)		Epithelial(280;0.0736)|all cancers(265;0.0975)|COAD - Colon adenocarcinoma(174;0.142)|Lung(183;0.201)|Colorectal(170;0.22)		CTCCCCCACACGGGCTTATAA	0.458													83	111	---	---	---	---	PASS
S1PR1	1901	broad.mit.edu	37	1	101704696	101704696	+	Missense_Mutation	SNP	C	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:101704696C>A	uc001dud.2	+	2	670	c.156C>A	c.(154-156)TTC>TTA	p.F52L	S1PR1_uc009weg.2_Missense_Mutation_p.F52L	NM_001400	NP_001391	P21453	S1PR1_HUMAN	sphingosine-1-phosphate receptor 1	52	Helical; Name=1; (By similarity).				cell adhesion	integral to membrane	lysosphingolipid and lysophosphatidic acid receptor activity			ovary(2)|lung(1)	3						CGGTGGTGTTCATTCTCATCT	0.438											OREG0013620	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	55	107	---	---	---	---	PASS
S1PR1	1901	broad.mit.edu	37	1	101704697	101704697	+	Missense_Mutation	SNP	A	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:101704697A>T	uc001dud.2	+	2	671	c.157A>T	c.(157-159)ATT>TTT	p.I53F	S1PR1_uc009weg.2_Missense_Mutation_p.I53F	NM_001400	NP_001391	P21453	S1PR1_HUMAN	sphingosine-1-phosphate receptor 1	53	Helical; Name=1; (By similarity).				cell adhesion	integral to membrane	lysosphingolipid and lysophosphatidic acid receptor activity			ovary(2)|lung(1)	3						GGTGGTGTTCATTCTCATCTG	0.438											OREG0013620	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	55	104	---	---	---	---	PASS
GPR61	83873	broad.mit.edu	37	1	110085756	110085756	+	Missense_Mutation	SNP	G	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:110085756G>T	uc001dxy.2	+	2	795	c.112G>T	c.(112-114)GAT>TAT	p.D38Y		NM_031936	NP_114142	Q9BZJ8	GPR61_HUMAN	G protein-coupled receptor 61	38	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(2)	2		all_epithelial(167;2.83e-05)|all_lung(203;0.00016)|Lung NSC(277;0.000318)|Breast(1374;0.244)		Lung(183;0.0426)|Colorectal(144;0.11)|Epithelial(280;0.128)|all cancers(265;0.132)|LUSC - Lung squamous cell carcinoma(189;0.228)		GGGGCTACGGGATGTTGCTTC	0.612													32	206	---	---	---	---	PASS
CHRNB2	1141	broad.mit.edu	37	1	154548504	154548504	+	3'UTR	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:154548504G>A	uc001ffg.2	+	6						NM_000748	NP_000739	P17787	ACHB2_HUMAN	neuronal nicotinic acetylcholine receptor beta 2						B cell activation|behavioral response to nicotine|calcium ion transport|central nervous system projection neuron axonogenesis|lateral geniculate nucleus development|locomotory behavior|membrane depolarization|memory|negative regulation of action potential|optic nerve morphogenesis|positive regulation of B cell proliferation|positive regulation of dopamine secretion|regulation of circadian sleep/wake cycle, REM sleep|regulation of dendrite morphogenesis|regulation of dopamine metabolic process|regulation of synaptogenesis|response to cocaine|response to ethanol|response to hypoxia|sensory perception of pain|sensory perception of sound|smooth muscle contraction|social behavior|synaptic transmission involved in micturition|synaptic transmission, cholinergic|vestibulocochlear nerve development|visual learning|visual perception	cell junction|external side of plasma membrane|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity				0	all_lung(78;2.22e-29)|Lung NSC(65;3.66e-27)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		LUSC - Lung squamous cell carcinoma(543;0.185)		Nicotine(DB00184)	AGGAAGAGGGGCGCTGCCCCC	0.597													13	35	---	---	---	---	PASS
GON4L	54856	broad.mit.edu	37	1	155755107	155755107	+	Intron	SNP	T	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:155755107T>A	uc001flz.2	-						GON4L_uc001fly.1_Intron|GON4L_uc009wrh.1_Intron|GON4L_uc001fma.1_Intron|GON4L_uc001fmc.2_Intron|GON4L_uc001fmd.3_Intron|GON4L_uc009wri.2_Intron|GON4L_uc009wrj.1_Intron|GON4L_uc001fme.2_Intron|GON4L_uc001fmf.2_Silent_p.R296R	NM_001037533	NP_001032622	Q3T8J9	GON4L_HUMAN	gon-4-like isoform a						regulation of transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(3)	3	Hepatocellular(266;0.0997)|all_hematologic(923;0.145)|all_neural(408;0.195)					GTGTTCTCACTCGAGGATCAT	0.428													32	131	---	---	---	---	PASS
BGLAP	632	broad.mit.edu	37	1	156212941	156212941	+	Nonsense_Mutation	SNP	C	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:156212941C>A	uc001fnt.2	+	4	363	c.291C>A	c.(289-291)TAC>TAA	p.Y97*	BGLAP_uc001fns.1_3'UTR	NM_199173	NP_954642	P02818	OSTCN_HUMAN	osteocalcin preproprotein	97	Gla.				bone mineralization|cell adhesion|odontogenesis|regulation of bone mineralization|regulation of bone resorption|regulation of osteoclast differentiation		calcium ion binding|hydroxyapatite binding|structural constituent of bone				0	Hepatocellular(266;0.158)				Phytonadione(DB01022)	GGCGCTTCTACGGCCCGGTCT	0.637													48	143	---	---	---	---	PASS
SPTA1	6708	broad.mit.edu	37	1	158631163	158631163	+	Missense_Mutation	SNP	C	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:158631163C>T	uc001fst.1	-	18	2700	c.2501G>A	c.(2500-2502)AGG>AAG	p.R834K		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	834	Spectrin 9.				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)					GACTCTATGCCTATTCAGAAG	0.423													36	140	---	---	---	---	PASS
OR6K2	81448	broad.mit.edu	37	1	158670235	158670235	+	Nonsense_Mutation	SNP	C	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:158670235C>A	uc001fsu.1	-	1	208	c.208G>T	c.(208-210)GAG>TAG	p.E70*		NM_001005279	NP_001005279	Q8NGY2	OR6K2_HUMAN	olfactory receptor, family 6, subfamily K,	70	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_hematologic(112;0.0378)					TACCAAATCTCCAGGAAAGAA	0.433													11	62	---	---	---	---	PASS
OR6K2	81448	broad.mit.edu	37	1	158670236	158670236	+	Silent	SNP	C	G	G			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:158670236C>G	uc001fsu.1	-	1	207	c.207G>C	c.(205-207)CTG>CTC	p.L69L		NM_001005279	NP_001005279	Q8NGY2	OR6K2_HUMAN	olfactory receptor, family 6, subfamily K,	69	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_hematologic(112;0.0378)					ACCAAATCTCCAGGAAAGAAA	0.438													12	62	---	---	---	---	PASS
OR6N1	128372	broad.mit.edu	37	1	158736303	158736303	+	Missense_Mutation	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:158736303G>A	uc010piq.1	-	1	170	c.170C>T	c.(169-171)ACA>ATA	p.T57I		NM_001005185	NP_001005185	Q8NGY5	OR6N1_HUMAN	olfactory receptor, family 6, subfamily N,	57	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					GTACATGGGTGTGTGAAGCCG	0.483													29	98	---	---	---	---	PASS
NIT1	4817	broad.mit.edu	37	1	161090591	161090591	+	3'UTR	SNP	A	C	C			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:161090591A>C	uc001fxv.1	+	7					PFDN2_uc001fxu.2_5'Flank|NIT1_uc001fxw.2_Intron|NIT1_uc001fxx.1_3'UTR|NIT1_uc001fxy.1_3'UTR|NIT1_uc010pka.1_3'UTR	NM_005600	NP_005591	Q86X76	NIT1_HUMAN	nitrilase 1						nitrogen compound metabolic process	mitochondrion	nitrilase activity				0	all_cancers(52;3.39e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00165)			TGCCCCTCCCACCCCCACCCT	0.557													4	13	---	---	---	---	PASS
MR1	3140	broad.mit.edu	37	1	181018369	181018369	+	Silent	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:181018369G>A	uc001goq.1	+	2	254	c.249G>A	c.(247-249)AGG>AGA	p.R83R	MR1_uc001gop.2_Silent_p.R83R|MR1_uc001gor.1_Silent_p.R83R|MR1_uc001gos.1_Silent_p.R83R|MR1_uc010pns.1_Silent_p.R83R	NM_001531	NP_001522	Q95460	HMR1_HUMAN	major histocompatibility complex, class	83	Extracellular (Potential).|Ligand-binding.|Alpha-1.				antigen processing and presentation of peptide antigen via MHC class I|immune response	endoplasmic reticulum|extracellular region|integral to membrane|MHC class I protein complex	MHC class I receptor activity			skin(1)	1						ACTGGGAGAGGTACACTCAGC	0.582													14	47	---	---	---	---	PASS
CACNA1E	777	broad.mit.edu	37	1	181725138	181725138	+	Missense_Mutation	SNP	C	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:181725138C>T	uc001gow.2	+	29	4201	c.4036C>T	c.(4036-4038)CGG>TGG	p.R1346W	CACNA1E_uc009wxs.2_Missense_Mutation_p.R1234W|CACNA1E_uc001gox.1_Missense_Mutation_p.R572W|CACNA1E_uc009wxt.2_Missense_Mutation_p.R572W	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	1346	Extracellular (Potential).|III.				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						GGTGAAGGGCCGGGAATGGAA	0.493													11	51	---	---	---	---	PASS
TROVE2	6738	broad.mit.edu	37	1	193038543	193038543	+	Missense_Mutation	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:193038543G>A	uc001gss.2	+	2	534	c.359G>A	c.(358-360)CGC>CAC	p.R120H	TROVE2_uc001gst.1_Intron|TROVE2_uc001gsu.1_Intron|TROVE2_uc001gsv.1_Missense_Mutation_p.R120H|TROVE2_uc001gsw.2_Missense_Mutation_p.R120H|TROVE2_uc009wyp.2_Missense_Mutation_p.R120H|TROVE2_uc009wyq.2_Missense_Mutation_p.R120H|TROVE2_uc001gsx.1_Missense_Mutation_p.R120H	NM_004600	NP_004591	P10155	RO60_HUMAN	TROVE domain family, member 2 isoform 2	120	TROVE.				transcription from RNA polymerase III promoter	cytoplasm|nucleus|ribonucleoprotein complex	protein binding|RNA binding				0						GAAGTTTGTCGCATTCCTACC	0.448													26	66	---	---	---	---	PASS
CFH	3075	broad.mit.edu	37	1	196658607	196658607	+	Missense_Mutation	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:196658607G>A	uc001gtj.3	+	8	1262	c.1022G>A	c.(1021-1023)CGT>CAT	p.R341H	CFH_uc001gti.3_Missense_Mutation_p.R341H|CFH_uc009wyw.2_Intron|CFH_uc009wyx.2_Missense_Mutation_p.R277H	NM_000186	NP_000177	P08603	CFAH_HUMAN	complement factor H isoform a precursor	341	Sushi 6.				complement activation, alternative pathway	extracellular space				skin(4)|ovary(1)|breast(1)	6						GAGAATATGCGTAGACCATAC	0.323													20	86	---	---	---	---	PASS
MFSD4	148808	broad.mit.edu	37	1	205538365	205538365	+	Silent	SNP	C	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:205538365C>T	uc001hcv.3	+	1	254	c.168C>T	c.(166-168)GTC>GTT	p.V56V	MFSD4_uc010prk.1_Silent_p.V56V|MFSD4_uc010prl.1_RNA	NM_181644	NP_857595	Q8N468	MFSD4_HUMAN	major facilitator superfamily domain containing	56	Helical; (Potential).				transmembrane transport	integral to membrane				skin(2)|central_nervous_system(1)	3	Breast(84;0.07)		BRCA - Breast invasive adenocarcinoma(75;0.0908)			TCTCCTGGGTCTTCTTCTCGC	0.602													6	14	---	---	---	---	PASS
RPS7	6201	broad.mit.edu	37	2	3627748	3627748	+	Silent	SNP	C	T	T	rs149082052		TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:3627748C>T	uc002qxw.2	+	6	511	c.405C>T	c.(403-405)TTC>TTT	p.F135F	RPS7_uc002qxy.2_RNA	NM_001011	NP_001002	P62081	RS7_HUMAN	ribosomal protein S7	135					endocrine pancreas development|ribosomal small subunit biogenesis|rRNA processing|translational elongation|translational termination|viral transcription	90S preribosome|cytosolic small ribosomal subunit|nucleolus|small-subunit processome	protein binding|RNA binding|structural constituent of ribosome				0	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.093)			OV - Ovarian serous cystadenocarcinoma(76;0.0963)|Epithelial(75;0.208)		ACTTGGTCTTCCCAAGCGAAA	0.493													67	94	---	---	---	---	PASS
MYCN	4613	broad.mit.edu	37	2	16085629	16085629	+	Nonsense_Mutation	SNP	G	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:16085629G>T	uc002rci.2	+	3	1105	c.805G>T	c.(805-807)GAA>TAA	p.E269*	MYCN_uc010yjr.1_Nonsense_Mutation_p.E261*	NM_005378	NP_005369	P04198	MYCN_HUMAN	v-myc myelocytomatosis viral related oncogene,	269	Asp/Glu-rich (acidic).				regulation of transcription from RNA polymerase II promoter	chromatin|nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	5	all_cancers(1;1.35e-08)|all_neural(1;2.92e-24)|Lung SC(1;3.26e-07)|Medulloblastoma(1;6.9e-06)|all_lung(1;1.26e-05)|Glioma(3;0.135)|Acute lymphoblastic leukemia(172;0.155)|all_epithelial(1;0.169)|all_hematologic(175;0.197)		GBM - Glioblastoma multiforme(3;0.000332)			tgaagatgatgaagaggaaga	0.348			A		neuroblastoma								3	32	---	---	---	---	PASS
GTF3C2	2976	broad.mit.edu	37	2	27551030	27551030	+	Silent	SNP	C	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:27551030C>T	uc002rjv.1	-	18	2646	c.2283G>A	c.(2281-2283)CCG>CCA	p.P761P	MPV17_uc002rjt.2_5'Flank|GTF3C2_uc010eyy.1_Silent_p.P216P|GTF3C2_uc002rju.1_Silent_p.P772P|GTF3C2_uc002rjw.1_Silent_p.P761P	NM_001521	NP_001512	Q8WUA4	TF3C2_HUMAN	general transcription factor IIIC, polypeptide	761						transcription factor TFIIIC complex				ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TGTCCTGATACGGTATCAGAT	0.443													28	53	---	---	---	---	PASS
SNRNP200	23020	broad.mit.edu	37	2	96949982	96949982	+	Intron	SNP	A	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:96949982A>T	uc002svu.2	-						SNRNP200_uc002svt.2_Intron|SNRNP200_uc010yuj.1_Intron|SNRNP200_uc002svv.1_5'UTR	NM_014014	NP_054733	O75643	U520_HUMAN	activating signal cointegrator 1 complex subunit							catalytic step 2 spliceosome|nucleoplasm|U5 snRNP	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			ovary(5)|skin(4)|large_intestine(1)	10						CAGCAGGTAGAATCCTCTGGG	0.507													7	8	---	---	---	---	PASS
C2orf40	84417	broad.mit.edu	37	2	106694282	106694282	+	Missense_Mutation	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:106694282G>A	uc010fjf.2	+	4	455	c.347G>A	c.(346-348)GGC>GAC	p.G116D		NM_032411	NP_115787	Q9H1Z8	AUGN_HUMAN	esophageal cancer related gene 4 protein	116						extracellular region|transport vesicle					0						GAATACTATGGCGATTACTAC	0.433													40	64	---	---	---	---	PASS
WASH2P	375260	broad.mit.edu	37	2	114355998	114355998	+	Missense_Mutation	SNP	C	G	G			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:114355998C>G	uc002tkh.2	+	5	674	c.616C>G	c.(616-618)CAC>GAC	p.H206D	WASH2P_uc002tka.2_RNA|WASH2P_uc002tkb.2_RNA|WASH2P_uc002tkd.2_RNA	NM_182905	NP_878908			WAS protein family homolog 1												0						CCAAGGTGGGCACTTGATGTC	0.612													3	13	---	---	---	---	PASS
CXCR4	7852	broad.mit.edu	37	2	136872564	136872564	+	Missense_Mutation	SNP	A	C	C			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:136872564A>C	uc002tuz.2	-	2	1029	c.934T>G	c.(934-936)TCT>GCT	p.S312A	CXCR4_uc002tuy.2_Missense_Mutation_p.S316A|CXCR4_uc010fnk.2_Missense_Mutation_p.S297A	NM_003467	NP_003458	P61073	CXCR4_HUMAN	chemokine (C-X-C motif) receptor 4 isoform b	312	Cytoplasmic.				activation of MAPK activity|apoptosis|dendritic cell chemotaxis|elevation of cytosolic calcium ion concentration|entry into host cell|inflammatory response|initiation of viral infection|regulation of chemotaxis|response to hypoxia|response to virus	cell leading edge|cell surface|cytoplasmic membrane-bounded vesicle|integral to membrane|plasma membrane	actin binding|C-X-C chemokine receptor activity|coreceptor activity|myosin light chain binding|ubiquitin binding|ubiquitin protein ligase binding			upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.155)	Framycetin(DB00452)	TGCTGGGCAGAGGTTTTAAAT	0.512													340	531	---	---	---	---	PASS
THSD7B	80731	broad.mit.edu	37	2	138414424	138414424	+	Silent	SNP	T	C	C			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:138414424T>C	uc002tva.1	+	22	4077	c.4077T>C	c.(4075-4077)GAT>GAC	p.D1359D	THSD7B_uc010zbj.1_Intron	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		CCTGCATTGATGGAAGAAGCT	0.453													24	38	---	---	---	---	PASS
LRP1B	53353	broad.mit.edu	37	2	141283905	141283905	+	Missense_Mutation	SNP	T	C	C			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:141283905T>C	uc002tvj.1	-	48	8749	c.7777A>G	c.(7777-7779)ACG>GCG	p.T2593A		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2593	Extracellular (Potential).|LDL-receptor class A 13.				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)		AACTCAACCGTGGCACAGGTT	0.388										TSP Lung(27;0.18)			29	42	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179472164	179472164	+	Missense_Mutation	SNP	C	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179472164C>T	uc010zfg.1	-	226	45771	c.45547G>A	c.(45547-45549)GGT>AGT	p.G15183S	uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.G8878S|TTN_uc010zfi.1_Missense_Mutation_p.G8811S|TTN_uc010zfj.1_Missense_Mutation_p.G8686S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	16110							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AATTTGGAACCACAGCTATTT	0.378													81	129	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179583684	179583684	+	Missense_Mutation	SNP	T	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179583684T>A	uc010zfg.1	-	81	20735	c.20511A>T	c.(20509-20511)GAA>GAT	p.E6837D	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.E3498D	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	7764							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CAGGGGTTTGTTCAAAAGATG	0.448													10	11	---	---	---	---	PASS
ABCA12	26154	broad.mit.edu	37	2	215854127	215854127	+	Nonsense_Mutation	SNP	C	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:215854127C>T	uc002vew.2	-	26	3975	c.3755G>A	c.(3754-3756)TGG>TAG	p.W1252*	ABCA12_uc002vev.2_Nonsense_Mutation_p.W934*|ABCA12_uc010zjn.1_Nonsense_Mutation_p.W179*	NM_173076	NP_775099	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A, member 12	1252	Helical; (Potential).				cellular homeostasis|lipid transport	integral to membrane	ATP binding|ATPase activity			ovary(6)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	11		Renal(323;0.127)		Epithelial(149;1.01e-05)|all cancers(144;0.00112)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		ACAGCACAGCCAGCCAAATGA	0.428													39	65	---	---	---	---	PASS
SLC19A3	80704	broad.mit.edu	37	2	228552068	228552068	+	3'UTR	SNP	T	G	G			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:228552068T>G	uc002vpi.2	-	6					SLC19A3_uc002vpj.2_RNA|SLC19A3_uc010zlv.1_3'UTR	NM_025243	NP_079519	Q9BZV2	S19A3_HUMAN	solute carrier family 19, member 3						thiamine-containing compound metabolic process	integral to membrane|plasma membrane	folic acid binding|reduced folate carrier activity|thiamine uptake transmembrane transporter activity			ovary(2)	2		Renal(207;0.0112)|all_lung(227;0.0335)|Lung NSC(271;0.142)|all_hematologic(139;0.21)|Esophageal squamous(248;0.236)		Epithelial(121;1.58e-10)|all cancers(144;8.55e-08)|Lung(261;0.00948)|LUSC - Lung squamous cell carcinoma(224;0.0125)	L-Cysteine(DB00151)	CTTTCCTTATTATTGCATAAC	0.393													26	51	---	---	---	---	PASS
TMPPE	643853	broad.mit.edu	37	3	33135765	33135765	+	5'UTR	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:33135765G>A	uc003cfk.2	-	2					GLB1_uc003cfh.1_Intron|GLB1_uc003cfi.1_Intron|GLB1_uc003cfj.1_Intron|GLB1_uc011axk.1_Intron|TMPPE_uc011axl.1_Intron	NM_001039770	NP_001034859	Q6ZT21	TMPPE_HUMAN	transmembrane protein with							integral to membrane	metal ion binding				0						AAAGGACAGTGGCCAAGGAGA	0.512													9	28	---	---	---	---	PASS
CCBP2	1238	broad.mit.edu	37	3	42906025	42906025	+	Missense_Mutation	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:42906025G>A	uc003cme.2	+	3	210	c.31G>A	c.(31-33)GCC>ACC	p.A11T	CCBP2_uc003cmd.1_Missense_Mutation_p.A11T|CCBP2_uc003cmf.2_Missense_Mutation_p.A11T|CCBP2_uc003cmg.2_Intron|CYP8B1_uc010hif.2_Intron	NM_001296	NP_001287	O00590	CCBP2_HUMAN	chemokine binding protein 2	11	Extracellular (Potential).				chemotaxis|immune response|multicellular organismal development	integral to plasma membrane	C-X-C chemokine receptor activity			lung(4)|skin(1)	5				KIRC - Kidney renal clear cell carcinoma(284;0.241)		GCAGCCACTCGCCACTGAGGA	0.542													30	41	---	---	---	---	PASS
RASSF1	11186	broad.mit.edu	37	3	50369047	50369047	+	Missense_Mutation	SNP	C	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:50369047C>T	uc003dad.1	-	4	846	c.715G>A	c.(715-717)GTG>ATG	p.V239M	RASSF1_uc003daa.1_Missense_Mutation_p.V84M|RASSF1_uc003dab.1_Missense_Mutation_p.V165M|RASSF1_uc003dac.2_Missense_Mutation_p.V84M|RASSF1_uc003dae.1_Missense_Mutation_p.V235M|RASSF1_uc010hlk.1_RNA|RASSF1_uc003daf.1_Missense_Mutation_p.V84M	NM_170714	NP_733832	Q9NS23	RASF1_HUMAN	Ras association domain family 1 isoform D	239	Ras-associating.				cell cycle arrest|negative regulation of cell cycle arrest|positive regulation of protein ubiquitination|protein stabilization|Ras protein signal transduction|response to DNA damage stimulus	microtubule|microtubule cytoskeleton|microtubule organizing center|nucleus|spindle pole	identical protein binding|protein binding|protein N-terminus binding|zinc ion binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000278)|OV - Ovarian serous cystadenocarcinoma(275;0.0015)|KIRC - Kidney renal clear cell carcinoma(197;0.00551)|Kidney(197;0.00621)		TCATCCACCACCAAGAACTTT	0.577													16	114	---	---	---	---	PASS
WDR52	55779	broad.mit.edu	37	3	113145001	113145001	+	Nonsense_Mutation	SNP	G	C	C			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:113145001G>C	uc003eae.1	-	4	423	c.377C>G	c.(376-378)TCA>TGA	p.S126*		NM_018338	NP_060808	Q96MT7	WDR52_HUMAN	WD repeat domain 52 isoform 2	126										central_nervous_system(1)	1						TGGTATGTTTGAATCCAGAGT	0.353													122	219	---	---	---	---	PASS
C3orf30	152405	broad.mit.edu	37	3	118870222	118870222	+	3'UTR	SNP	G	C	C	rs73185896	by1000genomes	TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:118870222G>C	uc003ecb.1	+	3						NM_152539	NP_689752	Q96M34	CC030_HUMAN	hypothetical protein LOC152405											ovary(2)	2				GBM - Glioblastoma multiforme(114;0.222)		aacaaagtacgtacaactctg	0.080													3	48	---	---	---	---	PASS
ARGFX	503582	broad.mit.edu	37	3	121305213	121305213	+	Missense_Mutation	SNP	T	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:121305213T>A	uc003eef.2	+	5	809	c.714T>A	c.(712-714)GAT>GAA	p.D238E		NM_001012659	NP_001012677	A6NJG6	ARGFX_HUMAN	arginine-fifty homeobox	238						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(2)|ovary(1)	3				GBM - Glioblastoma multiforme(114;0.152)		ATCTTCCTGATGAGAATGAGA	0.463													63	112	---	---	---	---	PASS
FBXO40	51725	broad.mit.edu	37	3	121345737	121345737	+	Nonsense_Mutation	SNP	C	T	T	rs139292085		TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:121345737C>T	uc003eeg.2	+	4	2320	c.2110C>T	c.(2110-2112)CGA>TGA	p.R704*		NM_016298	NP_057382	Q9UH90	FBX40_HUMAN	F-box protein 40	704					muscle cell differentiation	centrosome|nucleus	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5				GBM - Glioblastoma multiforme(114;0.189)		AATCAGACCACGAGGAAGATA	0.483													31	62	---	---	---	---	PASS
H1FX	8971	broad.mit.edu	37	3	129034521	129034521	+	Missense_Mutation	SNP	C	G	G			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:129034521C>G	uc003elx.2	-	1	600	c.225G>C	c.(223-225)AAG>AAC	p.K75N	C3orf47_uc011bkv.1_5'Flank	NM_006026	NP_006017	Q92522	H1X_HUMAN	H1 histone family, member X	75	H15.				nucleosome assembly	nucleosome|nucleus	DNA binding				0						ACGGAACCTTCTTGGCCTCGG	0.617													9	5	---	---	---	---	PASS
H1FX	8971	broad.mit.edu	37	3	129034529	129034529	+	Missense_Mutation	SNP	C	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:129034529C>T	uc003elx.2	-	1	592	c.217G>A	c.(217-219)GAG>AAG	p.E73K	C3orf47_uc011bkv.1_5'Flank	NM_006026	NP_006017	Q92522	H1X_HUMAN	H1 histone family, member X	73	H15.				nucleosome assembly	nucleosome|nucleus	DNA binding				0						TTCTTGGCCTCGGTGTAGATC	0.597													7	5	---	---	---	---	PASS
PRR23B	389151	broad.mit.edu	37	3	138738777	138738777	+	Missense_Mutation	SNP	C	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:138738777C>T	uc003esy.1	-	1	992	c.727G>A	c.(727-729)GGT>AGT	p.G243S		NM_001013650	NP_001013672	Q6ZRT6	PR23B_HUMAN	proline rich 23B	243	Pro-rich.									breast(1)	1						GCGTGGGGACCTGGACTCCCC	0.652													7	33	---	---	---	---	PASS
GPR171	29909	broad.mit.edu	37	3	150916249	150916249	+	Nonsense_Mutation	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:150916249G>A	uc003eyq.3	-	3	1165	c.925C>T	c.(925-927)CAG>TAG	p.Q309*	MED12L_uc011bnz.1_Intron|MED12L_uc003eyp.2_Intron	NM_013308	NP_037440	O14626	GP171_HUMAN	G protein-coupled receptor 171	309	Cytoplasmic (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled				0			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			TTTTCTTTCTGAGCCTTGGTC	0.388													39	75	---	---	---	---	PASS
FAM193A	8603	broad.mit.edu	37	4	2701490	2701490	+	Missense_Mutation	SNP	G	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:2701490G>T	uc010icl.2	+	17	3069	c.2718G>T	c.(2716-2718)GAG>GAT	p.E906D	FAM193A_uc010ick.2_Missense_Mutation_p.E1106D|FAM193A_uc003gfd.2_Missense_Mutation_p.E906D|FAM193A_uc011bvm.1_Missense_Mutation_p.E928D|FAM193A_uc011bvn.1_Missense_Mutation_p.E906D|FAM193A_uc011bvo.1_RNA|FAM193A_uc010icm.2_RNA|FAM193A_uc003gfe.2_Missense_Mutation_p.E760D	NM_003704	NP_003695	P78312	F193A_HUMAN	hypothetical protein LOC8603	906	Glu-rich.|Potential.									ovary(3)	3						GGCGggaggaggaggaggatg	0.458													8	39	---	---	---	---	PASS
EVC2	132884	broad.mit.edu	37	4	5564598	5564598	+	Missense_Mutation	SNP	T	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:5564598T>A	uc003gij.2	-	22	3958	c.3904A>T	c.(3904-3906)ATG>TTG	p.M1302L	EVC2_uc011bwb.1_Missense_Mutation_p.M742L|EVC2_uc003gik.2_Missense_Mutation_p.M1222L	NM_147127	NP_667338	Q86UK5	LBN_HUMAN	limbin	1302						integral to membrane				large_intestine(3)|ovary(2)	5						AAGGCCCTCATGGCCTTTTTG	0.488													51	112	---	---	---	---	PASS
LAP3	51056	broad.mit.edu	37	4	17606232	17606232	+	Missense_Mutation	SNP	G	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:17606232G>T	uc003gph.1	+	11	1364	c.1202G>T	c.(1201-1203)GGA>GTA	p.G401V		NM_015907	NP_056991	P28838	AMPL_HUMAN	leucine aminopeptidase 3	401					proteolysis	nucleus	aminopeptidase activity|magnesium ion binding|manganese ion binding|metalloexopeptidase activity|zinc ion binding				0						GTAGCTTTGGGATCAGGTGCC	0.478													11	114	---	---	---	---	PASS
GBA3	57733	broad.mit.edu	37	4	22749341	22749341	+	Missense_Mutation	SNP	G	C	C			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:22749341G>C	uc003gqp.3	+	3	800	c.709G>C	c.(709-711)GTG>CTG	p.V237L	GBA3_uc010iep.2_Intron|GBA3_uc011bxo.1_Missense_Mutation_p.V238L	NM_020973	NP_066024	Q9H227	GBA3_HUMAN	cytosolic beta-glucosidase isoform a	237					glycoside catabolic process|glycosylceramide catabolic process	cytosol	beta-galactosidase activity|beta-glucosidase activity|cation binding|glycosylceramidase activity				0						TCCCAACTCAGTGTCTGACCA	0.428													36	177	---	---	---	---	PASS
AFM	173	broad.mit.edu	37	4	74357676	74357676	+	Missense_Mutation	SNP	G	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:74357676G>T	uc003hhb.2	+	8	962	c.931G>T	c.(931-933)GGC>TGC	p.G311C		NM_001133	NP_001124	P43652	AFAM_HUMAN	afamin precursor	311	Albumin 2.				vitamin transport		vitamin E binding			ovary(2)|central_nervous_system(1)	3	Breast(15;0.00102)		Epithelial(6;5.69e-05)|OV - Ovarian serous cystadenocarcinoma(6;0.000324)|all cancers(17;0.000555)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			ACCAGAGCGCGGCCAGTGCAT	0.358													23	38	---	---	---	---	PASS
PPBP	5473	broad.mit.edu	37	4	74853045	74853045	+	Missense_Mutation	SNP	G	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:74853045G>T	uc003hhj.2	-	3	411	c.331C>A	c.(331-333)CCC>ACC	p.P111T		NM_002704	NP_002695	P02775	CXCL7_HUMAN	pro-platelet basic protein precursor	111					chemotaxis|defense response to bacterium|immune response|platelet activation|platelet degranulation|positive regulation of cell division	extracellular space|platelet alpha granule lumen	chemokine activity|glucose transmembrane transporter activity|growth factor activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(15;0.00136)		all cancers(17;0.00273)|Lung(101;0.196)			TTGATTCTGGGAGCATCTGGG	0.428													45	68	---	---	---	---	PASS
WDFY3	23001	broad.mit.edu	37	4	85781566	85781566	+	Missense_Mutation	SNP	C	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:85781566C>T	uc003hpd.2	-	4	587	c.179G>A	c.(178-180)AGG>AAG	p.R60K	WDFY3_uc003hpf.2_Missense_Mutation_p.R60K	NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	60						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		TGGACTTACCCTGTTAAACAC	0.507													25	57	---	---	---	---	PASS
TIGD2	166815	broad.mit.edu	37	4	90035429	90035429	+	Missense_Mutation	SNP	G	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:90035429G>T	uc003hsk.2	+	1	1462	c.1304G>T	c.(1303-1305)CGG>CTG	p.R435L	FAM13A_uc003hsh.1_5'Flank	NM_145715	NP_663761	Q4W5G0	TIGD2_HUMAN	tigger transposable element derived 2	435					regulation of transcription, DNA-dependent	chromosome, centromeric region|nucleus	DNA binding				0		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;3.86e-05)		TTCGACTCTCGGAGCAGTGAC	0.443													30	46	---	---	---	---	PASS
CENPE	1062	broad.mit.edu	37	4	104061057	104061057	+	Silent	SNP	A	G	G			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:104061057A>G	uc003hxb.1	-	38	6183	c.6093T>C	c.(6091-6093)CTT>CTC	p.L2031L	CENPE_uc003hxc.1_Intron|CENPE_uc003hxd.1_Intron	NM_001813	NP_001804	Q02224	CENPE_HUMAN	centromere protein E	2031	Potential.				blood coagulation|cell division|kinetochore assembly|microtubule-based movement|mitotic chromosome movement towards spindle pole|mitotic metaphase|mitotic metaphase plate congression|mitotic prometaphase|multicellular organismal development|positive regulation of protein kinase activity	condensed chromosome kinetochore|cytosol|microtubule|nucleus|spindle	ATP binding|kinetochore binding|microtubule motor activity			ovary(5)|breast(4)	9				OV - Ovarian serous cystadenocarcinoma(123;2.95e-08)		TTATTTCTTCAAGGCTTTCAT	0.358													47	96	---	---	---	---	PASS
PCDH18	54510	broad.mit.edu	37	4	138452261	138452261	+	Missense_Mutation	SNP	C	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:138452261C>A	uc003ihe.3	-	1	1369	c.982G>T	c.(982-984)GAT>TAT	p.D328Y	PCDH18_uc003ihf.3_Missense_Mutation_p.D321Y|PCDH18_uc011cgz.1_Intron|PCDH18_uc003ihg.3_Missense_Mutation_p.D108Y|PCDH18_uc011cha.1_Intron	NM_019035	NP_061908	Q9HCL0	PCD18_HUMAN	protocadherin 18 precursor	328	Cadherin 3.|Extracellular (Potential).				brain development|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			pancreas(3)|skin(2)	5	all_hematologic(180;0.24)					GGACCCAAATCTTGAGCCTGA	0.358													4	68	---	---	---	---	PASS
RBM46	166863	broad.mit.edu	37	4	155719125	155719125	+	Missense_Mutation	SNP	T	C	C			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:155719125T>C	uc003ioo.2	+	3	487	c.314T>C	c.(313-315)TTT>TCT	p.F105S	RBM46_uc011cim.1_Missense_Mutation_p.F105S|RBM46_uc003iop.1_Missense_Mutation_p.F105S	NM_144979	NP_659416	Q8TBY0	RBM46_HUMAN	RNA binding motif protein 46	105	RRM 1.						nucleotide binding|RNA binding			central_nervous_system(1)|skin(1)	2	all_hematologic(180;0.24)	Renal(120;0.0854)				GGTTATGCTTTTGTGATGTAC	0.353													40	60	---	---	---	---	PASS
TDO2	6999	broad.mit.edu	37	4	156838600	156838600	+	Missense_Mutation	SNP	T	C	C			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:156838600T>C	uc003ipf.1	+	10	1014	c.950T>C	c.(949-951)ATA>ACA	p.I317T		NM_005651	NP_005642	P48775	T23O_HUMAN	tryptophan 2,3-dioxygenase	317					tryptophan catabolic process to kynurenine	cytosol	tryptophan 2,3-dioxygenase activity				0	all_hematologic(180;0.24)	Renal(120;0.0854)		KIRC - Kidney renal clear cell carcinoma(143;0.0455)|Kidney(143;0.0568)|COAD - Colon adenocarcinoma(41;0.141)	L-Tryptophan(DB00150)	CTTATGGACATAGATTCACTG	0.418													42	56	---	---	---	---	PASS
ODZ3	55714	broad.mit.edu	37	4	183696288	183696288	+	Silent	SNP	C	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:183696288C>T	uc003ivd.1	+	23	5323	c.5286C>T	c.(5284-5286)GTC>GTT	p.V1762V		NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	1762	Extracellular (Potential).				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		AAGTCAATGTCTTTGGCCGCA	0.532													15	32	---	---	---	---	PASS
ADAMTS12	81792	broad.mit.edu	37	5	33576735	33576735	+	Silent	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:33576735G>A	uc003jia.1	-	19	3559	c.3396C>T	c.(3394-3396)TCC>TCT	p.S1132S	ADAMTS12_uc010iuq.1_Silent_p.S1047S	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1132	Spacer 2.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						TAGGGTTGCGGGAAGATGACA	0.483										HNSCC(64;0.19)			25	107	---	---	---	---	PASS
CARD6	84674	broad.mit.edu	37	5	40843579	40843579	+	Silent	SNP	A	G	G			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:40843579A>G	uc003jmg.2	+	2	684	c.609A>G	c.(607-609)CTA>CTG	p.L203L		NM_032587	NP_115976	Q9BX69	CARD6_HUMAN	caspase recruitment domain family, member 6	203	Asp/Glu-rich.				apoptosis|regulation of apoptosis	intracellular				ovary(2)|skin(2)|lung(1)	5						ATGAGGAGCTAGATGATTCTT	0.393													16	52	---	---	---	---	PASS
FBXO4	26272	broad.mit.edu	37	5	41927133	41927133	+	Missense_Mutation	SNP	A	G	G			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:41927133A>G	uc003jmq.2	+	2	264	c.208A>G	c.(208-210)ATT>GTT	p.I70V	FBXO4_uc003jmp.2_Missense_Mutation_p.I70V|FBXO4_uc003jmr.2_Missense_Mutation_p.I70V	NM_012176	NP_036308	Q9UKT5	FBX4_HUMAN	F-box only protein 4 isoform 1	70	F-box.				positive regulation of protein ubiquitination|protein polyubiquitination|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|telomere maintenance|ubiquitin-dependent protein catabolic process	cytoplasm|SCF ubiquitin ligase complex	protein binding|protein homodimerization activity|ubiquitin-protein ligase activity			liver(1)	1		Lung NSC(810;4.15e-05)|Breast(839;0.00093)|Ovarian(839;0.00965)|Myeloproliferative disorder(839;0.0255)|all_neural(839;0.0604)				ACAGCTATATATTTTGTCCTT	0.333													69	140	---	---	---	---	PASS
VCAN	1462	broad.mit.edu	37	5	82816650	82816650	+	Missense_Mutation	SNP	A	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:82816650A>T	uc003kii.3	+	7	2881	c.2525A>T	c.(2524-2526)GAC>GTC	p.D842V	VCAN_uc003kij.3_Intron|VCAN_uc010jau.2_Missense_Mutation_p.D842V|VCAN_uc003kik.3_Intron	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	842	GAG-alpha (glucosaminoglycan attachment domain).				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		AAGGATAAAGACATCCCAAGT	0.423													20	95	---	---	---	---	PASS
MEF2C	4208	broad.mit.edu	37	5	88047694	88047694	+	Missense_Mutation	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:88047694G>A	uc003kjj.2	-	5	1242	c.569C>T	c.(568-570)CCT>CTT	p.P190L	MEF2C_uc003kji.2_Missense_Mutation_p.P190L|MEF2C_uc003kjk.2_Missense_Mutation_p.P190L|MEF2C_uc003kjm.2_Missense_Mutation_p.P188L|MEF2C_uc003kjl.2_Missense_Mutation_p.P208L	NM_002397	NP_002388	Q06413	MEF2C_HUMAN	myocyte enhancer factor 2C isoform 1	190					apoptosis|B cell proliferation|innate immune response|learning or memory|muscle cell differentiation|muscle organ development|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|neuron development|positive regulation of muscle cell differentiation|positive regulation of survival gene product expression|positive regulation of transcription from RNA polymerase II promoter|regulation of germinal center formation|regulation of megakaryocyte differentiation|regulation of synaptic activity|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	nuclear speck	activating transcription factor binding|protein heterodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			lung(3)|breast(2)|ovary(1)|large_intestine(1)	7		all_cancers(142;6.67e-05)|all_epithelial(76;7.77e-07)|Lung NSC(167;0.00566)|all_lung(232;0.00732)|Colorectal(57;0.0959)|Ovarian(174;0.1)		OV - Ovarian serous cystadenocarcinoma(54;1.04e-33)|Epithelial(54;1.6e-28)|all cancers(79;2.9e-25)		TGCACTTGGAGGTCGATGTGT	0.473										HNSCC(66;0.2)			27	246	---	---	---	---	PASS
FAM172A	83989	broad.mit.edu	37	5	92956665	92956665	+	3'UTR	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:92956665G>A	uc010jbd.2	-	11					FAM172A_uc011cuf.1_3'UTR|FAM172A_uc011cug.1_3'UTR|FAM172A_uc011cuh.1_3'UTR|FAM172A_uc011cui.1_RNA|FAM172A_uc011cuj.1_3'UTR|MIR2277_hsa-mir-2277|MI0011284_5'Flank	NM_032042	NP_114431	Q8WUF8	F172A_HUMAN	hypothetical protein LOC83989 isoform 1							endoplasmic reticulum|extracellular region					0						GTGCGCCAGGGCGGCCTCCCC	0.642													17	26	---	---	---	---	PASS
SLCO4C1	353189	broad.mit.edu	37	5	101631645	101631645	+	Silent	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:101631645G>A	uc003knm.2	-	1	609	c.322C>T	c.(322-324)CTG>TTG	p.L108L		NM_180991	NP_851322	Q6ZQN7	SO4C1_HUMAN	solute carrier organic anion transporter family,	108	Helical; Name=1; (Potential).				cell differentiation|multicellular organismal development|sodium-independent organic anion transport|spermatogenesis	basolateral plasma membrane|integral to membrane	sodium-independent organic anion transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|pancreas(1)	4		all_cancers(142;1.86e-08)|all_epithelial(76;5.24e-12)|Prostate(80;0.00124)|Colorectal(57;0.00332)|Ovarian(225;0.024)|Lung NSC(167;0.0402)|all_lung(232;0.0486)		Epithelial(69;4.07e-14)|COAD - Colon adenocarcinoma(37;0.00986)		TAGTGAAGCAGAAAGCCTCCA	0.627													4	83	---	---	---	---	PASS
LRRTM2	26045	broad.mit.edu	37	5	138209838	138209838	+	Missense_Mutation	SNP	A	C	C			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:138209838A>C	uc011cyz.1	-	2	869	c.412T>G	c.(412-414)TTG>GTG	p.L138V	CTNNA1_uc003ldh.2_Intron|CTNNA1_uc011cyx.1_Intron|CTNNA1_uc011cyy.1_Intron|CTNNA1_uc003ldi.2_Intron|CTNNA1_uc003ldj.2_Intron|LRRTM2_uc010jez.2_Intron|LRRTM2_uc011cza.1_Intron|CTNNA1_uc003ldl.2_5'Flank	NM_015564	NP_056379	O43300	LRRT2_HUMAN	leucine rich repeat transmembrane neuronal 2	138	LRR 4.|Extracellular (Potential).					cell junction|integral to membrane|postsynaptic membrane					0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			GACAGGTCCAAATTTTGCAGG	0.398													18	27	---	---	---	---	PASS
PCDHB5	26167	broad.mit.edu	37	5	140517344	140517344	+	Missense_Mutation	SNP	G	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140517344G>T	uc003liq.2	+	1	2545	c.2328G>T	c.(2326-2328)CAG>CAT	p.Q776H		NM_015669	NP_056484	Q9Y5E4	PCDB5_HUMAN	protocadherin beta 5 precursor	776	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding|protein binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TTTTGCCCCAGGGCGCTGGTG	0.502													86	173	---	---	---	---	PASS
PCDHB18	54660	broad.mit.edu	37	5	140616205	140616205	+	Silent	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140616205G>A	uc003ljc.1	+	1	2268	c.1920G>A	c.(1918-1920)GCG>GCA	p.A640A		NR_001281				SubName: Full=Similar to protocadherin-3 (Pcdh3);											ovary(1)	1						TGGTGGTGGCGTTGGCCTCGG	0.682													63	155	---	---	---	---	PASS
PCDHGA10	56106	broad.mit.edu	37	5	140795157	140795157	+	Missense_Mutation	SNP	A	G	G			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140795157A>G	uc003lkl.1	+	1	2415	c.2415A>G	c.(2413-2415)ATA>ATG	p.I805M	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc011day.1_Missense_Mutation_p.I805M|PCDHGB7_uc003lkm.2_5'Flank|PCDHGB7_uc003lkn.1_5'Flank	NM_018913	NP_061736	Q9Y5H3	PCDGA_HUMAN	protocadherin gamma subfamily A, 10 isoform 1	805	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)			AGTTTCCTATAGAGGATACCC	0.393													12	37	---	---	---	---	PASS
ABLIM3	22885	broad.mit.edu	37	5	148632376	148632376	+	Missense_Mutation	SNP	G	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:148632376G>T	uc003lpy.2	+	23	2165	c.1914G>T	c.(1912-1914)AAG>AAT	p.K638N	ABLIM3_uc003lpz.1_Missense_Mutation_p.K638N|ABLIM3_uc003lqa.1_Missense_Mutation_p.K535N|ABLIM3_uc003lqb.2_Missense_Mutation_p.K527N|ABLIM3_uc003lqc.1_Missense_Mutation_p.K605N|ABLIM3_uc003lqd.1_Missense_Mutation_p.K543N|ABLIM3_uc003lqf.2_Missense_Mutation_p.K527N|ABLIM3_uc003lqe.1_Missense_Mutation_p.K527N	NM_014945	NP_055760	O94929	ABLM3_HUMAN	actin binding LIM protein family, member 3	638	HP.				axon guidance|cytoskeleton organization	cytoplasm	actin binding|zinc ion binding			ovary(2)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GACTGCCCAAGGATGTAGACA	0.488													34	98	---	---	---	---	PASS
FAT2	2196	broad.mit.edu	37	5	150934193	150934193	+	Silent	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:150934193G>A	uc003lue.3	-	4	3688	c.3675C>T	c.(3673-3675)ACC>ACT	p.T1225T	GM2A_uc011dcs.1_Intron	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	1225	Extracellular (Potential).|Cadherin 10.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CCACCCTGGAGGTGGACTTCA	0.517													24	155	---	---	---	---	PASS
HK3	3101	broad.mit.edu	37	5	176314051	176314051	+	Silent	SNP	T	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:176314051T>A	uc003mfa.2	-	13	1901	c.1809A>T	c.(1807-1809)CCA>CCT	p.P603P	HK3_uc003mez.2_Silent_p.P159P	NM_002115	NP_002106	P52790	HXK3_HUMAN	hexokinase 3	603	Glucose-binding (Potential).|Catalytic.				glucose transport|glycolysis|transmembrane transport	cytosol|membrane	ATP binding|glucokinase activity			ovary(3)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|breast(1)|skin(1)	7	all_cancers(89;0.000104)|Renal(175;0.000269)|Lung NSC(126;0.00696)|all_lung(126;0.0115)	Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TAAAACCCAGTGGGAGGCTCT	0.607													14	41	---	---	---	---	PASS
SLC34A1	6569	broad.mit.edu	37	5	176813554	176813554	+	Missense_Mutation	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:176813554G>A	uc003mgk.3	+	5	620	c.519G>A	c.(517-519)ATG>ATA	p.M173I		NM_003052	NP_003043	Q06495	NPT2A_HUMAN	solute carrier family 34 (sodium phosphate),	173	Helical; Name=M3; (Potential).				phosphate ion homeostasis|response to cadmium ion|response to lead ion|response to mercury ion|sodium ion transport	brush border membrane|integral to plasma membrane	protein binding|sodium-dependent phosphate transmembrane transporter activity|symporter activity			ovary(1)	1	all_cancers(89;2.04e-05)|Renal(175;0.000269)|Lung NSC(126;0.000832)|all_lung(126;0.00152)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TCGTCAGCATGGTCTCCTCTG	0.647													18	111	---	---	---	---	PASS
TREML3	340206	broad.mit.edu	37	6	41184905	41184905	+	RNA	SNP	C	T	T	rs61735685		TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:41184905C>T	uc003oqb.2	-	2		c.306G>A				NR_027256				Homo sapiens TREM-like transcript 3 (TLT3) mRNA, partial cds.												0						ACGTAGGAGACGTGGTTGGGG	0.577													56	71	---	---	---	---	PASS
TTBK1	84630	broad.mit.edu	37	6	43226925	43226925	+	Missense_Mutation	SNP	T	C	C			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:43226925T>C	uc003ouq.1	+	11	1445	c.1166T>C	c.(1165-1167)GTC>GCC	p.V389A		NM_032538	NP_115927	Q5TCY1	TTBK1_HUMAN	tau tubulin kinase 1	389						cell junction|cytoplasm|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			lung(4)|ovary(2)|skin(2)|upper_aerodigestive_tract(1)	9			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0125)|OV - Ovarian serous cystadenocarcinoma(102;0.0399)			CCCCACCTTGTCCCCCACCCC	0.632													10	81	---	---	---	---	PASS
TMEM30A	55754	broad.mit.edu	37	6	75977363	75977363	+	Silent	SNP	T	C	C			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:75977363T>C	uc003phw.2	-	2	617	c.339A>G	c.(337-339)TCA>TCG	p.S113S	TMEM30A_uc003phx.2_Intron	NM_018247	NP_060717	Q9NV96	CC50A_HUMAN	transmembrane protein 30A isoform 1	113						integral to membrane					0						AGACCTCAAATGACTTTTCCA	0.358													34	172	---	---	---	---	PASS
TTK	7272	broad.mit.edu	37	6	80723066	80723066	+	Nonsense_Mutation	SNP	G	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:80723066G>T	uc003pjc.2	+	9	1041	c.967G>T	c.(967-969)GAA>TAA	p.E323*	TTK_uc003pjb.3_Nonsense_Mutation_p.E323*	NM_003318	NP_003309	P33981	TTK_HUMAN	TTK protein kinase	323					mitotic cell cycle spindle assembly checkpoint|mitotic spindle organization|positive regulation of cell proliferation|positive regulation of pathway-restricted SMAD protein phosphorylation	spindle	ATP binding|identical protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(4)|stomach(2)|lung(2)|large_intestine(2)|pancreas(1)	11		all_cancers(76;0.00177)|Acute lymphoblastic leukemia(125;1.24e-05)|all_hematologic(105;0.00223)|all_epithelial(107;0.2)		BRCA - Breast invasive adenocarcinoma(397;0.0321)		TGATTCCTGTGAATTAAGAAA	0.348													44	127	---	---	---	---	PASS
KIAA0776	23376	broad.mit.edu	37	6	96990871	96990871	+	Missense_Mutation	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:96990871G>A	uc003por.2	+	12	1429	c.1381G>A	c.(1381-1383)GAA>AAA	p.E461K	KIAA0776_uc010kck.2_RNA	NM_015323	NP_056138	O94874	UFL1_HUMAN	hypothetical protein LOC23376	461					negative regulation of NF-kappaB transcription factor activity|negative regulation of protein ubiquitination|protein ufmylation	endoplasmic reticulum|nucleus	protein binding|UFM1 conjugating enzyme activity			ovary(1)	1		all_cancers(76;5.83e-05)|Acute lymphoblastic leukemia(125;7.02e-10)|all_hematologic(75;1.23e-06)|all_epithelial(107;0.0604)|Colorectal(196;0.0721)		BRCA - Breast invasive adenocarcinoma(108;0.0934)		TAGTGATGATGAATCTCAATC	0.373													43	92	---	---	---	---	PASS
STXBP5	134957	broad.mit.edu	37	6	147704100	147704100	+	Nonsense_Mutation	SNP	C	G	G			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:147704100C>G	uc003qlz.2	+	27	3541	c.3380C>G	c.(3379-3381)TCA>TGA	p.S1127*	STXBP5_uc010khz.1_Nonsense_Mutation_p.S1091*|STXBP5_uc003qlx.2_RNA|STXBP5_uc003qly.2_Nonsense_Mutation_p.S782*	NM_001127715	NP_001121187	Q5T5C0	STXB5_HUMAN	syntaxin binding protein 5 (tomosyn) isoform b	1127	v-SNARE coiled-coil homology.				exocytosis|positive regulation of exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|nicotinic acetylcholine-gated receptor-channel complex|synaptic vesicle	syntaxin-1 binding				0		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;1.77e-09)|GBM - Glioblastoma multiforme(68;0.0694)		GCCATGTTATCAAGTGCAGAG	0.428													38	53	---	---	---	---	PASS
C6orf72	116254	broad.mit.edu	37	6	149893469	149893469	+	Missense_Mutation	SNP	T	C	C			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:149893469T>C	uc003qmq.1	+	2	196	c.169T>C	c.(169-171)TCT>CCT	p.S57P	C6orf72_uc010kie.1_Intron	NM_138785	NP_620140	Q9NU53	CF072_HUMAN	hypothetical protein LOC116254 precursor	57	Extracellular (Potential).					integral to membrane					0		Ovarian(120;0.0907)		OV - Ovarian serous cystadenocarcinoma(155;9.66e-12)|GBM - Glioblastoma multiforme(68;0.171)		TGGGGACATATCTAAACAGCA	0.343													25	51	---	---	---	---	PASS
PACRG	135138	broad.mit.edu	37	6	163235240	163235240	+	Missense_Mutation	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:163235240G>A	uc003qua.2	+	3	442	c.218G>A	c.(217-219)CGA>CAA	p.R73Q	PACRG_uc003qub.2_Missense_Mutation_p.R73Q|PACRG_uc003quc.2_Missense_Mutation_p.R73Q	NM_152410	NP_689623	Q96M98	PACRG_HUMAN	parkin co-regulated gene protein isoform 1	73											0		Breast(66;2.41e-05)|Ovarian(120;0.0245)|Prostate(117;0.0273)|all_neural(5;0.0416)|Glioma(2;0.203)		OV - Ovarian serous cystadenocarcinoma(33;4.31e-19)|GBM - Glioblastoma multiforme(2;7.42e-11)|BRCA - Breast invasive adenocarcinoma(81;3.19e-05)|KIRC - Kidney renal clear cell carcinoma(3;0.205)|Kidney(3;0.242)		ACAGCATTTCGAAAATTCTAT	0.468													42	199	---	---	---	---	PASS
C7orf36	57002	broad.mit.edu	37	7	39612007	39612007	+	Missense_Mutation	SNP	C	G	G			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:39612007C>G	uc003thc.3	+	3	392	c.383C>G	c.(382-384)TCC>TGC	p.S128C		NM_020192	NP_064577	Q9NRH1	CG036_HUMAN	hypothetical protein LOC57002	128											0						ACTCCACCGTCCCATGTTGTA	0.373													44	119	---	---	---	---	PASS
GCK	2645	broad.mit.edu	37	7	44190672	44190672	+	Silent	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:44190672G>A	uc003tkl.2	-	4	836	c.366C>T	c.(364-366)CTC>CTT	p.L122L	GCK_uc003tkj.1_Silent_p.L121L|GCK_uc003tkk.1_Silent_p.L123L	NM_000162	NP_000153	P35557	HXK4_HUMAN	glucokinase isoform 1	122					cellular response to insulin stimulus|cellular response to leptin stimulus|detection of glucose|endocrine pancreas development|glucose homeostasis|glucose transport|glycolysis|negative regulation of gluconeogenesis|positive regulation of glycogen biosynthetic process|positive regulation of insulin secretion|regulation of glucose transport|regulation of glycolysis|transmembrane transport	cytosol|nucleoplasm	ATP binding|glucokinase activity|glucose binding|protein binding			skin(3)|lung(1)	4						TGTAGTCGAAGAGCTGGAAGA	0.587													30	44	---	---	---	---	PASS
PEX1	5189	broad.mit.edu	37	7	92148300	92148300	+	Intron	SNP	T	G	G			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:92148300T>G	uc003uly.2	-						PEX1_uc011khr.1_5'UTR|PEX1_uc010ley.2_Intron|PEX1_uc011khs.1_Intron|PEX1_uc011kht.1_5'Flank	NM_000466	NP_000457	O43933	PEX1_HUMAN	peroxin1						microtubule-based peroxisome localization|protein import into peroxisome matrix	cytosol|nucleus|peroxisomal membrane	ATP binding|ATPase activity, coupled|protein C-terminus binding|protein complex binding			ovary(1)|central_nervous_system(1)	2	all_cancers(62;9.35e-11)|all_epithelial(64;4.59e-10)|Breast(17;0.00201)|all_lung(186;0.0438)|Lung NSC(181;0.0592)	Breast(660;0.000932)|all_neural(109;0.00391)|Myeloproliferative disorder(862;0.0122)|Ovarian(593;0.023)|Medulloblastoma(109;0.123)	GBM - Glioblastoma multiforme(5;4.06e-06)|STAD - Stomach adenocarcinoma(4;4.51e-05)|all cancers(6;5.32e-05)|LUSC - Lung squamous cell carcinoma(200;0.225)|Lung(22;0.23)			CTTATTTGGTTTTCTTTACCA	0.343													5	65	---	---	---	---	PASS
C7orf52	375607	broad.mit.edu	37	7	100817986	100817986	+	Missense_Mutation	SNP	C	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:100817986C>T	uc003uxy.1	-	2	342	c.103G>A	c.(103-105)GAG>AAG	p.E35K	C7orf52_uc003uxz.1_Missense_Mutation_p.E35K|C7orf52_uc003uya.1_Missense_Mutation_p.E35K|C7orf52_uc003uyb.1_Missense_Mutation_p.E35K	NM_198571	NP_940973	Q8N8M0	CG052_HUMAN	hypothetical protein LOC375607	35							N-acetyltransferase activity			ovary(1)	1	Lung NSC(181;0.168)|all_lung(186;0.215)					GCCTCCACCTCCTGTGGCCGG	0.637													23	127	---	---	---	---	PASS
TFEC	22797	broad.mit.edu	37	7	115596823	115596823	+	Missense_Mutation	SNP	A	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:115596823A>T	uc003vhj.1	-	4	476	c.292T>A	c.(292-294)TAT>AAT	p.Y98N	TFEC_uc003vhk.1_Missense_Mutation_p.Y69N|TFEC_uc003vhl.3_Missense_Mutation_p.Y69N|TFEC_uc011kmw.1_Missense_Mutation_p.Y188N|TFEC_uc003vhm.1_RNA	NM_012252	NP_036384	O14948	TFEC_HUMAN	transcription factor EC isoform a	98	Necessary for transcriptional transactivation.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity			large_intestine(1)	1			STAD - Stomach adenocarcinoma(10;0.00878)			TCACCGCTATACACATCCAAA	0.323													33	59	---	---	---	---	PASS
SMO	6608	broad.mit.edu	37	7	128850949	128850949	+	Missense_Mutation	SNP	C	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:128850949C>A	uc003vor.2	+	10	2076	c.1796C>A	c.(1795-1797)CCC>CAC	p.P599H	SMO_uc003vos.2_Missense_Mutation_p.P274H	NM_005631	NP_005622	Q99835	SMO_HUMAN	smoothened precursor	599	Cytoplasmic (Potential).				adenohypophysis development|axon extension involved in axon guidance|canonical Wnt receptor signaling pathway|cardioblast differentiation|central nervous system neuron differentiation|cerebellar cortex morphogenesis|ciliary receptor clustering involved in smoothened signaling pathway|determination of left/right symmetry|dorsal/ventral neural tube patterning|embryonic camera-type eye development|embryonic digestive tract morphogenesis|embryonic neurocranium morphogenesis|embryonic viscerocranium morphogenesis|exocrine pancreas development|facial nerve development|floor plate formation|gonad development|heart morphogenesis|muscle cell fate commitment|negative regulation of apoptosis|neural crest cell migration|neuron fate commitment|neuron projection regeneration|odontogenesis of dentine-containing tooth|osteoblast differentiation|otolith morphogenesis|positive regulation of epithelial cell proliferation|positive regulation of mesenchymal cell proliferation|positive regulation of neuroblast proliferation|positive regulation of smoothened signaling pathway|semicircular canal morphogenesis|smoothened signaling pathway involved in regulation of cerebellar granule cell precursor cell proliferation|smoothened signaling pathway involved in ventral spinal cord patterning|spermatogenesis|vasculogenesis	cilium|cytoplasm|integral to membrane|neuronal cell body|plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			skin(19)|large_intestine(10)|central_nervous_system(3)|upper_aerodigestive_tract(2)|biliary_tract(1)|lung(1)|liver(1)	37						CACGACGGGCCCGTGGGTGAG	0.632			Mis		skin basal cell 								38	89	---	---	---	---	PASS
TTC26	79989	broad.mit.edu	37	7	138822608	138822608	+	Missense_Mutation	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:138822608G>A	uc003vus.2	+	3	271	c.157G>A	c.(157-159)GGG>AGG	p.G53R	TTC26_uc003vuq.2_Missense_Mutation_p.G53R|TTC26_uc011kqm.1_Missense_Mutation_p.G53R|TTC26_uc003vur.3_Missense_Mutation_p.G53R|TTC26_uc011kqn.1_Missense_Mutation_p.G53R|TTC26_uc011kqo.1_Intron|TTC26_uc011kqp.1_5'UTR|TTC26_uc003vut.2_5'UTR|TTC26_uc011kqq.1_Missense_Mutation_p.G53R	NM_024926	NP_079202	A0AVF1	TTC26_HUMAN	tetratricopeptide repeat domain 26 isoform 1	53							binding			ovary(1)	1						ACGTCATGTTGGGGAAGAAGA	0.328													30	105	---	---	---	---	PASS
TRPV5	56302	broad.mit.edu	37	7	142622811	142622811	+	Missense_Mutation	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:142622811G>A	uc003wby.1	-	8	1199	c.935C>T	c.(934-936)CCA>CTA	p.P312L	TRPV5_uc003wbz.2_Missense_Mutation_p.P312L	NM_019841	NP_062815	Q9NQA5	TRPV5_HUMAN	transient receptor potential cation channel,	312	Cytoplasmic (Potential).				protein tetramerization	apical plasma membrane|integral to plasma membrane	calcium channel activity			ovary(3)|central_nervous_system(2)|skin(1)	6	Melanoma(164;0.059)					CTCCTTCACTGGGGTCTGTTC	0.527													6	36	---	---	---	---	PASS
DOCK5	80005	broad.mit.edu	37	8	25234819	25234819	+	Splice_Site	SNP	A	G	G			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:25234819A>G	uc003xeg.2	+	38	3954	c.3817_splice	c.e38-2	p.W1273_splice	PPP2R2A_uc003xek.2_Splice_Site_p.W62_splice|DOCK5_uc003xei.2_Splice_Site_p.W843_splice|DOCK5_uc003xej.2_Splice_Site	NM_024940	NP_079216	Q9H7D0	DOCK5_HUMAN	dedicator of cytokinesis 5							cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)	3		all_cancers(63;0.0361)|Ovarian(32;0.000711)|all_epithelial(46;0.0153)|Hepatocellular(4;0.115)|Prostate(55;0.13)|Breast(100;0.143)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0267)|Epithelial(17;1.07e-11)|Colorectal(74;0.0276)|COAD - Colon adenocarcinoma(73;0.0828)		CTTCCTTTTCAGTGGTCTGAC	0.363													22	24	---	---	---	---	PASS
SCARA3	51435	broad.mit.edu	37	8	27516466	27516466	+	Missense_Mutation	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:27516466G>A	uc003xga.1	+	5	920	c.779G>A	c.(778-780)CGG>CAG	p.R260Q	SCARA3_uc003xgb.1_Missense_Mutation_p.R260Q	NM_016240	NP_057324	Q6AZY7	SCAR3_HUMAN	scavenger receptor class A, member 3 isoform 1	260	Extracellular (Potential).				response to oxidative stress|UV protection	collagen|endoplasmic reticulum membrane|Golgi membrane|integral to membrane	scavenger receptor activity			skin(2)|ovary(1)|breast(1)	4		Ovarian(32;2.61e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0219)|Colorectal(74;0.148)		AACTACACACGGCTCTTCAGC	0.622													15	25	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	8	30209778	30209778	+	Silent	SNP	T	C	C			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:30209778T>C	uc003xhz.2	+	1	260	c.255T>C	c.(253-255)TTT>TTC	p.F85F						SubName: Full=Class IVb beta tubulin;																		GCCAGATCTTTAGACCAGACA	0.522													48	94	---	---	---	---	PASS
ADHFE1	137872	broad.mit.edu	37	8	67357551	67357551	+	Missense_Mutation	SNP	T	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:67357551T>A	uc003xwb.3	+	6	486	c.452T>A	c.(451-453)CTG>CAG	p.L151Q	ADHFE1_uc003xwd.3_RNA|ADHFE1_uc003xwc.3_Missense_Mutation_p.L103Q|ADHFE1_uc003xwe.3_RNA|ADHFE1_uc003xwf.3_Intron|ADHFE1_uc011les.1_Missense_Mutation_p.L81Q|ADHFE1_uc011leq.1_Intron|ADHFE1_uc011ler.1_Intron	NM_144650	NP_653251	Q8IWW8	HOT_HUMAN	alcohol dehydrogenase, iron containing, 1	151					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)			GCTGCTAATCTGTATGCATCC	0.493													10	247	---	---	---	---	PASS
PRDM14	63978	broad.mit.edu	37	8	70981498	70981498	+	Missense_Mutation	SNP	C	G	G			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:70981498C>G	uc003xym.2	-	2	800	c.598G>C	c.(598-600)GAG>CAG	p.E200Q		NM_024504	NP_078780	Q9GZV8	PRD14_HUMAN	PR domain containing 14	200					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3	Breast(64;0.193)		Epithelial(68;0.00508)|all cancers(69;0.0259)|OV - Ovarian serous cystadenocarcinoma(28;0.0405)			TGCAGGTCCTCCTCCGTGAAC	0.602													42	85	---	---	---	---	PASS
DCAF4L2	138009	broad.mit.edu	37	8	88885212	88885212	+	Missense_Mutation	SNP	C	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:88885212C>A	uc003ydz.2	-	1	1085	c.988G>T	c.(988-990)GCG>TCG	p.A330S		NM_152418	NP_689631	Q8NA75	DC4L2_HUMAN	WD repeat domain 21C	330	WD 2.									ovary(1)	1						CCCACGGCCGCCACGACTCCT	0.567													32	56	---	---	---	---	PASS
TRHR	7201	broad.mit.edu	37	8	110100523	110100523	+	Missense_Mutation	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:110100523G>A	uc003ymz.3	+	1	798	c.782G>A	c.(781-783)AGG>AAG	p.R261K		NM_003301	NP_003292	P34981	TRFR_HUMAN	thyrotropin-releasing hormone receptor	261	Cytoplasmic (Potential).					integral to plasma membrane	thyrotropin-releasing hormone receptor activity			skin(2)|lung(1)	3			OV - Ovarian serous cystadenocarcinoma(57;2.3e-11)			GTATCTTCAAGGAAGCAGGTA	0.383													16	46	---	---	---	---	PASS
CSMD3	114788	broad.mit.edu	37	8	113657416	113657416	+	Missense_Mutation	SNP	T	C	C			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:113657416T>C	uc003ynu.2	-	20	3391	c.3232A>G	c.(3232-3234)ATC>GTC	p.I1078V	CSMD3_uc003yns.2_Missense_Mutation_p.I350V|CSMD3_uc003ynt.2_Missense_Mutation_p.I1038V|CSMD3_uc011lhx.1_Missense_Mutation_p.I974V	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1078	Extracellular (Potential).|CUB 6.					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						GGTGATAAGATTGTTCCACTA	0.398										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			26	48	---	---	---	---	PASS
HAS2	3037	broad.mit.edu	37	8	122626275	122626275	+	3'UTR	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:122626275G>A	uc003yph.2	-	4						NM_005328	NP_005319	Q92819	HAS2_HUMAN	hyaluronan synthase 2							integral to plasma membrane	hyaluronan synthase activity		HAS2/PLAG1(10)	soft_tissue(10)|ovary(5)	15	Lung NSC(37;3.12e-08)|Ovarian(258;0.0254)|Hepatocellular(40;0.0997)|all_neural(195;0.142)		STAD - Stomach adenocarcinoma(47;0.00503)			GGCATTATCTGATGCCACAAT	0.398													17	50	---	---	---	---	PASS
KIAA2026	158358	broad.mit.edu	37	9	6007430	6007430	+	Missense_Mutation	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:6007430G>A	uc003zjq.3	-	1	574	c.358C>T	c.(358-360)CGC>TGC	p.R120C		NM_001017969	NP_001017969	Q5HYC2	K2026_HUMAN	hypothetical protein LOC158358	120										ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.00155)|Lung(218;0.124)		CCCCCGCTGCGCGGCCCTTCC	0.726													3	23	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	9	68414226	68414226	+	RNA	SNP	C	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:68414226C>T	uc004aex.2	+	1		c.781C>T								Homo sapiens mRNA; cDNA DKFZp564N0763 (from clone DKFZp564N0763).																		AGGGTGACACCCACCAGGGGT	0.373													3	7	---	---	---	---	PASS
ZCCHC6	79670	broad.mit.edu	37	9	88953842	88953842	+	Missense_Mutation	SNP	C	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:88953842C>T	uc004aoq.2	-	9	1446	c.1231G>A	c.(1231-1233)GCA>ACA	p.A411T	ZCCHC6_uc011ltf.1_RNA|ZCCHC6_uc004aor.2_RNA|ZCCHC6_uc004aos.2_RNA|ZCCHC6_uc004aot.2_Intron|ZCCHC6_uc004aou.2_Missense_Mutation_p.A411T|ZCCHC6_uc004aov.2_Missense_Mutation_p.A411T	NM_024617	NP_078893	Q5VYS8	TUT7_HUMAN	zinc finger, CCHC domain containing 6	411					RNA 3'-end processing		nucleic acid binding|RNA uridylyltransferase activity|zinc ion binding			ovary(2)	2						TCATTTCCTGCGCTCACTTTA	0.433													15	60	---	---	---	---	PASS
RABEPK	10244	broad.mit.edu	37	9	127996239	127996239	+	Missense_Mutation	SNP	A	G	G			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:127996239A>G	uc004bpi.2	+	9	1272	c.1099A>G	c.(1099-1101)ATT>GTT	p.I367V	RABEPK_uc004bpj.2_Missense_Mutation_p.I316V|RABEPK_uc004bpk.2_Missense_Mutation_p.I367V|RABEPK_uc004bpl.1_3'UTR|RABEPK_uc004bpm.2_Missense_Mutation_p.I367V	NM_005833	NP_005824	Q7Z6M1	RABEK_HUMAN	Rab9 effector protein with kelch motifs	367					receptor-mediated endocytosis|vesicle docking involved in exocytosis	endosome membrane|plasma membrane				ovary(1)	1						TGACGATTGTATTGTGACTGT	0.388													96	206	---	---	---	---	PASS
C9orf50	375759	broad.mit.edu	37	9	132375441	132375441	+	Missense_Mutation	SNP	T	C	C			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:132375441T>C	uc004byc.3	-	6	1335	c.1133A>G	c.(1132-1134)CAG>CGG	p.Q378R	C9orf50_uc004byb.3_RNA	NM_199350	NP_955382	Q5SZB4	CI050_HUMAN	hypothetical protein LOC375759	378										ovary(1)|central_nervous_system(1)	2		Ovarian(14;0.00556)				TCGCGGCCTCTGAGCAGCGGC	0.607													38	101	---	---	---	---	PASS
LAMC3	10319	broad.mit.edu	37	9	133911631	133911631	+	Silent	SNP	C	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:133911631C>T	uc004caa.1	+	4	986	c.888C>T	c.(886-888)ACC>ACT	p.T296T		NM_006059	NP_006050	Q9Y6N6	LAMC3_HUMAN	laminin, gamma 3 precursor	296	Laminin EGF-like 1.				cell adhesion	basement membrane|membrane	structural molecule activity			ovary(2)|pancreas(1)	3	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.06e-05)|Epithelial(140;0.000551)		AGCACAACACCACCGGCACAG	0.682													17	56	---	---	---	---	PASS
FCN2	2220	broad.mit.edu	37	9	137777143	137777143	+	Silent	SNP	C	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:137777143C>A	uc004cfg.1	+	5	370	c.360C>A	c.(358-360)ACC>ACA	p.T120T	FCN2_uc004cfh.1_Silent_p.T82T	NM_004108	NP_004099	Q15485	FCN2_HUMAN	ficolin 2 isoform a precursor	120	Fibrinogen C-terminal.				complement activation, lectin pathway|opsonization|signal transduction	collagen|extracellular space	antigen binding|calcium ion binding|calcium-dependent protein binding|receptor binding|sugar binding			large_intestine(1)	1		Myeloproliferative disorder(178;0.0333)		OV - Ovarian serous cystadenocarcinoma(145;3.58e-08)|Epithelial(140;6.41e-08)|all cancers(34;3.96e-07)		GCTGGCACACCATCTACCTGC	0.677													14	46	---	---	---	---	PASS
NOTCH1	4851	broad.mit.edu	37	9	139396836	139396836	+	Missense_Mutation	SNP	G	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:139396836G>T	uc004chz.2	-	28	5272	c.5272C>A	c.(5272-5274)CGC>AGC	p.R1758S		NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	1758	Cytoplasmic (Potential).				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		CGGCGCTTGCGGGACAGCAGC	0.687			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			3	37	---	---	---	---	PASS
RBM17	84991	broad.mit.edu	37	10	6155497	6155497	+	Missense_Mutation	SNP	C	G	G			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:6155497C>G	uc001ijb.2	+	9	1109	c.883C>G	c.(883-885)CCG>GCG	p.P295A	RBM17_uc010qav.1_Missense_Mutation_p.P295A|RBM17_uc001ijc.2_5'Flank	NM_032905	NP_116294	Q96I25	SPF45_HUMAN	RNA binding motif protein 17	295					mRNA processing|RNA splicing	spliceosomal complex	nucleotide binding|protein binding|RNA binding				0						AGATTCAAATCCGCTGACTGA	0.408													40	144	---	---	---	---	PASS
CELF2	10659	broad.mit.edu	37	10	11299963	11299963	+	Intron	SNP	A	G	G			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:11299963A>G	uc001iki.3	+						CELF2_uc010qbi.1_Intron|CELF2_uc010qbj.1_Intron|CELF2_uc001ikk.2_Intron|CELF2_uc001ikl.3_Intron|CELF2_uc010qbk.1_Intron|CELF2_uc010qbl.1_Intron|CELF2_uc010qbm.1_Intron|CELF2_uc001iko.3_Intron|CELF2_uc001ikp.3_Intron|CELF2_uc010qbn.1_Intron|CELF2_uc009xiw.1_3'UTR|CELF2_uc010qbo.1_Intron|CELF2_uc010qbp.1_Intron	NM_001025077	NP_001020248	O95319	CELF2_HUMAN	CUG triplet repeat, RNA binding protein 2						mRNA processing|regulation of heart contraction	cytoplasm|nucleus	nucleotide binding|protein binding|RNA binding				0						TGATAAAGTTATCCAACCTGA	0.458													4	16	---	---	---	---	PASS
ITGA8	8516	broad.mit.edu	37	10	15600156	15600156	+	Nonsense_Mutation	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:15600156G>A	uc001ioc.1	-	26	2683	c.2683C>T	c.(2683-2685)CGA>TGA	p.R895*	ITGA8_uc010qcb.1_Nonsense_Mutation_p.R880*	NM_003638	NP_003629	P53708	ITA8_HUMAN	integrin, alpha 8 precursor	895	Extracellular (Potential).				cell differentiation|cell-cell adhesion|cell-matrix adhesion|integrin-mediated signaling pathway|nervous system development	integrin complex	receptor activity	p.R895Q(1)		ovary(3)|lung(3)	6						GTAGAGTTTCGCAAAAAGGCG	0.473													16	109	---	---	---	---	PASS
ITGA8	8516	broad.mit.edu	37	10	15760853	15760853	+	Silent	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:15760853G>A	uc001ioc.1	-	2	255	c.255C>T	c.(253-255)CCC>CCT	p.P85P	ITGA8_uc010qcb.1_Silent_p.P85P	NM_003638	NP_003629	P53708	ITA8_HUMAN	integrin, alpha 8 precursor	85	Extracellular (Potential).|FG-GAP 1.				cell differentiation|cell-cell adhesion|cell-matrix adhesion|integrin-mediated signaling pathway|nervous system development	integrin complex	receptor activity			ovary(3)|lung(3)	6						CCACGATATCGGGCTGGCTGG	0.582													35	114	---	---	---	---	PASS
C10orf140	387640	broad.mit.edu	37	10	21804178	21804178	+	Silent	SNP	A	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:21804178A>T	uc009xkd.2	-	4	4827	c.2574T>A	c.(2572-2574)ATT>ATA	p.I858I	uc001iqp.1_Intron	NM_207371	NP_997254	Q1XH10	DLN1_HUMAN	hypothetical protein LOC387640	777						nucleus	nucleotide binding			ovary(1)	1						CATCTCTCCCAATAATGAGTG	0.453													18	54	---	---	---	---	PASS
CSGALNACT2	55454	broad.mit.edu	37	10	43662480	43662480	+	Silent	SNP	C	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:43662480C>T	uc001jan.2	+	6	1523	c.1188C>T	c.(1186-1188)TTC>TTT	p.F396F		NM_018590	NP_061060	Q8N6G5	CGAT2_HUMAN	chondroitin sulfate	396	Lumenal (Potential).				chondroitin sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|dermatan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process	Golgi cisterna membrane|integral to Golgi membrane	glucuronylgalactosylproteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding			ovary(1)	1						CTGTGGTGTTCAGTCTTTACA	0.373													19	44	---	---	---	---	PASS
FAM21C	253725	broad.mit.edu	37	10	46245583	46245583	+	Missense_Mutation	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:46245583G>A	uc001jcu.2	+	9	871	c.772G>A	c.(772-774)GGC>AGC	p.G258S	FAM21C_uc001jcs.1_Missense_Mutation_p.G203S|FAM21C_uc001jct.2_Missense_Mutation_p.G258S|FAM21C_uc010qfi.1_Missense_Mutation_p.G258S	NM_015262	NP_056077	A8K5W5	A8K5W5_HUMAN	hypothetical protein LOC253725	258										ovary(1)	1						GGATGATGATGGCTGTGACCT	0.388													24	117	---	---	---	---	PASS
ANK3	288	broad.mit.edu	37	10	61829047	61829047	+	Silent	SNP	T	C	C			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:61829047T>C	uc001jky.2	-	37	11784	c.11592A>G	c.(11590-11592)AAA>AAG	p.K3864K	ANK3_uc001jkw.2_Intron|ANK3_uc009xpa.2_Intron|ANK3_uc001jkx.2_Intron|ANK3_uc010qih.1_Intron|ANK3_uc001jkz.3_Intron|ANK3_uc001jkv.2_Intron|ANK3_uc009xpb.1_Intron	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	3864					establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						TTATGGGAAGTTTGGATTTTT	0.398													108	328	---	---	---	---	PASS
ANXA2P3	305	broad.mit.edu	37	10	66585787	66585787	+	RNA	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:66585787G>A	uc009xpm.1	+	1		c.503G>A				NR_001446				Human lipocortin (LIP) 2 pseudogene mRNA, complete cds-like region.												0						GTACAAAACTGATCTGGAGAA	0.463													7	29	---	---	---	---	PASS
COL13A1	1305	broad.mit.edu	37	10	71677085	71677085	+	Missense_Mutation	SNP	C	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:71677085C>T	uc001jpr.1	+	17	1528	c.992C>T	c.(991-993)GCC>GTC	p.A331V	COL13A1_uc001jqj.1_Missense_Mutation_p.A331V|COL13A1_uc001jps.1_Missense_Mutation_p.A302V|COL13A1_uc001jpt.1_Missense_Mutation_p.A290V|COL13A1_uc001jpu.1_Missense_Mutation_p.A312V|COL13A1_uc001jpv.1_Missense_Mutation_p.A331V|COL13A1_uc001jpx.1_Missense_Mutation_p.A309V|COL13A1_uc001jpw.1_Missense_Mutation_p.A278V|COL13A1_uc001jpy.1_Missense_Mutation_p.A269V|COL13A1_uc001jpz.1_Missense_Mutation_p.A274V|COL13A1_uc001jqa.1_Missense_Mutation_p.A271V|COL13A1_uc001jqc.1_Missense_Mutation_p.A331V|COL13A1_uc001jqb.1_Missense_Mutation_p.A280V|COL13A1_uc001jql.2_Missense_Mutation_p.A331V|COL13A1_uc001jqd.1_Missense_Mutation_p.A319V|COL13A1_uc001jqe.1_Missense_Mutation_p.A314V|COL13A1_uc001jqf.1_Missense_Mutation_p.A312V|COL13A1_uc001jqg.1_Missense_Mutation_p.A309V|COL13A1_uc001jqh.1_Missense_Mutation_p.A331V|COL13A1_uc001jqi.1_Missense_Mutation_p.A331V|COL13A1_uc010qjf.1_Missense_Mutation_p.A121V|COL13A1_uc001jqk.1_Missense_Mutation_p.A169V	NM_005203	NP_005194	Q5TAT6	CODA1_HUMAN	alpha 1 type XIII collagen isoform 1	331	Extracellular (Potential).|Triple-helical region 2 (COL2).				cell differentiation|cell-cell adhesion|cell-matrix adhesion|endochondral ossification|morphogenesis of a branching structure	collagen type XIII|integral to membrane	extracellular matrix structural constituent|heparin binding|protein binding			ovary(1)	1					Atorvastatin(DB01076)|Simvastatin(DB00641)	AAGCATGGAGCCAAGGTACCT	0.637													8	46	---	---	---	---	PASS
IFIT2	3433	broad.mit.edu	37	10	91061723	91061723	+	5'UTR	SNP	T	C	C			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:91061723T>C	uc009xts.2	+	1					LIPA_uc001kgb.3_Intron|LIPA_uc001kgc.3_Intron|uc001kgd.2_Intron	NM_001547	NP_001538	P09913	IFIT2_HUMAN	interferon-induced protein with						negative regulation of protein binding|response to virus|type I interferon-mediated signaling pathway		protein binding			ovary(1)|skin(1)	2		Colorectal(252;0.0161)				CTTTCCCTTTTGTAACGTCAG	0.383													7	14	---	---	---	---	PASS
PNLIPRP1	5407	broad.mit.edu	37	10	118352124	118352124	+	Intron	SNP	T	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:118352124T>A	uc001lco.1	+						PNLIPRP1_uc001lcp.2_Intron|PNLIPRP1_uc001lcn.2_Missense_Mutation_p.M134K|PNLIPRP1_uc009xys.1_Intron	NM_006229	NP_006220	P54315	LIPR1_HUMAN	pancreatic lipase-related protein 1 precursor						lipid metabolic process		calcium ion binding|triglyceride lipase activity			ovary(1)|breast(1)	2				all cancers(201;0.0161)		CATCACTTTATGCACTCAAGA	0.428													14	24	---	---	---	---	PASS
PAOX	196743	broad.mit.edu	37	10	135203207	135203207	+	Missense_Mutation	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:135203207G>A	uc001lmv.2	+	6	1428	c.1348G>A	c.(1348-1350)GAC>AAC	p.D450N	PAOX_uc001lmw.2_Intron|PAOX_uc001lmx.2_Intron|PAOX_uc001lmy.2_Intron|PAOX_uc001lmz.2_RNA|PAOX_uc001lna.2_RNA|PAOX_uc001lnb.2_RNA|PAOX_uc001lnc.2_RNA	NM_152911	NP_690875	Q6QHF9	PAOX_HUMAN	polyamine oxidase isoform 1	588					polyamine biosynthetic process|xenobiotic metabolic process	peroxisomal matrix	polyamine oxidase activity				0		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		all cancers(32;4.39e-07)|OV - Ovarian serous cystadenocarcinoma(35;1.21e-06)|Epithelial(32;1.94e-06)		GGGCGACCTGGACCTGCTGGC	0.741													14	44	---	---	---	---	PASS
CYP2E1	1571	broad.mit.edu	37	10	135373519	135373519	+	3'UTR	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:135373519G>A	uc001lnl.1	+	6					SYCE1_uc001lnm.2_5'UTR|SYCE1_uc009ybn.2_Intron|SYCE1_uc001lnn.2_Intron|SYCE1_uc001lno.2_Intron			P05181	CP2E1_HUMAN	SubName: Full=Cytochrome P450, family 2, subfamily E, polypeptide 1 variant; Flags: Fragment;						drug metabolic process|heterocycle metabolic process|monoterpenoid metabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	electron carrier activity|enzyme binding|heme binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NADH or NADPH as one donor, and incorporation of one atom of oxygen|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced flavin or flavoprotein as one donor, and incorporation of one atom of oxygen|oxygen binding			central_nervous_system(3)	3		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;1.12e-06)|all cancers(32;1.43e-06)|Epithelial(32;1.71e-06)	Acetaminophen(DB00316)|Chlorzoxazone(DB00356)|Cinnarizine(DB00568)|Clofibrate(DB00636)|Dacarbazine(DB00851)|Dapsone(DB00250)|Enflurane(DB00228)|Eszopiclone(DB00402)|Ethanol(DB00898)|Ethosuximide(DB00593)|Fomepizole(DB01213)|Glutathione(DB00143)|Halothane(DB01159)|Hexobarbital(DB01355)|Isoflurane(DB00753)|Isoniazid(DB00951)|Menadione(DB00170)|Mephenytoin(DB00532)|Methoxyflurane(DB01028)|Midazolam(DB00683)|Mitoxantrone(DB01204)|Nicotine(DB00184)|Nifedipine(DB01115)|Nitrofurantoin(DB00698)|Orphenadrine(DB01173)|Phenelzine(DB00780)|Quinidine(DB00908)|S-Adenosylmethionine(DB00118)|Sevoflurane(DB01236)|Theophylline(DB00277)|Tolbutamide(DB01124)	ttcgtacattgtggggcctga	0.169									Naso-/Oropharyngeal/Laryngeal_Cancer_Familial_Clustering_of				9	18	---	---	---	---	PASS
NELL1	4745	broad.mit.edu	37	11	21592405	21592405	+	Silent	SNP	T	C	C			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:21592405T>C	uc001mqe.2	+	18	2229	c.2076T>C	c.(2074-2076)AGT>AGC	p.S692S	NELL1_uc001mqf.2_Silent_p.S645S|NELL1_uc009yid.2_Silent_p.S720S|NELL1_uc010rdo.1_Silent_p.S635S|NELL1_uc010rdp.1_Silent_p.S405S|NELL1_uc001mqh.2_Silent_p.S237S	NM_006157	NP_006148	Q92832	NELL1_HUMAN	nel-like 1 isoform 1 precursor	692	VWFC 4.				cell adhesion|nervous system development	extracellular region	calcium ion binding|structural molecule activity			ovary(2)|large_intestine(1)	3						GAGTCACAAGTCAATGTTTAG	0.468													38	138	---	---	---	---	PASS
CCDC73	493860	broad.mit.edu	37	11	32635179	32635179	+	Silent	SNP	A	G	G			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:32635179A>G	uc001mtv.2	-	16	2729	c.2685T>C	c.(2683-2685)ACT>ACC	p.T895T		NM_001008391	NP_001008392	Q6ZRK6	CCD73_HUMAN	sarcoma antigen NY-SAR-79	895										ovary(1)|central_nervous_system(1)	2	Breast(20;0.112)					GAGTTTTCTCAGTTTTTTTAT	0.398													72	227	---	---	---	---	PASS
HIPK3	10114	broad.mit.edu	37	11	33360345	33360345	+	Missense_Mutation	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:33360345G>A	uc001mul.1	+	5	1654	c.1384G>A	c.(1384-1386)GAA>AAA	p.E462K	HIPK3_uc001mum.1_Missense_Mutation_p.E462K|HIPK3_uc009yjv.1_Missense_Mutation_p.E462K|HIPK3_uc009yjw.1_RNA	NM_005734	NP_005725	Q9H422	HIPK3_HUMAN	homeodomain interacting protein kinase 3 isoform	462	Protein kinase.				anti-apoptosis|apoptosis|negative regulation of JUN kinase activity|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm	ATP binding|protein serine/threonine kinase activity			large_intestine(1)|skin(1)|stomach(1)|ovary(1)|pancreas(1)	5						GAAGTCTAAAGAAGCCAGAAA	0.358													32	99	---	---	---	---	PASS
TRIM48	79097	broad.mit.edu	37	11	55036744	55036744	+	Missense_Mutation	SNP	C	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:55036744C>T	uc010rid.1	+	5	691	c.605C>T	c.(604-606)CCC>CTC	p.P202L		NM_024114	NP_077019	Q8IWZ4	TRI48_HUMAN	tripartite motif-containing 48	186						intracellular	zinc ion binding				0						CTGCACATGCCCCAGCCTCTG	0.502													35	74	---	---	---	---	PASS
OR5M9	390162	broad.mit.edu	37	11	56230095	56230095	+	Silent	SNP	G	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:56230095G>T	uc010rjj.1	-	1	783	c.783C>A	c.(781-783)CCC>CCA	p.P261P		NM_001004743	NP_001004743	Q8NGP3	OR5M9_HUMAN	olfactory receptor, family 5, subfamily M,	261	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4	Esophageal squamous(21;0.00448)					ATTCCTCAGTGGGTCTCCTGA	0.493													33	79	---	---	---	---	PASS
OR9G4	283189	broad.mit.edu	37	11	56510738	56510738	+	Missense_Mutation	SNP	A	G	G			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:56510738A>G	uc010rjo.1	-	1	550	c.550T>C	c.(550-552)TGT>CGT	p.C184R		NM_001005284	NP_001005284	Q8NGQ1	OR9G4_HUMAN	olfactory receptor, family 9, subfamily G,	184	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3						TTTTTACCACAAAAATGCAGG	0.453													42	72	---	---	---	---	PASS
OR4D6	219983	broad.mit.edu	37	11	59224536	59224536	+	Missense_Mutation	SNP	T	C	C			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:59224536T>C	uc010rku.1	+	1	103	c.103T>C	c.(103-105)TAT>CAT	p.Y35H		NM_001004708	NP_001004708	Q8NGJ1	OR4D6_HUMAN	olfactory receptor, family 4, subfamily D,	35	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						CTTTGCTGTGTATGTAGCAAC	0.458													47	123	---	---	---	---	PASS
MALAT1	378938	broad.mit.edu	37	11	65266577	65266577	+	RNA	SNP	C	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:65266577C>A	uc010roh.1	+	1		c.1345C>A			MALAT1_uc001odz.2_5'Flank	NR_002819				Homo sapiens clone alpha1 mRNA sequence.												0						TTGAGGAAACCGCAGATAAGT	0.438													42	101	---	---	---	---	PASS
SUV420H1	51111	broad.mit.edu	37	11	67942531	67942531	+	Missense_Mutation	SNP	T	C	C			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:67942531T>C	uc001onm.1	-	5	753	c.497A>G	c.(496-498)TAT>TGT	p.Y166C	SUV420H1_uc009yse.1_5'UTR|SUV420H1_uc001onn.1_5'UTR|SUV420H1_uc009ysf.2_5'UTR|SUV420H1_uc001ono.1_Missense_Mutation_p.Y166C|SUV420H1_uc001onp.2_Missense_Mutation_p.Y166C|SUV420H1_uc010rqa.1_Missense_Mutation_p.Y143C|SUV420H1_uc001onq.2_Missense_Mutation_p.Y166C	NM_017635	NP_060105	Q4FZB7	SV421_HUMAN	suppressor of variegation 4-20 homolog 1 isoform	166					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			ovary(2)|kidney(1)	3						GTTGAGAAAATAGTGCCGTGC	0.348													23	48	---	---	---	---	PASS
ARAP1	116985	broad.mit.edu	37	11	72412744	72412744	+	Missense_Mutation	SNP	T	C	C			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:72412744T>C	uc001osu.2	-	16	2441	c.2252A>G	c.(2251-2253)TAC>TGC	p.Y751C	ARAP1_uc001osv.2_Missense_Mutation_p.Y751C|ARAP1_uc001osr.2_Missense_Mutation_p.Y511C|ARAP1_uc001oss.2_Missense_Mutation_p.Y506C|ARAP1_uc009yth.2_Missense_Mutation_p.Y445C|ARAP1_uc010rre.1_Missense_Mutation_p.Y506C|ARAP1_uc001osw.1_Missense_Mutation_p.Y39C	NM_001040118	NP_001035207	Q96P48	ARAP1_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH	751	PH 3.				actin filament reorganization involved in cell cycle|negative regulation of stress fiber assembly|positive regulation of Cdc42 GTPase activity|positive regulation of filopodium assembly|regulation of ARF GTPase activity|regulation of cell shape|regulation of cellular component movement|small GTPase mediated signal transduction	cytosol|Golgi cisterna membrane|plasma membrane	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|protein binding|Rho GTPase activator activity|zinc ion binding			skin(1)	1						GGCAGTCTTGTAGAGGAAGCC	0.622													48	143	---	---	---	---	PASS
CNTN5	53942	broad.mit.edu	37	11	99941209	99941209	+	Missense_Mutation	SNP	C	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:99941209C>A	uc001pga.2	+	11	1555	c.1216C>A	c.(1216-1218)CCT>ACT	p.P406T	CNTN5_uc009ywv.1_Missense_Mutation_p.P406T|CNTN5_uc001pfz.2_Missense_Mutation_p.P406T|CNTN5_uc001pgb.2_Missense_Mutation_p.P332T	NM_014361	NP_055176	O94779	CNTN5_HUMAN	contactin 5 isoform long	406	Ig-like C2-type 4.				cell adhesion	anchored to membrane|plasma membrane	protein binding			skin(3)|ovary(2)|pancreas(2)|breast(1)	8		all_hematologic(158;1.22e-05)|Acute lymphoblastic leukemia(157;3.81e-05)|Melanoma(852;0.219)		BRCA - Breast invasive adenocarcinoma(274;0.00146)|KIRC - Kidney renal clear cell carcinoma(183;0.156)|Kidney(183;0.196)		CAGTGGGAGCCCTCTCCGATG	0.463													16	18	---	---	---	---	PASS
RAD52	5893	broad.mit.edu	37	12	1034684	1034684	+	Missense_Mutation	SNP	C	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:1034684C>A	uc001qis.1	-	7	589	c.475G>T	c.(475-477)GGG>TGG	p.G159W	RAD52_uc001qit.1_RNA|RAD52_uc010sdt.1_Missense_Mutation_p.G82W|RAD52_uc001qiu.1_Missense_Mutation_p.G159W|RAD52_uc001qiv.1_RNA|RAD52_uc001qiw.1_RNA|RAD52_uc010sdu.1_Missense_Mutation_p.G159W|RAD52_uc001qix.1_Missense_Mutation_p.W209L	NM_134424	NP_602296	P43351	RAD52_HUMAN	RAD52 homolog	159					DNA recombinase assembly|mitotic recombination|reciprocal meiotic recombination	nucleoplasm	DNA binding|protein binding			central_nervous_system(1)	1	all_cancers(10;0.0119)|all_epithelial(11;0.0171)|all_lung(10;0.0521)|Ovarian(42;0.0816)|Lung NSC(10;0.0987)		OV - Ovarian serous cystadenocarcinoma(31;0.00123)|BRCA - Breast invasive adenocarcinoma(9;0.0323)			AGTGCATTCCCAAAACTCCTA	0.388								Homologous_recombination					18	96	---	---	---	---	PASS
SLC2A3	6515	broad.mit.edu	37	12	8083900	8083900	+	Silent	SNP	G	T	T	rs138143062		TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:8083900G>T	uc001qtr.2	-	4	713	c.451C>A	c.(451-453)CGG>AGG	p.R151R	SLC2A3_uc001qts.2_Silent_p.R151R	NM_006931	NP_008862	P11169	GTR3_HUMAN	solute carrier family 2 (facilitated glucose	151	Cytoplasmic (Potential).				carbohydrate metabolic process|water-soluble vitamin metabolic process	integral to membrane|plasma membrane	D-glucose transmembrane transporter activity|dehydroascorbic acid transporter activity			ovary(3)|pancreas(1)	4				Kidney(36;0.0866)		AAGGCACCCCGCAGGGCAGTA	0.507													41	93	---	---	---	---	PASS
LOC642846	642846	broad.mit.edu	37	12	9455264	9455264	+	RNA	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:9455264G>A	uc010sgp.1	+	12		c.1574G>A			LOC642846_uc001qvp.2_RNA	NR_024374				Homo sapiens cDNA FLJ60280 complete cds, highly similar to Probable ATP-dependent RNA helicase DDX11 (EC 3.6.1.-).												0						AGCAGATCCTGTATTTGCTGG	0.577													9	16	---	---	---	---	PASS
NELL2	4753	broad.mit.edu	37	12	45269642	45269642	+	Missense_Mutation	SNP	C	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:45269642C>T	uc001rog.2	-	1	606	c.11G>A	c.(10-12)CGG>CAG	p.R4Q	NELL2_uc001rof.3_5'Flank|NELL2_uc001roh.2_Missense_Mutation_p.R4Q|NELL2_uc009zkd.2_5'UTR|NELL2_uc010skz.1_Missense_Mutation_p.R54Q|NELL2_uc010sla.1_Missense_Mutation_p.R27Q|NELL2_uc001roi.1_Missense_Mutation_p.R4Q|NELL2_uc010slb.1_5'UTR|NELL2_uc001roj.2_Missense_Mutation_p.R4Q	NM_001145108	NP_001138580	Q99435	NELL2_HUMAN	NEL-like protein 2 isoform b precursor	4					cell adhesion	extracellular region	calcium ion binding|protein binding|structural molecule activity			skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4	Lung SC(27;0.192)	Lung NSC(34;0.144)		GBM - Glioblastoma multiforme(48;0.092)		CAGTAAGACCCGAGACTCCAT	0.517													18	99	---	---	---	---	PASS
ANKRD33	341405	broad.mit.edu	37	12	52282069	52282069	+	5'UTR	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:52282069G>A	uc001rzf.3	+	1					ANKRD33_uc001rzh.3_Nonsense_Mutation_p.W33*|ANKRD33_uc001rzd.2_Nonsense_Mutation_p.W33*|ANKRD33_uc001rze.2_5'UTR|ANKRD33_uc001rzg.3_5'UTR|ANKRD33_uc001rzi.3_5'UTR	NM_001130015	NP_001123487	Q7Z3H0	ANR33_HUMAN	ankyrin repeat domain 33 isoform 1												0				BRCA - Breast invasive adenocarcinoma(357;0.0969)		GCGGAGCCTGGGCTGTGCCCC	0.567													45	134	---	---	---	---	PASS
LRP1	4035	broad.mit.edu	37	12	57600372	57600372	+	Missense_Mutation	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:57600372G>A	uc001snd.2	+	76	12173	c.11707G>A	c.(11707-11709)GAT>AAT	p.D3903N		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	3903	Extracellular (Potential).				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	TGTCCGCATTGATGCTATGGA	0.597													35	45	---	---	---	---	PASS
C12orf12	196477	broad.mit.edu	37	12	91347836	91347836	+	Silent	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:91347836G>A	uc001tbj.2	-	1	1118	c.684C>T	c.(682-684)GCC>GCT	p.A228A		NM_152638	NP_689851	Q8TC90	CL012_HUMAN	hypothetical protein LOC196477	228										central_nervous_system(1)|pancreas(1)	2						CGGAGGATCTGGCTGGGGAGG	0.627													94	152	---	---	---	---	PASS
PWP1	11137	broad.mit.edu	37	12	108082471	108082471	+	Missense_Mutation	SNP	C	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:108082471C>T	uc001tmo.1	+	3	298	c.211C>T	c.(211-213)CGC>TGC	p.R71C	PWP1_uc001tmn.1_RNA|PWP1_uc009zuu.1_Missense_Mutation_p.R71C	NM_007062	NP_008993	Q13610	PWP1_HUMAN	periodic tryptophan protein 1	71					transcription, DNA-dependent	nucleus					0						CACCCAGGCACGCCCAAGAGA	0.517													35	36	---	---	---	---	PASS
GLTP	51228	broad.mit.edu	37	12	110290277	110290277	+	3'UTR	SNP	C	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:110290277C>T	uc001tpm.2	-	5					GLTP_uc010sxt.1_RNA	NM_016433	NP_057517	Q9NZD2	GLTP_HUMAN	glycolipid transfer protein							cytoplasm	glycolipid binding|glycolipid transporter activity				0		Lung NSC(355;2.38e-06)|Breast(359;0.00354)|Myeloproliferative disorder(1001;0.0122)		BRCA - Breast invasive adenocarcinoma(302;0.0025)		AGGGGCAGTTCACCGACTTGA	0.527													26	131	---	---	---	---	PASS
CAMKK2	10645	broad.mit.edu	37	12	121706440	121706440	+	Splice_Site	SNP	C	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:121706440C>T	uc001tzu.2	-	5	749	c.625_splice	c.e5+1	p.R209_splice	CAMKK2_uc001tzt.2_Splice_Site_p.R209_splice|CAMKK2_uc001tzv.2_Splice_Site_p.R209_splice|CAMKK2_uc001tzw.2_Splice_Site_p.R209_splice|CAMKK2_uc001tzx.2_Splice_Site_p.R209_splice|CAMKK2_uc001tzy.2_Splice_Site_p.R209_splice|CAMKK2_uc001uaa.1_Splice_Site_p.R209_splice|CAMKK2_uc001uab.2_Splice_Site_p.R209_splice|CAMKK2_uc001uac.2_Splice_Site_p.R209_splice	NM_006549	NP_006540	Q96RR4	KKCC2_HUMAN	calcium/calmodulin-dependent protein kinase						calcium-mediated signaling|MAPKKK cascade|positive regulation of transcription, DNA-dependent|protein autophosphorylation|regulation of protein kinase activity	cytoplasm	ATP binding|calcium ion binding|calmodulin binding|calmodulin-dependent protein kinase activity|protein tyrosine kinase activity			lung(1)|large_intestine(1)|stomach(1)	3	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					GCCAAACTCACGTGGAAAGCC	0.488													70	219	---	---	---	---	PASS
SACS	26278	broad.mit.edu	37	13	23909550	23909550	+	Missense_Mutation	SNP	T	C	C			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:23909550T>C	uc001uon.2	-	10	9054	c.8465A>G	c.(8464-8466)AAT>AGT	p.N2822S	SACS_uc001uoo.2_Missense_Mutation_p.N2675S|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	2822					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		GCCTGATCTATTACAAATTAG	0.388													22	154	---	---	---	---	PASS
ATP8A2	51761	broad.mit.edu	37	13	26273338	26273338	+	Missense_Mutation	SNP	T	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:26273338T>A	uc001uqk.2	+	25	2381	c.2239T>A	c.(2239-2241)TGC>AGC	p.C747S	ATP8A2_uc010tdi.1_Missense_Mutation_p.C707S|ATP8A2_uc010tdj.1_RNA|ATP8A2_uc010aaj.1_Missense_Mutation_p.C297S	NM_016529	NP_057613	Q9NTI2	AT8A2_HUMAN	ATPase, aminophospholipid transporter-like,	707	Cytoplasmic (Potential).				ATP biosynthetic process|negative regulation of cell proliferation	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|large_intestine(1)|skin(1)	4		Breast(139;0.0201)|Lung SC(185;0.0225)		all cancers(112;0.043)|OV - Ovarian serous cystadenocarcinoma(117;0.0748)|Epithelial(112;0.079)		TACTCAGCACTGCACTGACCT	0.453													49	73	---	---	---	---	PASS
SLC7A1	6541	broad.mit.edu	37	13	30110084	30110084	+	Missense_Mutation	SNP	C	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:30110084C>T	uc001uso.2	-	3	629	c.242G>A	c.(241-243)GGC>GAC	p.G81D		NM_003045	NP_003036	P30825	CTR1_HUMAN	solute carrier family 7 (cationic amino acid	81	Helical; (Potential).				cellular nitrogen compound metabolic process|ion transport	integral to plasma membrane	receptor activity				0		Lung SC(185;0.0257)|Breast(139;0.238)		all cancers(112;0.0148)|OV - Ovarian serous cystadenocarcinoma(117;0.0554)|Epithelial(112;0.0875)|GBM - Glioblastoma multiforme(144;0.179)	L-Arginine(DB00125)|L-Lysine(DB00123)|L-Ornithine(DB00129)	ATAGCACAGGCCAGCCAGCAC	0.617													14	57	---	---	---	---	PASS
HTR2A	3356	broad.mit.edu	37	13	47469988	47469988	+	Silent	SNP	T	C	C			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:47469988T>C	uc001vbq.2	-	1	188	c.54A>G	c.(52-54)CTA>CTG	p.L18L	HTR2A_uc001vbr.2_Intron|HTR2A_uc010acr.2_Silent_p.L18L	NM_000621	NP_000612	P28223	5HT2A_HUMAN	5-hydroxytryptamine receptor 2A isoform 1	18	Extracellular (By similarity).				ERK1 and ERK2 cascade|phosphatidylinositol 3-kinase cascade|phosphatidylinositol biosynthetic process|release of sequestered calcium ion into cytosol|response to drug|synaptic transmission	integral to plasma membrane	1-(4-iodo-2,5-dimethoxyphenyl)propan-2-amine binding|drug binding|phosphatidylinositol phospholipase C activity|serotonin binding|serotonin receptor activity			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6		all_lung(13;7.2e-10)|Lung NSC(96;3.77e-07)|Breast(56;2.06e-05)|Prostate(109;0.00116)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)|Myeloproliferative disorder(33;0.0333)		GBM - Glioblastoma multiforme(144;4.67e-05)|COAD - Colon adenocarcinoma(199;0.224)	Aripiprazole(DB01238)|Chlorpromazine(DB00477)|Chlorprothixene(DB01239)|Cisapride(DB00604)|Clomipramine(DB01242)|Clozapine(DB00363)|Cyclobenzaprine(DB00924)|Cyproheptadine(DB00434)|Dihydroergotamine(DB00320)|Donepezil(DB00843)|Epinastine(DB00751)|Ergotamine(DB00696)|Fluvoxamine(DB00176)|Mesoridazine(DB00933)|Methysergide(DB00247)|Mianserin(DB06148)|Minaprine(DB00805)|Mirtazapine(DB00370)|Nefazodone(DB01149)|Olanzapine(DB00334)|Paliperidone(DB01267)|Paroxetine(DB00715)|Prochlorperazine(DB00433)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Quetiapine(DB01224)|Risperidone(DB00734)|Sertindole(DB06144)|Thiethylperazine(DB00372)|Thioridazine(DB00679)|Tranylcypromine(DB00752)|Trazodone(DB00656)|Venlafaxine(DB00285)|Ziprasidone(DB00246)	TTAATTGCATTAGGGAGTTCG	0.403													17	92	---	---	---	---	PASS
RB1	5925	broad.mit.edu	37	13	48947629	48947629	+	Splice_Site	SNP	G	C	C			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:48947629G>C	uc001vcb.2	+	12	1381	c.1215_splice	c.e12+1	p.N405_splice	RB1_uc010act.1_Splice_Site_p.N106_splice	NM_000321	NP_000312	P06400	RB_HUMAN	retinoblastoma 1						androgen receptor signaling pathway|cell cycle arrest|chromatin remodeling|G1 phase of mitotic cell cycle|interspecies interaction between organisms|maintenance of mitotic sister chromatid cohesion|mitotic cell cycle G1/S transition checkpoint|myoblast differentiation|negative regulation of cell growth|negative regulation of protein kinase activity|negative regulation of S phase of mitotic cell cycle|negative regulation of sequence-specific DNA binding transcription factor activity|positive regulation of mitotic metaphase/anaphase transition|protein localization to chromosome, centromeric region|Ras protein signal transduction|regulation of centromere complex assembly|regulation of cohesin localization to chromatin|regulation of lipid kinase activity|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|sister chromatid biorientation	chromatin|PML body|Rb-E2F complex|SWI/SNF complex	androgen receptor binding|DNA binding|kinase binding|phosphoprotein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription factor binding|ubiquitin protein ligase binding	p.?(14)		lung(94)|eye(89)|central_nervous_system(47)|bone(22)|breast(21)|urinary_tract(17)|haematopoietic_and_lymphoid_tissue(14)|ovary(10)|prostate(9)|soft_tissue(8)|skin(7)|endometrium(5)|cervix(3)|liver(3)|salivary_gland(2)|stomach(2)|oesophagus(1)|adrenal_gland(1)|kidney(1)|gastrointestinal_tract_(site_indeterminate)(1)|pituitary(1)	358		all_cancers(8;6.9e-71)|all_epithelial(8;4.61e-22)|Acute lymphoblastic leukemia(8;1.1e-21)|all_hematologic(8;2.3e-21)|all_lung(13;1.51e-09)|Lung NSC(96;7.03e-07)|Breast(56;1.53e-05)|Prostate(109;0.000493)|Myeloproliferative disorder(33;0.0179)|Hepatocellular(98;0.0207)|all_neural(104;0.0227)|Glioma(44;0.0286)|Lung SC(185;0.0301)		GBM - Glioblastoma multiforme(2;9.98e-18)|LUSC - Lung squamous cell carcinoma(3;0.013)	Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	CTATTTTAACGTAAGCCATAT	0.264		6	D|Mis|N|F|S		retinoblastoma|sarcoma|breast|small cell lung	retinoblastoma|sarcoma|breast|small cell lung			Hereditary_Retinoblastoma	TCGA GBM(7;6.82e-08)|TSP Lung(12;0.097)|TCGA Ovarian(6;0.080)			24	189	---	---	---	---	PASS
RB1	5925	broad.mit.edu	37	13	49027248	49027248	+	Splice_Site	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:49027248G>A	uc001vcb.2	+	18	1980	c.1814_splice	c.e18+1	p.M605_splice		NM_000321	NP_000312	P06400	RB_HUMAN	retinoblastoma 1						androgen receptor signaling pathway|cell cycle arrest|chromatin remodeling|G1 phase of mitotic cell cycle|interspecies interaction between organisms|maintenance of mitotic sister chromatid cohesion|mitotic cell cycle G1/S transition checkpoint|myoblast differentiation|negative regulation of cell growth|negative regulation of protein kinase activity|negative regulation of S phase of mitotic cell cycle|negative regulation of sequence-specific DNA binding transcription factor activity|positive regulation of mitotic metaphase/anaphase transition|protein localization to chromosome, centromeric region|Ras protein signal transduction|regulation of centromere complex assembly|regulation of cohesin localization to chromatin|regulation of lipid kinase activity|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|sister chromatid biorientation	chromatin|PML body|Rb-E2F complex|SWI/SNF complex	androgen receptor binding|DNA binding|kinase binding|phosphoprotein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription factor binding|ubiquitin protein ligase binding	p.?(6)		lung(94)|eye(89)|central_nervous_system(47)|bone(22)|breast(21)|urinary_tract(17)|haematopoietic_and_lymphoid_tissue(14)|ovary(10)|prostate(9)|soft_tissue(8)|skin(7)|endometrium(5)|cervix(3)|liver(3)|salivary_gland(2)|stomach(2)|oesophagus(1)|adrenal_gland(1)|kidney(1)|gastrointestinal_tract_(site_indeterminate)(1)|pituitary(1)	358		all_cancers(8;6.9e-71)|all_epithelial(8;4.61e-22)|Acute lymphoblastic leukemia(8;1.1e-21)|all_hematologic(8;2.3e-21)|all_lung(13;1.51e-09)|Lung NSC(96;7.03e-07)|Breast(56;1.53e-05)|Prostate(109;0.000493)|Myeloproliferative disorder(33;0.0179)|Hepatocellular(98;0.0207)|all_neural(104;0.0227)|Glioma(44;0.0286)|Lung SC(185;0.0301)		GBM - Glioblastoma multiforme(2;9.98e-18)|LUSC - Lung squamous cell carcinoma(3;0.013)	Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	CAGCAGATATGTAAGCAAAAT	0.338		6	D|Mis|N|F|S		retinoblastoma|sarcoma|breast|small cell lung	retinoblastoma|sarcoma|breast|small cell lung			Hereditary_Retinoblastoma	TCGA GBM(7;6.82e-08)|TSP Lung(12;0.097)|TCGA Ovarian(6;0.080)			36	71	---	---	---	---	PASS
UTP14C	9724	broad.mit.edu	37	13	52604079	52604079	+	Missense_Mutation	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:52604079G>A	uc001vgb.2	+	2	1674	c.1139G>A	c.(1138-1140)AGT>AAT	p.S380N	UTP14C_uc001vgc.2_RNA	NM_021645	NP_067677	Q5TAP6	UT14C_HUMAN	UTP14, U3 small nucleolar ribonucleoprotein,	380					cell differentiation|meiosis|multicellular organismal development|rRNA processing|spermatogenesis	nucleolus|small-subunit processome				ovary(3)|large_intestine(1)|breast(1)	5		Breast(56;0.00173)|Lung NSC(96;0.0108)|Prostate(109;0.0412)|Hepatocellular(98;0.152)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(99;2.3e-08)		AGCTGCACCAGTGACACCAAA	0.537													40	61	---	---	---	---	PASS
HNRNPA1L2	144983	broad.mit.edu	37	13	53211535	53211535	+	5'UTR	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:53211535G>A	uc001vgx.1	+	6					HNRNPA1L2_uc001vgy.1_5'UTR|HNRNPA1L2_uc001vgz.1_5'UTR	NM_001011724	NP_001011724	Q32P51	RA1L2_HUMAN	heterogeneous nuclear ribonucleoprotein A1-like						mRNA processing|mRNA transport|RNA splicing	cytoplasm|spliceosomal complex	nucleotide binding|RNA binding				0						ACTGATCCAGGGGACAAAAGA	0.383													19	24	---	---	---	---	PASS
TDRD3	81550	broad.mit.edu	37	13	61041463	61041463	+	Missense_Mutation	SNP	G	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:61041463G>T	uc001via.2	+	5	954	c.166G>T	c.(166-168)GTT>TTT	p.V56F	TDRD3_uc010aef.2_5'UTR|TDRD3_uc001vhz.3_Missense_Mutation_p.V56F|TDRD3_uc010aeg.2_Missense_Mutation_p.V149F|TDRD3_uc001vib.3_Missense_Mutation_p.V56F	NM_030794	NP_110421	Q9H7E2	TDRD3_HUMAN	tudor domain containing 3 isoform 2	56					chromatin modification	cytoplasm|nucleus	chromatin binding|methylated histone residue binding|nucleic acid binding|transcription coactivator activity			upper_aerodigestive_tract(1)|skin(1)	2		Prostate(109;0.173)|Breast(118;0.174)		GBM - Glioblastoma multiforme(99;0.000291)		TAACACCACAGTTCTTGGTGG	0.383													70	107	---	---	---	---	PASS
PCDH9	5101	broad.mit.edu	37	13	67799771	67799771	+	Silent	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:67799771G>A	uc001vik.2	-	2	3494	c.2802C>T	c.(2800-2802)GAC>GAT	p.D934D	PCDH9_uc001vil.2_Silent_p.D934D|PCDH9_uc010thl.1_Silent_p.D934D|PCDH9_uc001vin.3_Silent_p.D934D	NM_203487	NP_982354	Q9HC56	PCDH9_HUMAN	protocadherin 9 isoform 1 precursor	934	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)|skin(1)	6		Hepatocellular(98;0.0906)|Breast(118;0.107)		GBM - Glioblastoma multiforme(99;0.00819)		GCTTGGCCAGGTCAGGACTGT	0.507													19	176	---	---	---	---	PASS
OR4N5	390437	broad.mit.edu	37	14	20612221	20612221	+	Silent	SNP	G	T	T	rs138565527		TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:20612221G>T	uc010tla.1	+	1	327	c.327G>T	c.(325-327)GCG>GCT	p.A109A		NM_001004724	NP_001004724	Q8IXE1	OR4N5_HUMAN	olfactory receptor, family 4, subfamily N,	109	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_cancers(95;0.00108)		Epithelial(56;7.58e-07)|all cancers(55;3.84e-06)	GBM - Glioblastoma multiforme(265;0.0143)		TTCTTGGAGCGGGAGAGATGT	0.488													84	220	---	---	---	---	PASS
SALL2	6297	broad.mit.edu	37	14	21992660	21992660	+	Missense_Mutation	SNP	T	C	C			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:21992660T>C	uc001wbe.2	-	2	1484	c.1202A>G	c.(1201-1203)TAT>TGT	p.Y401C	SALL2_uc010tly.1_Missense_Mutation_p.Y399C|SALL2_uc010tlz.1_Missense_Mutation_p.Y264C|SALL2_uc001wbf.3_Intron|SALL2_uc010tma.1_Missense_Mutation_p.Y266C|SALL2_uc001wbg.1_Intron	NM_005407	NP_005398	Q9Y467	SALL2_HUMAN	sal-like 2	401	C2H2-type 2.						DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|large_intestine(1)	3	all_cancers(95;0.000662)			GBM - Glioblastoma multiforme(265;0.0151)		ATTGCACTTATAGGGCCTCTC	0.532													28	103	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	14	22466322	22466322	+	Intron	SNP	G	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:22466322G>T	uc001wbw.2	+						uc010tmh.1_Intron|uc010aiv.1_Intron|uc010tmi.1_Intron|uc010tmj.1_Intron|uc010aja.1_Intron|uc010tmk.1_Intron|uc010tmo.1_Intron|uc001wco.2_Intron|uc010aje.1_Silent_p.T84T|uc001wcp.2_Silent_p.T84T|uc001wcr.1_Silent_p.T44T|uc001wcs.1_Silent_p.T44T|uc010ajf.1_Silent_p.T44T|uc001wcq.2_Silent_p.T84T|uc010ajd.1_Silent_p.T84T					SubName: Full=Alpha-chain C region; Flags: Fragment;																		TAAGAGTCACGCTTGACACTT	0.448													28	60	---	---	---	---	PASS
HECTD1	25831	broad.mit.edu	37	14	31637558	31637558	+	Missense_Mutation	SNP	C	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:31637558C>A	uc001wrc.1	-	10	2057	c.1568G>T	c.(1567-1569)AGG>ATG	p.R523M	HECTD1_uc001wrd.1_Missense_Mutation_p.R38M	NM_015382	NP_056197	Q9ULT8	HECD1_HUMAN	HECT domain containing 1	523					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)		TGGCAATAACCTTTTCAAGTA	0.338													83	274	---	---	---	---	PASS
CLEC14A	161198	broad.mit.edu	37	14	38724033	38724033	+	Missense_Mutation	SNP	C	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:38724033C>T	uc001wum.1	-	1	1542	c.1195G>A	c.(1195-1197)GTC>ATC	p.V399I		NM_175060	NP_778230	Q86T13	CLC14_HUMAN	C-type lectin domain family 14, member A	399	Helical; (Potential).					integral to membrane	sugar binding			ovary(3)|skin(1)	4	Hepatocellular(127;0.213)|Esophageal squamous(585;0.22)		Lung(238;3.93e-06)|LUAD - Lung adenocarcinoma(48;2.62e-05)|Epithelial(34;0.187)	GBM - Glioblastoma multiforme(112;0.00439)		AATATGAAGACCACGGCAGAG	0.507													12	49	---	---	---	---	PASS
ABCD4	5826	broad.mit.edu	37	14	74756769	74756769	+	Silent	SNP	T	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:74756769T>A	uc001xpr.2	-	13	1532	c.1380A>T	c.(1378-1380)CCA>CCT	p.P460P	ABCD4_uc001xps.2_Silent_p.P301P|ABCD4_uc001xpt.2_Silent_p.P301P|ABCD4_uc010tur.1_Silent_p.P356P	NM_005050	NP_005041	O14678	ABCD4_HUMAN	ATP-binding cassette, sub-family D, member 4	460	ABC transporter.					ATP-binding cassette (ABC) transporter complex|integral to membrane|peroxisomal membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			upper_aerodigestive_tract(2)|large_intestine(1)|ovary(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.00153)		ATGGCTTTTGTGGCAGGAATA	0.597											OREG0022800	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	50	71	---	---	---	---	PASS
LTBP2	4053	broad.mit.edu	37	14	74988700	74988700	+	Missense_Mutation	SNP	C	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:74988700C>T	uc001xqa.2	-	17	3089	c.2702G>A	c.(2701-2703)CGC>CAC	p.R901H		NM_000428	NP_000419	Q14767	LTBP2_HUMAN	latent transforming growth factor beta binding	901	EGF-like 5; calcium-binding (Potential).|Cys-rich.				protein secretion|protein targeting|transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|growth factor binding			liver(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00219)|READ - Rectum adenocarcinoma(1;0.0649)		GTTGATGCAGCGCCCTTTTCC	0.627													5	57	---	---	---	---	PASS
ADAM6	8755	broad.mit.edu	37	14	106135016	106135016	+	Intron	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:106135016G>A	uc010tyt.1	-						uc001yrs.2_Intron|uc001yrt.2_Intron|uc001yrw.1_Intron|uc001yrx.1_Intron|uc001yrz.1_Intron|uc001ysb.1_RNA					Parts of antibodies, mostly variable regions.												0						TTTTGGAGATGGTTTTCTCGA	0.617													112	467	---	---	---	---	PASS
ADAM6	8755	broad.mit.edu	37	14	106207966	106207966	+	RNA	SNP	G	C	C			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:106207966G>C	uc010tyt.1	-	3628		c.59151C>G			uc001yrs.2_Intron|uc001yrt.2_Intron|uc001yrw.1_Intron|uc001yrx.1_Intron|uc001yrz.1_Intron|uc001yse.2_Silent_p.P145P|uc001ysf.2_Silent_p.P145P					Parts of antibodies, mostly variable regions.												0						AGTCCAGCACGGGAGGCGTGG	0.597													54	274	---	---	---	---	PASS
ADAM6	8755	broad.mit.edu	37	14	106329653	106329653	+	RNA	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:106329653G>A	uc010tyt.1	-	3579		c.54334C>T			uc001yrs.2_Intron|uc001yrt.2_Intron|uc001yrw.1_5'Flank|uc001yrx.1_Intron|uc001yrz.1_Intron|uc001yse.2_Intron|uc001ysf.2_Intron|uc001ysj.2_5'Flank|uc001ysk.1_5'Flank|uc001ysl.1_5'Flank|uc001ysm.1_Intron|uc001ysn.1_Intron|uc001yso.1_Intron					Parts of antibodies, mostly variable regions.												0						GACCACTGTCGGCCTGGGAAG	0.647													4	5	---	---	---	---	PASS
ADAM6	8755	broad.mit.edu	37	14	106494311	106494311	+	RNA	SNP	G	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:106494311G>T	uc010tyt.1	-	1760		c.34687C>A								Parts of antibodies, mostly variable regions.												0						TTTCCTGGGGGCTGACGGATC	0.562													25	104	---	---	---	---	PASS
LOC646214	646214	broad.mit.edu	37	15	21936892	21936892	+	RNA	SNP	C	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:21936892C>A	uc010tzj.1	-	1		c.3848G>T				NR_027053				Homo sapiens mRNA for p21-activated kinase 2 variant protein.												0						TTCCGTGTAACCACTTCTGGT	0.502													12	208	---	---	---	---	PASS
SNRPN	6638	broad.mit.edu	37	15	25226945	25226945	+	Intron	SNP	C	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:25226945C>A	uc001ywz.1	+						PAR-SN_uc001yxa.1_RNA|PAR-SN_uc001yxc.2_RNA|PAR-SN_uc001yxb.3_5'Flank			P63162	RSMN_HUMAN	Homo sapiens SNRPN upstream reading frame protein (SNURF) mRNA, complete cds.						RNA splicing	small nuclear ribonucleoprotein complex|spliceosomal complex	identical protein binding|RNA binding			ovary(1)	1		all_cancers(20;9.33e-22)|Breast(32;0.000625)		all cancers(64;3.38e-08)|Epithelial(43;3.45e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000207)|GBM - Glioblastoma multiforme(186;0.125)		CATTTTTTGACCACTTAGTTG	0.388									Prader-Willi_syndrome				5	22	---	---	---	---	PASS
HERC2	8924	broad.mit.edu	37	15	28421740	28421740	+	Missense_Mutation	SNP	C	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:28421740C>A	uc001zbj.2	-	63	9626	c.9520G>T	c.(9520-9522)GTA>TTA	p.V3174L		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	3174	RCC1 10.				DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		CAGGAAAATACCAAACCTAGG	0.493													73	191	---	---	---	---	PASS
HERC2	8924	broad.mit.edu	37	15	28421741	28421741	+	Missense_Mutation	SNP	C	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:28421741C>A	uc001zbj.2	-	63	9625	c.9519G>T	c.(9517-9519)TTG>TTT	p.L3173F		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	3173	RCC1 10.				DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		AGGAAAATACCAAACCTAGGT	0.498													73	192	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	15	28599941	28599941	+	Missense_Mutation	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:28599941G>A	uc010uaf.1	-	4	319	c.301C>T	c.(301-303)CAT>TAT	p.H101Y						SubName: Full=Putative uncharacterized protein ENSP00000383535; Flags: Fragment;																		TTGACAGCATGCTGGCTGTAG	0.498													23	85	---	---	---	---	PASS
TMEM62	80021	broad.mit.edu	37	15	43427845	43427845	+	Missense_Mutation	SNP	A	G	G			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:43427845A>G	uc001zqr.2	+	3	707	c.428A>G	c.(427-429)CAT>CGT	p.H143R	TMEM62_uc010bda.2_Missense_Mutation_p.H13R	NM_024956	NP_079232	Q0P6H9	TMM62_HUMAN	transmembrane protein 62	143						integral to membrane				ovary(1)|breast(1)	2		all_cancers(109;1.16e-10)|all_epithelial(112;2.01e-09)|Lung NSC(122;8.91e-07)|all_lung(180;8.8e-06)|Melanoma(134;0.0728)		GBM - Glioblastoma multiforme(94;4.23e-07)		AAAGGAAATCATGGTAAGAGC	0.408													4	34	---	---	---	---	PASS
CHRNA3	1136	broad.mit.edu	37	15	78893669	78893669	+	Missense_Mutation	SNP	G	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:78893669G>T	uc002bec.2	-	5	1501	c.1315C>A	c.(1315-1317)CCA>ACA	p.P439T	CHRNA3_uc002bea.2_RNA|CHRNA3_uc002beb.2_Missense_Mutation_p.P439T	NM_000743	NP_000734	P32297	ACHA3_HUMAN	cholinergic receptor, nicotinic, alpha 3	439	Cytoplasmic (Potential).				activation of transmembrane receptor protein tyrosine kinase activity|behavioral response to nicotine|locomotory behavior|regulation of acetylcholine secretion|regulation of dendrite morphogenesis|regulation of excitatory postsynaptic membrane potential|regulation of smooth muscle contraction|synaptic transmission involved in micturition|synaptic transmission, cholinergic	cell junction|dendrite|neuronal cell body|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic density|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			central_nervous_system(3)|ovary(1)	4						TTGATTTCTGGTGACAAAGCA	0.408													65	148	---	---	---	---	PASS
BNC1	646	broad.mit.edu	37	15	83935803	83935803	+	Missense_Mutation	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:83935803G>A	uc002bjt.1	-	3	308	c.220C>T	c.(220-222)CCC>TCC	p.P74S	BNC1_uc010uos.1_Missense_Mutation_p.P62S	NM_001717	NP_001708	Q01954	BNC1_HUMAN	basonuclin 1	74					epidermis development|positive regulation of cell proliferation	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						TACATGGGGGGGATCCTTAGC	0.423													18	43	---	---	---	---	PASS
FAM169B	283777	broad.mit.edu	37	15	99023900	99023900	+	Missense_Mutation	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:99023900G>A	uc002buk.1	-	4	363	c.113C>T	c.(112-114)TCT>TTT	p.S38F		NM_182562	NP_872368	Q8N8A8	F169B_HUMAN	hypothetical protein LOC283777	38											0						TTCCTTCACAGAGTGAGGTAG	0.443													42	60	---	---	---	---	PASS
TTC23	64927	broad.mit.edu	37	15	99715294	99715294	+	Missense_Mutation	SNP	C	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:99715294C>T	uc002bur.2	-	9	1357	c.826G>A	c.(826-828)GCC>ACC	p.A276T	TTC23_uc002bus.2_Missense_Mutation_p.A276T|TTC23_uc002but.2_Missense_Mutation_p.A276T|TTC23_uc002buu.2_Missense_Mutation_p.A276T|TTC23_uc002buv.2_Missense_Mutation_p.A276T|TTC23_uc002bux.2_Missense_Mutation_p.A276T|TTC23_uc002buw.2_Missense_Mutation_p.A276T|TTC23_uc010boq.2_RNA|TTC23_uc002buy.2_Missense_Mutation_p.A276T|TTC23_uc010bor.2_Missense_Mutation_p.A276T|TTC23_uc002buz.2_Missense_Mutation_p.A276T	NM_022905	NP_075056	Q5W5X9	TTC23_HUMAN	tetratricopeptide repeat domain 23	276							binding				0	all_cancers(4;1.49e-13)|Lung NSC(78;0.000545)|all_lung(78;0.00121)|Melanoma(26;0.00505)|Medulloblastoma(229;0.163)		all cancers(5;8.11e-09)|OV - Ovarian serous cystadenocarcinoma(32;0.00215)			GCAGCATGGGCGACGATGTGT	0.512													27	53	---	---	---	---	PASS
LASS3	204219	broad.mit.edu	37	15	101041925	101041925	+	Missense_Mutation	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:101041925G>A	uc002bvz.2	-	4	632	c.130C>T	c.(130-132)CCA>TCA	p.P44S	LASS3_uc002bwa.2_Missense_Mutation_p.P55S|LASS3_uc002bwb.2_Missense_Mutation_p.P44S	NM_178842	NP_849164	Q8IU89	CERS3_HUMAN	LAG1 longevity assurance homolog 3	44	Helical; (Potential).					endoplasmic reticulum membrane|integral to membrane|nuclear membrane	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sphingosine N-acyltransferase activity			ovary(2)|pancreas(1)|skin(1)	4	Lung NSC(78;0.0018)|all_lung(78;0.00278)|Melanoma(26;0.00852)		OV - Ovarian serous cystadenocarcinoma(32;0.000867)|LUSC - Lung squamous cell carcinoma(107;0.132)|Lung(145;0.161)			AAAGCATATGGAATTGTCACG	0.393													8	72	---	---	---	---	PASS
ALDH1A3	220	broad.mit.edu	37	15	101436230	101436230	+	Silent	SNP	C	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:101436230C>A	uc002bwn.3	+	7	863	c.759C>A	c.(757-759)ATC>ATA	p.I253I	ALDH1A3_uc010bpb.2_Silent_p.I146I|uc002bwo.1_RNA	NM_000693	NP_000684	P47895	AL1A3_HUMAN	aldehyde dehydrogenase 1A3	253					retinal metabolic process	cytoplasm	aldehyde dehydrogenase|protein homodimerization activity			central_nervous_system(2)|lung(1)|pancreas(1)	4	Lung NSC(78;0.00144)|all_lung(78;0.0018)|Melanoma(26;0.00852)		OV - Ovarian serous cystadenocarcinoma(32;0.000932)|LUSC - Lung squamous cell carcinoma(107;0.0766)|Lung(145;0.103)		NADH(DB00157)|Vitamin A(DB00162)	TCAACAAGATCGCCTTCACCG	0.562													3	23	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	16	16465467	16465467	+	Missense_Mutation	SNP	A	G	G			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:16465467A>G	uc002dey.2	+	1	471	c.184A>G	c.(184-186)AAC>GAC	p.N62D						SubName: Full=cDNA FLJ42525 fis, clone BRACE3001391, highly similar to Polycystin;																		GGACAGCAGCAACCCTGTGGC	0.682													16	99	---	---	---	---	PASS
DNAH3	55567	broad.mit.edu	37	16	20966209	20966209	+	Missense_Mutation	SNP	A	G	G			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:20966209A>G	uc010vbe.1	-	55	10997	c.10997T>C	c.(10996-10998)ATG>ACG	p.M3666T	DNAH3_uc010vbd.1_Missense_Mutation_p.M1101T	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	3666	AAA 6 (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)		CTTTTGCCACATCACCGCCTT	0.527													64	172	---	---	---	---	PASS
DNAH3	55567	broad.mit.edu	37	16	21117941	21117941	+	Missense_Mutation	SNP	G	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:21117941G>T	uc010vbe.1	-	15	2154	c.2154C>A	c.(2152-2154)AAC>AAA	p.N718K	DNAH3_uc002die.2_Missense_Mutation_p.N658K	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	718	Stem (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)		GCTCCTTAGTGTTGGCAGGAA	0.403													27	72	---	---	---	---	PASS
IL21R	50615	broad.mit.edu	37	16	27460030	27460030	+	Missense_Mutation	SNP	A	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:27460030A>T	uc002doq.1	+	9	1276	c.1043A>T	c.(1042-1044)AAG>ATG	p.K348M	IL21R_uc002dor.1_Missense_Mutation_p.K348M|IL21R_uc002dos.1_Missense_Mutation_p.K348M|uc002dot.2_RNA	NM_181078	NP_851564	Q9HBE5	IL21R_HUMAN	interleukin 21 receptor precursor	348	Cytoplasmic (Potential).				natural killer cell activation	integral to membrane	interleukin-21 receptor activity			ovary(2)|lung(1)|breast(1)	4						GGTGTGCCCAAGCCCAGCTTC	0.627			T	BCL6	NHL								25	79	---	---	---	---	PASS
ZNF629	23361	broad.mit.edu	37	16	30793590	30793590	+	Missense_Mutation	SNP	C	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:30793590C>T	uc002dzs.1	-	3	2267	c.2059G>A	c.(2059-2061)GAA>AAA	p.E687K		NM_001080417	NP_001073886	Q9UEG4	ZN629_HUMAN	zinc finger protein 629	687					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			Colorectal(24;0.198)			AAGGGCTTTTCGTTGCCGTGG	0.567													17	25	---	---	---	---	PASS
ZNF423	23090	broad.mit.edu	37	16	49671865	49671865	+	Missense_Mutation	SNP	C	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:49671865C>T	uc002efs.2	-	5	1496	c.1198G>A	c.(1198-1200)GAC>AAC	p.D400N	ZNF423_uc010vgn.1_Missense_Mutation_p.D283N	NM_015069	NP_055884	Q2M1K9	ZN423_HUMAN	zinc finger protein 423	400					cell differentiation|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(1)|lung(1)|kidney(1)|pancreas(1)	4		all_cancers(37;0.0155)				CCCTGCCCGTCATCCCGCATC	0.627													37	54	---	---	---	---	PASS
CDH8	1006	broad.mit.edu	37	16	61935121	61935121	+	Missense_Mutation	SNP	C	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:61935121C>A	uc002eog.1	-	3	761	c.509G>T	c.(508-510)GGA>GTA	p.G170V		NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein	170	Extracellular (Potential).|Cadherin 2.				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)		ATGATAGGGTCCATTAAGAAA	0.403													37	69	---	---	---	---	PASS
CDH8	1006	broad.mit.edu	37	16	61935122	61935122	+	Nonsense_Mutation	SNP	C	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:61935122C>A	uc002eog.1	-	3	760	c.508G>T	c.(508-510)GGA>TGA	p.G170*		NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein	170	Extracellular (Potential).|Cadherin 2.				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)		TGATAGGGTCCATTAAGAAAC	0.398													37	70	---	---	---	---	PASS
FOXC2	2303	broad.mit.edu	37	16	86601425	86601425	+	Silent	SNP	C	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:86601425C>T	uc002fjq.2	+	1	569	c.484C>T	c.(484-486)CTG>TTG	p.L162L		NM_005251	NP_005242	Q99958	FOXC2_HUMAN	forkhead box C2	162	Fork-head.				anti-apoptosis|artery morphogenesis|blood vessel remodeling|camera-type eye development|cardiac muscle cell proliferation|collagen fibril organization|embryonic heart tube development|embryonic viscerocranium morphogenesis|insulin receptor signaling pathway|lymphangiogenesis|metanephros development|negative regulation of transcription from RNA polymerase II promoter|neural crest cell fate commitment|Notch signaling pathway|ossification|paraxial mesodermal cell fate commitment|patterning of blood vessels|positive regulation of cell adhesion mediated by integrin|positive regulation of cell migration involved in sprouting angiogenesis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of vascular wound healing|regulation of blood vessel size|regulation of organ growth|regulation of sequence-specific DNA binding transcription factor activity|somitogenesis|ureteric bud development|vascular endothelial growth factor receptor signaling pathway|vasculogenesis|ventricular cardiac muscle tissue morphogenesis	transcription factor complex	chromatin DNA binding|DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription factor binding|transcription regulatory region DNA binding				0						CGGCAGCTTCCTGCGGCGCCG	0.667									Late-onset_Hereditary_Lymphedema				28	46	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	17	21731532	21731532	+	3'UTR	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:21731532G>A	uc002gyy.3	+	2										SubName: Full=cDNA FLJ51326, highly similar to Homo sapiens ubiquitin B (UBB), mRNA;																		CAAGAAGTTGGAAGATGGCCG	0.532													15	46	---	---	---	---	PASS
UNC45B	146862	broad.mit.edu	37	17	33479931	33479931	+	Missense_Mutation	SNP	C	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:33479931C>T	uc002hja.2	+	5	498	c.401C>T	c.(400-402)ACA>ATA	p.T134I	UNC45B_uc002hjb.2_Missense_Mutation_p.T134I|UNC45B_uc002hjc.2_Missense_Mutation_p.T134I|UNC45B_uc010cto.2_Missense_Mutation_p.T134I	NM_173167	NP_775259	Q8IWX7	UN45B_HUMAN	cardiomyopathy associated 4 isoform 1	134					cell differentiation|muscle organ development	cytosol	binding			ovary(3)|central_nervous_system(2)|breast(1)	6		Ovarian(249;0.17)				CAGTTCTCCACAGACTCGAGG	0.537													39	222	---	---	---	---	PASS
UNC45B	146862	broad.mit.edu	37	17	33496943	33496943	+	Missense_Mutation	SNP	T	G	G			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:33496943T>G	uc002hja.2	+	11	1637	c.1540T>G	c.(1540-1542)TGT>GGT	p.C514G	UNC45B_uc002hjb.2_Missense_Mutation_p.C514G|UNC45B_uc002hjc.2_Missense_Mutation_p.C514G|UNC45B_uc010cto.2_Intron	NM_173167	NP_775259	Q8IWX7	UN45B_HUMAN	cardiomyopathy associated 4 isoform 1	514					cell differentiation|muscle organ development	cytosol	binding			ovary(3)|central_nervous_system(2)|breast(1)	6		Ovarian(249;0.17)				GGCCAAACAGTGTCGCAAGTA	0.582													32	68	---	---	---	---	PASS
KRT13	3860	broad.mit.edu	37	17	39659035	39659035	+	Silent	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:39659035G>A	uc002hwu.1	-	5	990	c.927C>T	c.(925-927)ACC>ACT	p.T309T	KRT13_uc002hwv.1_Silent_p.T309T|KRT13_uc002hww.2_Silent_p.T202T|KRT13_uc010wfr.1_Silent_p.T202T|KRT13_uc010cxo.2_Silent_p.T309T|KRT13_uc002hwx.1_Silent_p.T297T	NM_153490	NP_705694	P13646	K1C13_HUMAN	keratin 13 isoform a	309	Rod.|Coil 2.				epidermis development	intermediate filament	structural molecule activity			ovary(2)|skin(2)|pancreas(1)	5		Breast(137;0.000286)				TGGCAGTGTTGGTAGACACCT	0.567													65	258	---	---	---	---	PASS
STAT5B	6777	broad.mit.edu	37	17	40370182	40370182	+	Missense_Mutation	SNP	C	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:40370182C>T	uc002hzh.2	-	9	1325	c.1156G>A	c.(1156-1158)GAG>AAG	p.E386K	STAT5B_uc002hzi.3_Missense_Mutation_p.E386K	NM_012448	NP_036580	P51692	STA5B_HUMAN	signal transducer and activator of transcription	386					2-oxoglutarate metabolic process|allantoin metabolic process|citrate metabolic process|creatine metabolic process|creatinine metabolic process|fatty acid metabolic process|isoleucine metabolic process|JAK-STAT cascade involved in growth hormone signaling pathway|oxaloacetate metabolic process|response to estradiol stimulus|succinate metabolic process|taurine metabolic process|valine metabolic process	cytosol|nucleoplasm	calcium ion binding|glucocorticoid receptor binding|sequence-specific DNA binding transcription factor activity			ovary(3)|lung(2)|skin(1)	6		all_cancers(22;4.15e-07)|all_epithelial(22;2.83e-05)|Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.135)	Dasatinib(DB01254)	CGGGTGTTCTCGTTCTTGAGC	0.547													17	26	---	---	---	---	PASS
ABCA8	10351	broad.mit.edu	37	17	66871845	66871845	+	Missense_Mutation	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:66871845G>A	uc002jhp.2	-	34	4459	c.4280C>T	c.(4279-4281)ACG>ATG	p.T1427M	ABCA8_uc002jhq.2_Missense_Mutation_p.T1467M|ABCA8_uc010wqq.1_Missense_Mutation_p.T1462M	NM_007168	NP_009099	O94911	ABCA8_HUMAN	ATP-binding cassette, sub-family A member 8	1427	ABC transporter 2.					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)					ACCCCTTTCCGTGTTTCTAAA	0.483													39	54	---	---	---	---	PASS
KCNJ2	3759	broad.mit.edu	37	17	68171213	68171213	+	Silent	SNP	C	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:68171213C>T	uc010dfg.2	+	2	434	c.33C>T	c.(31-33)ATC>ATT	p.I11I	KCNJ2_uc002jir.2_Silent_p.I11I	NM_000891	NP_000882	P63252	IRK2_HUMAN	potassium inwardly-rectifying channel J2	11	Cytoplasmic (By similarity).				synaptic transmission	integral to plasma membrane	inward rectifier potassium channel activity|protein binding				0	Breast(10;1.64e-08)					GCTACAGCATCGTCTCTTCAG	0.512													34	68	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	17	76497363	76497363	+	RNA	SNP	G	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:76497363G>T	uc002jvt.1	+	2		c.2822G>T								Homo sapiens cDNA FLJ45552 fis, clone BRTHA2038279.																		AAGCAGTGTCGCTTCTCTTCG	0.587													28	98	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	17	78293139	78293139	+	Silent	SNP	G	A	A	rs147895650		TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:78293139G>A	uc002jyf.2	+	17	3194	c.3051G>A	c.(3049-3051)ACG>ACA	p.T1017T	uc002jyg.1_Intron	NM_020954	NP_066005			hypothetical protein LOC57714																		CCTGGGAAACGGATTCGGGCT	0.557													35	126	---	---	---	---	PASS
DTNA	1837	broad.mit.edu	37	18	32395882	32395882	+	Missense_Mutation	SNP	A	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:32395882A>T	uc010dmn.1	+	6	614	c.613A>T	c.(613-615)ACG>TCG	p.T205S	DTNA_uc002kxu.2_Missense_Mutation_p.T205S|DTNA_uc010xbx.1_Intron|DTNA_uc002kxv.3_Missense_Mutation_p.T205S|DTNA_uc002kxw.2_Missense_Mutation_p.T205S|DTNA_uc002kxx.2_Missense_Mutation_p.T205S|DTNA_uc010dmj.2_Missense_Mutation_p.T205S|DTNA_uc002kxz.2_Missense_Mutation_p.T205S|DTNA_uc002kxy.2_Missense_Mutation_p.T205S|DTNA_uc010dmk.1_RNA|DTNA_uc010dml.2_Missense_Mutation_p.T205S|DTNA_uc002kyb.3_Missense_Mutation_p.T205S|DTNA_uc010dmm.2_Missense_Mutation_p.T205S|DTNA_uc010xby.1_5'Flank|DTNA_uc010dmo.2_5'Flank|DTNA_uc002kyd.3_5'Flank|DTNA_uc010xbz.1_5'Flank|DTNA_uc010xca.1_5'Flank|DTNA_uc002kye.2_5'Flank	NM_001390	NP_001381	Q9Y4J8	DTNA_HUMAN	dystrobrevin alpha isoform 1	205	Interaction with MAGEE1 (By similarity).				neuromuscular synaptic transmission|signal transduction|striated muscle contraction	cell junction|cytoplasm|synapse	calcium ion binding|protein binding|zinc ion binding				0						GAAAAAAGTCACGTTAAATGG	0.398													15	149	---	---	---	---	PASS
LINGO3	645191	broad.mit.edu	37	19	2290293	2290293	+	Silent	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:2290293G>A	uc010dsx.1	-	2	1611	c.1483C>T	c.(1483-1485)CTG>TTG	p.L495L	SPPL2B_uc010dsw.1_Intron|uc002lvo.1_5'UTR	NM_001101391	NP_001094861	P0C6S8	LIGO3_HUMAN	leucine rich repeat and Ig domain containing 3	495	Extracellular (Potential).|Ig-like C2-type.					integral to membrane					0						CGCACGGTCAGCGTGGCGAAG	0.746													6	15	---	---	---	---	PASS
TMPRSS9	360200	broad.mit.edu	37	19	2413950	2413950	+	Missense_Mutation	SNP	C	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:2413950C>T	uc010xgx.1	+	9	1405	c.1405C>T	c.(1405-1407)CCC>TCC	p.P469S	TMPRSS9_uc002lvv.1_Missense_Mutation_p.P503S	NM_182973	NP_892018	Q7Z410	TMPS9_HUMAN	transmembrane protease, serine 9	469	Extracellular (Potential).				proteolysis	integral to plasma membrane	serine-type endopeptidase activity			ovary(1)|central_nervous_system(1)	2				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)		GGTCAGCACCCCCACCAAATC	0.607													4	27	---	---	---	---	PASS
LMNB2	84823	broad.mit.edu	37	19	2433947	2433947	+	Silent	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:2433947G>A	uc002lvy.2	-	8	1386	c.1299C>T	c.(1297-1299)GGC>GGT	p.G433G	LMNB2_uc002lwa.1_Silent_p.G453G	NM_032737	NP_116126	Q03252	LMNB2_HUMAN	lamin B2	433	Tail.			LEVEEPLGSGPSVLGTGTGGSGGFHLAQQASASGSVS -> WRWRSPWQRPKRPGHGHGWQRWLPPGPAGLGLGQRH (in Ref. 5; AAA80979).		nuclear inner membrane	structural molecule activity			large_intestine(1)|ovary(1)	2		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)		CCGTGCCCGTGCCCAGGACGC	0.711													6	32	---	---	---	---	PASS
LMNB2	84823	broad.mit.edu	37	19	2433965	2433965	+	Silent	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:2433965G>A	uc002lvy.2	-	8	1368	c.1281C>T	c.(1279-1281)AGC>AGT	p.S427S	LMNB2_uc002lwa.1_Silent_p.S447S	NM_032737	NP_116126	Q03252	LMNB2_HUMAN	lamin B2	427	Tail.			LEVEEPLGSGPSVLGTGTGGSGGFHLAQQASASGSVS -> WRWRSPWQRPKRPGHGHGWQRWLPPGPAGLGLGQRH (in Ref. 5; AAA80979).		nuclear inner membrane	structural molecule activity			large_intestine(1)|ovary(1)	2		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)		CGCTTGGGCCGCTGCCCAAGG	0.716													5	25	---	---	---	---	PASS
C19orf29	58509	broad.mit.edu	37	19	3623701	3623701	+	Silent	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:3623701G>A	uc002lyh.2	-	2	680	c.627C>T	c.(625-627)ACC>ACT	p.T209T	C19orf29_uc010dtn.2_5'Flank|C19orf29_uc002lyi.3_Silent_p.T209T|C19orf29_uc010dto.2_RNA	NM_001080543	NP_001074012	Q8WUQ7	CS029_HUMAN	chromosome 19 open reading frame 29	209						catalytic step 2 spliceosome	protein binding				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00253)|STAD - Stomach adenocarcinoma(1328;0.18)		TCCAGATGAAGGTGCCCAGCA	0.592													3	24	---	---	---	---	PASS
MUC16	94025	broad.mit.edu	37	19	9067793	9067793	+	Missense_Mutation	SNP	C	G	G			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:9067793C>G	uc002mkp.2	-	3	19857	c.19653G>C	c.(19651-19653)AAG>AAC	p.K6551N		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	6553	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						TATCTGTGGTCTTCACTAGGC	0.483													24	52	---	---	---	---	PASS
EPOR	2057	broad.mit.edu	37	19	11489402	11489402	+	Missense_Mutation	SNP	C	G	G			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:11489402C>G	uc002mrj.1	-	7	1016	c.880G>C	c.(880-882)GAA>CAA	p.E294Q	EPOR_uc002mrh.2_5'UTR|EPOR_uc002mri.2_Missense_Mutation_p.E121Q|EPOR_uc002mrk.1_Missense_Mutation_p.E121Q|EPOR_uc002mrl.1_RNA|EPOR_uc010xlx.1_RNA|EPOR_uc010xly.1_Missense_Mutation_p.E121Q	NM_000121	NP_000112	P19235	EPOR_HUMAN	erythropoietin receptor precursor	294	Cytoplasmic (Potential).					extracellular region|integral to plasma membrane	erythropoietin receptor activity|identical protein binding			ovary(1)	1					Darbepoetin alfa(DB00012)|Epoetin alfa(DB00016)	AAGAGGCCTTCAAACTCGCTC	0.527													6	144	---	---	---	---	PASS
ZNF490	57474	broad.mit.edu	37	19	12691722	12691722	+	Silent	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:12691722G>A	uc002mtz.2	-	5	1296	c.1167C>T	c.(1165-1167)CCC>CCT	p.P389P		NM_020714	NP_065765	Q9ULM2	ZN490_HUMAN	zinc finger protein 490	389					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TACATTCATAGGGTTTTTCTC	0.393													22	132	---	---	---	---	PASS
NANOS3	342977	broad.mit.edu	37	19	13988556	13988556	+	Missense_Mutation	SNP	G	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:13988556G>T	uc002mxj.3	+	1	607	c.494G>T	c.(493-495)CGC>CTC	p.R165L		NM_001098622	NP_001092092	P60323	NANO3_HUMAN	nanos homolog 3	146					anti-apoptosis|germ cell development|multicellular organismal development|oogenesis|regulation of cell cycle|regulation of translation|spermatogenesis	cytoplasmic mRNA processing body|nucleus|stress granule	RNA binding|zinc ion binding			skin(1)	1			OV - Ovarian serous cystadenocarcinoma(19;2e-21)			ACAGGCCACCGCCGAGGAGGA	0.652													8	4	---	---	---	---	PASS
ZNF383	163087	broad.mit.edu	37	19	37726658	37726658	+	Intron	SNP	C	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:37726658C>T	uc002oft.1	+						ZNF383_uc002ofs.1_5'UTR|ZNF383_uc002ofu.1_Intron	NM_152604	NP_689817	Q8NA42	ZN383_HUMAN	zinc finger protein 383						regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			AGCTGCTTTTCAGGTTACTAG	0.433													25	58	---	---	---	---	PASS
RYR1	6261	broad.mit.edu	37	19	38931454	38931454	+	Missense_Mutation	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:38931454G>A	uc002oit.2	+	2	245	c.115G>A	c.(115-117)GAG>AAG	p.E39K	RYR1_uc002oiu.2_Missense_Mutation_p.E39K	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	39	Cytoplasmic.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	CCTGGCCGCCGAGGGCTTCGG	0.682													7	27	---	---	---	---	PASS
ZNF845	91664	broad.mit.edu	37	19	53854662	53854662	+	Missense_Mutation	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:53854662G>A	uc010ydv.1	+	4	851	c.734G>A	c.(733-735)TGT>TAT	p.C245Y	ZNF845_uc010ydw.1_Missense_Mutation_p.C245Y	NM_138374	NP_612383	Q96IR2	ZN845_HUMAN	zinc finger protein 845	245	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CAATATAAATGTGATGTGTGT	0.368													29	44	---	---	---	---	PASS
PEG3	5178	broad.mit.edu	37	19	57325002	57325002	+	3'UTR	SNP	C	G	G			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:57325002C>G	uc002qnu.2	-	7					ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_3'UTR|PEG3_uc002qnv.2_3'UTR|PEG3_uc002qnw.2_3'UTR|PEG3_uc002qnx.2_3'UTR|PEG3_uc010etr.2_3'UTR|PEG3AS_uc010ets.1_RNA	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1						apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		TGGTAAGGGTCAAGTCCTAGG	0.478													6	19	---	---	---	---	PASS
ZNF606	80095	broad.mit.edu	37	19	58491249	58491249	+	Missense_Mutation	SNP	C	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:58491249C>T	uc002qqw.2	-	7	1417	c.799G>A	c.(799-801)GAC>AAC	p.D267N	ZNF606_uc010yhp.1_Missense_Mutation_p.D177N	NM_025027	NP_079303	Q8WXB4	ZN606_HUMAN	zinc finger protein 606	267					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0168)		ACAGTTTTGTCATAATCATTA	0.338													135	170	---	---	---	---	PASS
PANK2	80025	broad.mit.edu	37	20	3869842	3869842	+	Missense_Mutation	SNP	C	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:3869842C>A	uc002wkc.2	+	1	101	c.95C>A	c.(94-96)ACC>AAC	p.T32N	uc002wjz.1_5'Flank|uc002wka.1_5'Flank|PANK2_uc002wkb.2_Intron|PANK2_uc010gbd.1_RNA|PANK2_uc002wkd.2_RNA|PANK2_uc002wke.2_5'Flank|PANK2_uc002wkf.2_5'Flank	NM_153638	NP_705902	Q9BZ23	PANK2_HUMAN	pantothenate kinase 2 isoform 1 preproprotein	32					cell death|coenzyme A biosynthetic process|pantothenate metabolic process	mitochondrial intermembrane space|nucleus	ATP binding|pantothenate kinase activity|protein binding				0						CTCCGCGGAACCCGGATCCCC	0.662													3	24	---	---	---	---	PASS
DHX35	60625	broad.mit.edu	37	20	37662873	37662873	+	Missense_Mutation	SNP	G	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:37662873G>T	uc002xjh.2	+	21	1991	c.1980G>T	c.(1978-1980)CAG>CAT	p.Q660H	DHX35_uc010zwa.1_Missense_Mutation_p.Q505H|DHX35_uc010zwb.1_Missense_Mutation_p.Q505H|DHX35_uc010zwc.1_Missense_Mutation_p.Q629H	NM_021931	NP_068750	Q9H5Z1	DHX35_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 35	660						catalytic step 2 spliceosome	ATP binding|ATP-dependent helicase activity|nucleic acid binding			lung(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)				AAGTTATACAGACCTCCAAGT	0.448													23	82	---	---	---	---	PASS
ELMO2	63916	broad.mit.edu	37	20	45022241	45022241	+	Splice_Site	SNP	C	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:45022241C>T	uc002xrt.1	-	5	330	c.120_splice	c.e5-1	p.G40_splice	ELMO2_uc002xru.1_Splice_Site_p.G40_splice|ELMO2_uc010zxr.1_Splice_Site_p.G40_splice|ELMO2_uc010zxs.1_Splice_Site|ELMO2_uc002xrx.1_Splice_Site_p.G40_splice	NM_133171	NP_573403	Q96JJ3	ELMO2_HUMAN	engulfment and cell motility 2						apoptosis|cell chemotaxis|phagocytosis	cytoskeleton|cytosol|membrane	lyase activity|receptor tyrosine kinase binding|SH3 domain binding			ovary(1)	1		Myeloproliferative disorder(115;0.0122)				CAACGACCACCTATGCAAGAG	0.453													96	195	---	---	---	---	PASS
ZNF831	128611	broad.mit.edu	37	20	57768011	57768011	+	Missense_Mutation	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:57768011G>A	uc002yan.2	+	1	1937	c.1937G>A	c.(1936-1938)AGG>AAG	p.R646K		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	646						intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					AAGAAAGCCAGGGAGGTGGGA	0.567													46	127	---	---	---	---	PASS
C20orf11	54994	broad.mit.edu	37	20	61572869	61572869	+	Silent	SNP	A	G	G			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:61572869A>G	uc002ydy.2	+	2	192	c.15A>G	c.(13-15)GAA>GAG	p.E5E		NM_017896	NP_060366	Q9NWU2	CT011_HUMAN	chromosome 20 open reading frame 11	5						nucleus	protein binding				0	Breast(26;5.68e-08)					GTTATGCAGAAAAACCCGATG	0.458													15	50	---	---	---	---	PASS
BAGE2	85319	broad.mit.edu	37	21	11029673	11029673	+	3'UTR	SNP	G	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:11029673G>T	uc002yit.1	-	7					TPTE_uc002yis.1_RNA	NM_182482	NP_872288			B melanoma antigen family, member 2 precursor												0			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		AAATGTCTGGGGACCACGAGG	0.433													9	268	---	---	---	---	PASS
USP25	29761	broad.mit.edu	37	21	17203740	17203740	+	Silent	SNP	C	T	T	rs145101158		TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:17203740C>T	uc002yjy.1	+	16	2002	c.1785C>T	c.(1783-1785)GCC>GCT	p.A595A	USP25_uc011aby.1_Silent_p.A595A|USP25_uc002yjz.1_Silent_p.A595A|USP25_uc010gla.1_Intron	NM_013396	NP_037528	Q9UHP3	UBP25_HUMAN	ubiquitin specific peptidase 25	595					protein modification process|ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(3)|liver(2)	5				Epithelial(23;7.55e-05)|all cancers(11;0.000429)|COAD - Colon adenocarcinoma(22;0.00543)|OV - Ovarian serous cystadenocarcinoma(11;0.00743)|Colorectal(24;0.0116)|Lung(58;0.0853)|LUSC - Lung squamous cell carcinoma(23;0.0889)		GATTACATGCCGTTTTAGTTC	0.373													24	131	---	---	---	---	PASS
TRAPPC10	7109	broad.mit.edu	37	21	45504129	45504129	+	Missense_Mutation	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:45504129G>A	uc002zea.2	+	15	2534	c.2365G>A	c.(2365-2367)GTG>ATG	p.V789M	TRAPPC10_uc010gpo.2_Missense_Mutation_p.V500M|TRAPPC10_uc011afa.1_Missense_Mutation_p.V208M	NM_003274	NP_003265	P48553	TPC10_HUMAN	trafficking protein particle complex 10	789					vesicle-mediated transport	Golgi apparatus|integral to membrane	binding|sodium ion transmembrane transporter activity			ovary(1)|skin(1)	2						CCAGCTGCACGTGGAGCCGCT	0.627													4	35	---	---	---	---	PASS
COL18A1	80781	broad.mit.edu	37	21	46910215	46910215	+	Silent	SNP	C	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:46910215C>T	uc011afs.1	+	19	3252	c.3231C>T	c.(3229-3231)CCC>CCT	p.P1077P	COL18A1_uc002zhg.2_Silent_p.P662P|COL18A1_uc002zhi.2_Silent_p.P842P	NM_130444	NP_569711	P39060	COIA1_HUMAN	alpha 1 type XVIII collagen isoform 3 precursor	1077	Triple-helical region 4 (COL4).				cell adhesion|negative regulation of cell proliferation|organ morphogenesis|visual perception	collagen|extracellular space	extracellular matrix structural constituent|metal ion binding|protein binding			central_nervous_system(1)	1				Colorectal(79;0.0157)|READ - Rectum adenocarcinoma(84;0.0929)		ATGGAGTCCCCGGGTTCCCCG	0.677													6	11	---	---	---	---	PASS
DDTL	100037417	broad.mit.edu	37	22	24313540	24313540	+	Missense_Mutation	SNP	T	C	C			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:24313540T>C	uc002zyy.3	+	3	427	c.350T>C	c.(349-351)ATA>ACA	p.I117T	DDT_uc011ajf.1_Intron	NM_001084393	NP_001077862	A6NHG4	DDTL_HUMAN	D-dopachrome tautomerase-like	117						cytoplasm	lyase activity				0						GGAGAGATAATAGAAGGTAAG	0.483													43	65	---	---	---	---	PASS
L3MBTL2	83746	broad.mit.edu	37	22	41605639	41605639	+	Intron	SNP	C	T	T	rs62889861	by1000genomes	TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:41605639C>T	uc003azo.2	+						L3MBTL2_uc010gyi.1_Intron|L3MBTL2_uc003azn.2_Intron|uc003azp.1_RNA	NM_031488	NP_113676	Q969R5	LMBL2_HUMAN	l(3)mbt-like 2						chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	methylated histone residue binding|transcription corepressor activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3						TGCAGCTTCTCCCCCCGTGCA	0.443													5	118	---	---	---	---	PASS
FUNDC1	139341	broad.mit.edu	37	X	44401284	44401284	+	Missense_Mutation	SNP	T	C	C			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:44401284T>C	uc004dgc.2	-	2	235	c.92A>G	c.(91-93)CAG>CGG	p.Q31R		NM_173794	NP_776155	Q8IVP5	FUND1_HUMAN	FUN14 domain containing 1	31											0						ATTCCACCACTGGTGTCTTCT	0.408													7	8	---	---	---	---	PASS
PCDH11X	27328	broad.mit.edu	37	X	91132785	91132785	+	Missense_Mutation	SNP	G	C	C			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:91132785G>C	uc004efk.1	+	2	2391	c.1546G>C	c.(1546-1548)GAT>CAT	p.D516H	PCDH11X_uc004efl.1_Missense_Mutation_p.D516H|PCDH11X_uc004efo.1_Missense_Mutation_p.D516H|PCDH11X_uc010nmv.1_Missense_Mutation_p.D516H|PCDH11X_uc004efm.1_Missense_Mutation_p.D516H|PCDH11X_uc004efn.1_Missense_Mutation_p.D516H|PCDH11X_uc004efh.1_Missense_Mutation_p.D516H|PCDH11X_uc004efj.1_Missense_Mutation_p.D516H	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	516	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						ATTCAGCCTGGATTGTCGTAC	0.438													36	27	---	---	---	---	PASS
ZMAT1	84460	broad.mit.edu	37	X	101138751	101138751	+	Missense_Mutation	SNP	C	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:101138751C>T	uc004eim.2	-	2	4633	c.1135G>A	c.(1135-1137)GAA>AAA	p.E379K	ZMAT1_uc011mrl.1_Missense_Mutation_p.E550K|ZMAT1_uc004ein.2_Missense_Mutation_p.E379K|ZMAT1_uc011mrm.1_Missense_Mutation_p.E379K	NM_032441	NP_115817	Q5H9K5	ZMAT1_HUMAN	zinc finger, matrin type 1 isoform 3	379						nucleus	zinc ion binding			ovary(1)	1						TCTGGCCTTTCTTTGCCTTCT	0.393													68	59	---	---	---	---	PASS
ZMAT1	84460	broad.mit.edu	37	X	101141649	101141649	+	Missense_Mutation	SNP	A	G	G			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:101141649A>G	uc004eim.2	-	1	3545	c.47T>C	c.(46-48)TTA>TCA	p.L16S	ZMAT1_uc011mrl.1_Missense_Mutation_p.L187S|ZMAT1_uc004ein.2_Missense_Mutation_p.L16S|ZMAT1_uc011mrm.1_Missense_Mutation_p.L16S	NM_032441	NP_115817	Q5H9K5	ZMAT1_HUMAN	zinc finger, matrin type 1 isoform 3	16						nucleus	zinc ion binding			ovary(1)	1						GAACATATCTAAAGATGTAAA	0.328													20	17	---	---	---	---	PASS
NXF3	56000	broad.mit.edu	37	X	102348006	102348006	+	5'UTR	SNP	G	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:102348006G>A	uc004eju.2	-	1					NXF3_uc011mrw.1_5'UTR|NXF3_uc011mrx.1_5'UTR	NM_022052	NP_071335	Q9H4D5	NXF3_HUMAN	nuclear RNA export factor 3							cytoplasm|nuclear RNA export factor complex	nucleocytoplasmic transporter activity|nucleotide binding|protein binding			ovary(1)|lung(1)|central_nervous_system(1)	3						GCCTGGGGACGGGAGTTTGGA	0.532													40	34	---	---	---	---	PASS
PRAMEF2	65122	broad.mit.edu	37	1	12920822	12920823	+	Intron	INS	-	A	A	rs151087650	by1000genomes	TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:12920822_12920823insA	uc001aum.1	+							NM_023014	NP_075390	O60811	PRAM2_HUMAN	PRAME family member 2												0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.00224)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;2.4e-06)|Kidney(185;4.89e-05)|COAD - Colon adenocarcinoma(227;0.000152)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		GCTAAAAGATGAAAAACAAAAA	0.470													4	2	---	---	---	---	
FBLIM1	54751	broad.mit.edu	37	1	16103362	16103362	+	Intron	DEL	A	-	-	rs36071270		TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:16103362delA	uc001axd.1	+						FBLIM1_uc001axe.1_Intron|FBLIM1_uc001axf.2_Intron|FBLIM1_uc001axh.1_Intron|FBLIM1_uc001axi.1_Intron	NM_017556	NP_060026	Q8WUP2	FBLI1_HUMAN	filamin-binding LIM protein-1 isoform a						cell adhesion|cell junction assembly|regulation of cell shape	cell cortex|cytoskeleton|cytosol|focal adhesion|intracellular membrane-bounded organelle	zinc ion binding			skin(1)	1		Colorectal(325;0.000257)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.56e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|KIRC - Kidney renal clear cell carcinoma(229;0.00244)|READ - Rectum adenocarcinoma(331;0.0649)|STAD - Stomach adenocarcinoma(313;0.138)		actccatctcaaaaaaaaaaa	0.149													4	3	---	---	---	---	
CSMD2	114784	broad.mit.edu	37	1	34175031	34175032	+	Intron	INS	-	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:34175031_34175032insA	uc001bxn.1	-						CSMD2_uc001bxm.1_Intron|CSMD2_uc001bxo.1_5'UTR	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2							integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				CTCTCAAACTTAAAAAAAAAAT	0.460													4	2	---	---	---	---	
MACF1	23499	broad.mit.edu	37	1	39770238	39770238	+	Intron	DEL	T	-	-			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:39770238delT	uc010ois.1	+						MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron|MACF1_uc009vvq.1_Intron|MACF1_uc001cdb.1_Intron	NM_012090	NP_036222	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker						cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			cttttctttcttttttttttt	0.159													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	55378654	55378654	+	IGR	DEL	A	-	-			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:55378654delA								DHCR24 (25733 upstream) : TMEM61 (67811 downstream)																							taccacagacaaaaaatattc	0.000													57	13	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	84709900	84709900	+	IGR	DEL	A	-	-			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:84709900delA								PRKACB (5721 upstream) : SAMD13 (54149 downstream)																							actctgtctcaaaaaaaaaaa	0.204													6	3	---	---	---	---	
ANP32E	81611	broad.mit.edu	37	1	150199259	150199259	+	Intron	DEL	T	-	-			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:150199259delT	uc001etw.2	-						ANP32E_uc010pbt.1_5'Flank|ANP32E_uc010pbu.1_Intron|ANP32E_uc010pbv.1_Intron|ANP32E_uc001etv.3_Intron|ANP32E_uc010pbw.1_Intron	NM_030920	NP_112182	Q9BTT0	AN32E_HUMAN	acidic (leucine-rich) nuclear phosphoprotein 32							cytoplasmic membrane-bounded vesicle|nucleus	phosphatase inhibitor activity				0	Lung NSC(24;7.29e-29)|Breast(34;0.00211)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)			ACAGCGATACTTTTTTTTTTT	0.348													4	2	---	---	---	---	
PELI1	57162	broad.mit.edu	37	2	64331637	64331637	+	Intron	DEL	T	-	-			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:64331637delT	uc002scs.3	-						PELI1_uc002sct.3_Intron	NM_020651	NP_065702	Q96FA3	PELI1_HUMAN	pellino protein						innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol				ovary(1)	1						tggtttgtcatttttttttta	0.025													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	83822400	83822401	+	IGR	INS	-	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:83822400_83822401insT								None (None upstream) : FUNDC2P2 (695405 downstream)																							TGCAATAAATGTTTTTTTAAAT	0.327													92	29	---	---	---	---	
TANC1	85461	broad.mit.edu	37	2	159992561	159992562	+	Intron	DEL	GC	-	-	rs35231270		TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:159992561_159992562delGC	uc002uag.2	+						TANC1_uc010fol.1_Intron|TANC1_uc010zcm.1_Intron|TANC1_uc010fom.1_Intron|TANC1_uc002uah.1_5'Flank	NM_033394	NP_203752	Q9C0D5	TANC1_HUMAN	tetratricopeptide repeat, ankyrin repeat and							cell junction|postsynaptic density|postsynaptic membrane	binding			ovary(2)|central_nervous_system(1)	3						gtgtgtgtgtgCGCGCGCGCGC	0.401													6	5	---	---	---	---	
BOLL	66037	broad.mit.edu	37	2	198643530	198643531	+	Intron	DEL	AC	-	-	rs140189200		TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:198643530_198643531delAC	uc002uus.2	-						BOLL_uc002uur.2_Intron|BOLL_uc002uut.2_Intron|BOLL_uc010zha.1_Intron|BOLL_uc002uuu.1_Intron	NM_033030	NP_149019	Q8N9W6	BOLL_HUMAN	boule isoform 2						cell differentiation|meiosis|multicellular organismal development|positive regulation of translational initiation|spermatogenesis	cytoplasm	nucleotide binding|protein binding|RNA binding|translation activator activity			ovary(2)	2						CCTCCAAAATacacacacacac	0.371													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	26990550	26990557	+	IGR	DEL	AGGAAGGG	-	-			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:26990550_26990557delAGGAAGGG								LRRC3B (238287 upstream) : NEK10 (161838 downstream)																							gggaggaggaaggaagggaggaagggag	0.062													4	2	---	---	---	---	
SCAP	22937	broad.mit.edu	37	3	47461048	47461048	+	Frame_Shift_Del	DEL	G	-	-			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:47461048delG	uc003crh.1	-	13	1965	c.1710delC	c.(1708-1710)CCCfs	p.P570fs	SCAP_uc011baz.1_Frame_Shift_Del_p.P315fs|SCAP_uc003crg.2_Frame_Shift_Del_p.P178fs	NM_012235	NP_036367	Q12770	SCAP_HUMAN	SREBF chaperone protein	570	Lumenal (By similarity).				cholesterol metabolic process|negative regulation of cholesterol biosynthetic process|positive regulation of low-density lipoprotein particle receptor biosynthetic process|positive regulation of transcription via sterol regulatory element binding involved in ER-nuclear sterol response pathway	endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|Golgi membrane|integral to membrane	unfolded protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000278)|KIRC - Kidney renal clear cell carcinoma(197;0.00592)|Kidney(197;0.00679)		CCGGGTGGCTGGGGGGCAGCA	0.657													92	11	---	---	---	---	
GAP43	2596	broad.mit.edu	37	3	115342811	115342811	+	Intron	DEL	T	-	-			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:115342811delT	uc003ebq.2	+						GAP43_uc003ebr.2_Intron	NM_002045	NP_002036	P17677	NEUM_HUMAN	growth associated protein 43 isoform 2						activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|cell differentiation|nervous system development|regulation of filopodium assembly|regulation of growth|response to wounding	cell junction|filopodium membrane|growth cone membrane|synapse	calmodulin binding			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.164)		CTAGAAATAATTTTTTTTTTT	0.423													4	2	---	---	---	---	
ZDHHC19	131540	broad.mit.edu	37	3	195937292	195937293	+	Intron	INS	-	GAAA	GAAA	rs149833656	by1000genomes	TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:195937292_195937293insGAAA	uc003fwc.2	-						ZDHHC19_uc010hzz.2_Intron|ZDHHC19_uc010iaa.2_Intron|ZDHHC19_uc010iab.2_Intron	NM_001039617	NP_001034706	Q8WVZ1	ZDH19_HUMAN	zinc finger, DHHC domain containing 19							integral to membrane	acyltransferase activity|zinc ion binding			ovary(3)	3	all_cancers(143;1.68e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;1.89e-25)|all cancers(36;1.46e-23)|OV - Ovarian serous cystadenocarcinoma(49;2.1e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.0022)		gaggaaggaaggaaagaaagaa	0.168													3	3	---	---	---	---	
EVC2	132884	broad.mit.edu	37	4	5633294	5633295	+	Intron	INS	-	G	G	rs138720670	by1000genomes	TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:5633294_5633295insG	uc003gij.2	-						EVC2_uc011bwb.1_Intron|EVC2_uc003gik.2_Intron	NM_147127	NP_667338	Q86UK5	LBN_HUMAN	limbin							integral to membrane				large_intestine(3)|ovary(2)	5						cgcagtagactgggggggggaa	0.109													4	2	---	---	---	---	
FAT4	79633	broad.mit.edu	37	4	126412722	126412722	+	Frame_Shift_Del	DEL	C	-	-			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:126412722delC	uc003ifj.3	+	17	14745	c.14745delC	c.(14743-14745)AACfs	p.N4915fs	FAT4_uc011cgp.1_Frame_Shift_Del_p.N3156fs|FAT4_uc003ifi.1_Frame_Shift_Del_p.N2392fs	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	4915	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						CTGCTGACAACACACTGCCCA	0.552													51	33	---	---	---	---	
AMACR	23600	broad.mit.edu	37	5	34008088	34008089	+	Frame_Shift_Del	DEL	CG	-	-			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:34008088_34008089delCG	uc003jig.2	-	1	118_119	c.36_37delCG	c.(34-39)TCCGGCfs	p.S12fs	AMACR_uc003jih.2_Frame_Shift_Del_p.S12fs|AMACR_uc003jii.2_Frame_Shift_Del_p.S12fs|AMACR_uc003jij.2_Frame_Shift_Del_p.S12fs|AMACR_uc003jil.1_Frame_Shift_Del_p.S12fs|AMACR_uc003jik.1_Frame_Shift_Del_p.S12fs	NM_014324	NP_055139	Q9UHK6	AMACR_HUMAN	alpha-methylacyl-CoA racemase isoform 1	12_13					bile acid biosynthetic process|fatty acid beta-oxidation using acyl-CoA oxidase	mitochondrion|peroxisomal matrix	alpha-methylacyl-CoA racemase activity				0						GGGGCCAGGCCGGACAGCTCCA	0.688													71	15	---	---	---	---	
CHSY3	337876	broad.mit.edu	37	5	129521508	129521508	+	3'UTR	DEL	T	-	-			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:129521508delT	uc003kvd.2	+	3						NM_175856	NP_787052	Q70JA7	CHSS3_HUMAN	chondroitin sulfate synthase 3							Golgi cisterna membrane|integral to membrane	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity			ovary(2)|pancreas(1)	3		all_cancers(142;0.0227)|Breast(839;0.198)|Prostate(80;0.215)|Lung NSC(810;0.239)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.136)		ACATTTTGCCTTTTTTAAGGG	0.323													70	10	---	---	---	---	
EXOC2	55770	broad.mit.edu	37	6	610329	610331	+	Intron	DEL	CAG	-	-			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:610329_610331delCAG	uc003mtd.2	-						EXOC2_uc003mte.2_Intron|EXOC2_uc011dho.1_Intron	NM_018303	NP_060773	Q96KP1	EXOC2_HUMAN	Sec5 protein						exocytosis|protein transport					breast(4)|ovary(2)|pancreas(1)	7	Ovarian(93;0.0733)	Breast(5;0.0014)|all_lung(73;0.0697)|all_hematologic(90;0.0897)		OV - Ovarian serous cystadenocarcinoma(45;0.0507)|BRCA - Breast invasive adenocarcinoma(62;0.14)		ACAAGGTACCCAGCAGACACCAG	0.315													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	15144681	15144684	+	IGR	DEL	AAAC	-	-			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:15144681_15144684delAAAC								None (None upstream) : JARID2 (101050 downstream)																							agaaagaaagaaacaaacaaagaa	0.000													3	6	---	---	---	---	
BTN2A3	54718	broad.mit.edu	37	6	26430816	26430817	+	Intron	INS	-	A	A	rs34293101		TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:26430816_26430817insA	uc011dkl.1	+						BTN2A3_uc011dkm.1_Intron					RecName: Full=Butyrophilin subfamily 2 member A3; Flags: Precursor;												0						agctcagtctcaaaaaaaaaaa	0.252													6	3	---	---	---	---	
OR2B6	26212	broad.mit.edu	37	6	27924965	27924965	+	5'Flank	DEL	A	-	-			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:27924965delA	uc011dkx.1	+							NM_012367	NP_036499	P58173	OR2B6_HUMAN	olfactory receptor, family 2, subfamily B,						sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						AATATGTGTTAATTGACTTCC	0.294													34	20	---	---	---	---	
LY6G6F	259215	broad.mit.edu	37	6	31675681	31675681	+	Frame_Shift_Del	DEL	C	-	-			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:31675681delC	uc003nwa.1	+	3	416	c.416delC	c.(415-417)TCCfs	p.S139fs	BAT5_uc011dnz.1_Intron|LY6G6F_uc003nwb.1_Frame_Shift_Del_p.S139fs	NM_001003693	NP_001003693	Q5SQ64	LY66F_HUMAN	G6f protein precursor	139	Extracellular (Potential).					integral to membrane|plasma membrane				breast(1)|central_nervous_system(1)	2						GCAGATGGATCCCCCTGCAAT	0.602													121	38	---	---	---	---	
HLA-DRB5	3127	broad.mit.edu	37	6	32546929	32546929	+	Intron	DEL	A	-	-	rs67615547		TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:32546929delA	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						CTCTACTAACAGTTTCTTTTC	0.478													7	6	---	---	---	---	
LRRC1	55227	broad.mit.edu	37	6	53787794	53787794	+	3'UTR	DEL	T	-	-	rs67155925		TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:53787794delT	uc003pcd.1	+	14						NM_018214	NP_060684	Q9BTT6	LRRC1_HUMAN	leucine rich repeat containing 1							cytoplasm|membrane				ovary(1)	1	Lung NSC(77;0.0147)			BRCA - Breast invasive adenocarcinoma(397;0.0745)		CCCGGTGTGATTTTTTTTTTT	0.458													5	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	55004034	55004034	+	IGR	DEL	T	-	-			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:55004034delT								SEC61G (177095 upstream) : EGFR (82691 downstream)																							GCCAAGCAGATTTTTTTTTTG	0.368													275	7	---	---	---	---	
LOC729156	729156	broad.mit.edu	37	7	66304731	66304731	+	Intron	DEL	T	-	-			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:66304731delT	uc003tvj.1	-							NR_003934				Homo sapiens cDNA FLJ36054 fis, clone TESTI2018290.												0						TTTCTTTCCCttttttttttt	0.438													4	3	---	---	---	---	
PMS2L4	5382	broad.mit.edu	37	7	66762433	66762433	+	Intron	DEL	A	-	-	rs68053451		TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:66762433delA	uc003tvo.2	-						PMS2L4_uc003tvq.2_Intron|PMS2L4_uc003tvr.3_Intron|PMS2L4_uc003tvs.3_Intron					Homo sapiens cDNA clone IMAGE:4081618.												0						tctcaaaaagaaaaaaaaaaa	0.124													4	3	---	---	---	---	
PHTF2	57157	broad.mit.edu	37	7	77570081	77570096	+	Intron	DEL	TTACTCATTCAAAAAC	-	-			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:77570081_77570096delTTACTCATTCAAAAAC	uc003ugs.3	+						PHTF2_uc003ugq.3_Intron|PHTF2_uc010ldv.2_Intron|PHTF2_uc003ugt.3_Intron|PHTF2_uc003ugu.3_Intron	NM_001127357	NP_001120829	Q8N3S3	PHTF2_HUMAN	putative homeodomain transcription factor 2						regulation of transcription, DNA-dependent|transcription, DNA-dependent	endoplasmic reticulum|nucleus	DNA binding			ovary(1)	1						TAACCAGCTTTTACTCATTCAAAAACTGGATTAGGG	0.352													33	11	---	---	---	---	
FAM86B1	85002	broad.mit.edu	37	8	12040369	12040369	+	3'UTR	DEL	C	-	-			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:12040369delC	uc010lse.2	-	7					FAM66D_uc011kxp.1_Intron|FAM86B1_uc003wvf.3_RNA|FAM86B1_uc003wvi.3_3'UTR|FAM86B1_uc010lsd.2_RNA|FAM86B1_uc003wvh.3_3'UTR|FAM86B1_uc011kxq.1_3'UTR|FAM86B1_uc010lsf.2_3'UTR|FAM86B1_uc003wvj.3_3'UTR|FAM86B1_uc003wvk.3_3'UTR|FAM86B1_uc010lsg.2_RNA|FAM86B1_uc003wvl.3_RNA	NM_001083537	NP_001077006	Q8N7N1	F86B1_HUMAN	hypothetical protein LOC85002												0			STAD - Stomach adenocarcinoma(15;0.033)	COAD - Colon adenocarcinoma(149;0.0965)		TGGTGAATGACCCGGGAAGCT	0.547													9	5	---	---	---	---	
LINGO2	158038	broad.mit.edu	37	9	28189699	28189700	+	Intron	INS	-	AAGA	AAGA	rs145816256	by1000genomes	TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:28189699_28189700insAAGA	uc003zqu.1	-						LINGO2_uc010mjf.1_Intron|LINGO2_uc003zqv.1_Intron	NM_152570	NP_689783	Q7L985	LIGO2_HUMAN	leucine rich repeat and Ig domain containing 2							integral to membrane				upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	Melanoma(11;0.242)	all_neural(11;2.78e-09)		UCEC - Uterine corpus endometrioid carcinoma (5;0.0818)|GBM - Glioblastoma multiforme(2;1.31e-34)|all cancers(2;2.37e-25)|Lung(2;7.48e-08)|LUSC - Lung squamous cell carcinoma(38;5.09e-07)|KIRC - Kidney renal clear cell carcinoma(2;0.0465)|Kidney(2;0.0604)		ggaagggagggaggaaggaagg	0.153													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	92908435	92908438	+	IGR	DEL	TTCC	-	-	rs140823491		TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:92908435_92908438delTTCC								LOC100129066 (573761 upstream) : DIRAS2 (463676 downstream)																							ttttgtatgattccttccttcctt	0.000													4	2	---	---	---	---	
NSUN6	221078	broad.mit.edu	37	10	18834658	18834658	+	3'UTR	DEL	T	-	-	rs34407644		TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:18834658delT	uc010qcp.1	-	11					NSUN6_uc001iqb.2_5'Flank	NM_182543	NP_872349	Q8TEA1	NSUN6_HUMAN	NOL1/NOP2/Sun domain family, member 6								methyltransferase activity|RNA binding			ovary(2)	2						AAAAAAAAAATCTTTTAAAAA	0.323													3	4	---	---	---	---	
NSUN6	221078	broad.mit.edu	37	10	18874728	18874729	+	Intron	INS	-	ACAAG	ACAAG	rs144035042	by1000genomes	TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:18874728_18874729insACAAG	uc010qcp.1	-							NM_182543	NP_872349	Q8TEA1	NSUN6_HUMAN	NOL1/NOP2/Sun domain family, member 6								methyltransferase activity|RNA binding			ovary(2)	2						ttcaaattaccacaaggataag	0.000													6	3	---	---	---	---	
CDHR5	53841	broad.mit.edu	37	11	618994	618994	+	Frame_Shift_Del	DEL	G	-	-			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:618994delG	uc001lqj.2	-	13	1670	c.1565delC	c.(1564-1566)CCGfs	p.P522fs	IRF7_uc001lqh.2_5'Flank|IRF7_uc001lqi.2_5'Flank|IRF7_uc010qwh.1_5'Flank|CDHR5_uc001lqk.2_Intron|CDHR5_uc009ycc.2_Frame_Shift_Del_p.P356fs|CDHR5_uc009ycd.2_Frame_Shift_Del_p.P516fs|CDHR5_uc001lql.2_Frame_Shift_Del_p.P522fs	NM_021924	NP_068743	Q9HBB8	CDHR5_HUMAN	mucin and cadherin-like isoform 1	522	Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0						TTCTGCACCCGGGGGCCCCCC	0.677													208	50	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	42010406	42010407	+	IGR	INS	-	AAAG	AAAG	rs71868073		TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:42010406_42010407insAAAG								LRRC4C (529083 upstream) : None (None downstream)																							agaaaaagaaaaaagaaaggaa	0.183													2	5	---	---	---	---	
P2RX3	5024	broad.mit.edu	37	11	57137457	57137457	+	Frame_Shift_Del	DEL	C	-	-			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:57137457delC	uc001nju.2	+	12	1257	c.1181delC	c.(1180-1182)TCCfs	p.S394fs		NM_002559	NP_002550	P56373	P2RX3_HUMAN	purinergic receptor P2X3	394	Cytoplasmic (Potential).				positive regulation of calcium ion transport into cytosol|positive regulation of calcium-mediated signaling	integral to plasma membrane	ATP binding|extracellular ATP-gated cation channel activity|purinergic nucleotide receptor activity				0						GGGGCCTTCTCCATAGGCCAC	0.612													63	14	---	---	---	---	
BEST1	7439	broad.mit.edu	37	11	61725444	61725445	+	Intron	INS	-	CAAACAAA	CAAACAAA	rs149120080	by1000genomes	TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:61725444_61725445insCAAACAAA	uc001nss.2	+						BEST1_uc010rlp.1_Intron|BEST1_uc001nsq.2_Intron|BEST1_uc010rlq.1_Intron|BEST1_uc010rlr.1_Intron|BEST1_uc010rls.1_Intron|BEST1_uc001nsr.2_Intron|BEST1_uc009ynt.2_Intron|BEST1_uc010rlt.1_Intron|BEST1_uc001nst.2_Intron|BEST1_uc010rlu.1_Intron|BEST1_uc010rlv.1_Intron	NM_004183	NP_004174	O76090	BEST1_HUMAN	bestrophin 1 isoform 1						response to stimulus|transepithelial chloride transport|visual perception	basolateral plasma membrane|chloride channel complex|cytosol|membrane fraction	chloride channel activity			central_nervous_system(1)	1						agactctgtctcaaacaaacaa	0.188													6	5	---	---	---	---	
RASGRP2	10235	broad.mit.edu	37	11	64494979	64494980	+	Intron	DEL	TT	-	-	rs141131730		TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:64494979_64494980delTT	uc009ypu.2	-						RASGRP2_uc001oat.2_Intron|RASGRP2_uc001oau.2_Intron|RASGRP2_uc009ypv.2_Intron|RASGRP2_uc009ypw.2_Intron	NM_001098671	NP_001092141	Q7LDG7	GRP2_HUMAN	RAS guanyl releasing protein 2						platelet activation|Ras protein signal transduction|regulation of cell growth|regulation of small GTPase mediated signal transduction	cell junction|cytosol|ruffle membrane|synapse|synaptosome	calcium ion binding|diacylglycerol binding|guanyl-nucleotide exchange factor activity				0						CACAGCCCAAtttttttttttt	0.267													6	3	---	---	---	---	
RAB21	23011	broad.mit.edu	37	12	72179660	72179660	+	3'UTR	DEL	T	-	-			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:72179660delT	uc001swt.2	+	7						NM_014999	NP_055814	Q9UL25	RAB21_HUMAN	RAB21, member RAS oncogene family						protein transport|small GTPase mediated signal transduction	cleavage furrow|cytoplasmic vesicle membrane|early endosome membrane|endoplasmic reticulum membrane|Golgi membrane	GDP binding|GTP binding|GTPase activity|protein binding				0						TCTACAAAtgtttttttttgt	0.159													4	2	---	---	---	---	
XPO4	64328	broad.mit.edu	37	13	21360040	21360041	+	Intron	INS	-	GAAGGGAG	GAAGGGAG	rs57419802		TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:21360040_21360041insGAAGGGAG	uc001unq.3	-							NM_022459	NP_071904	Q9C0E2	XPO4_HUMAN	exportin 4						protein transport	cytoplasm|nucleus	protein binding			large_intestine(1)|ovary(1)|kidney(1)	3		all_cancers(29;5.05e-24)|all_epithelial(30;5.56e-20)|all_lung(29;2.38e-16)|Lung SC(185;0.0262)|Hepatocellular(188;0.244)		all cancers(112;0.000521)|Epithelial(112;0.000892)|OV - Ovarian serous cystadenocarcinoma(117;0.0148)|Lung(94;0.0189)|LUSC - Lung squamous cell carcinoma(192;0.0548)		agaaagaaagaggagggaggaa	0.069													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	31652509	31652516	+	IGR	DEL	AAGGAAGA	-	-	rs148041842	by1000genomes	TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:31652509_31652516delAAGGAAGA								C13orf26 (103358 upstream) : HSPH1 (58249 downstream)																							ggaaggaaggaaggaagaaagaaagaaa	0.192													5	6	---	---	---	---	
OR11H12	440153	broad.mit.edu	37	14	19377902	19377903	+	Frame_Shift_Ins	INS	-	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:19377902_19377903insA	uc010tkp.1	+	1	309_310	c.309_310insA	c.(307-312)GAGAAAfs	p.E103fs		NM_001013354	NP_001013372	B2RN74	O11HC_HUMAN	olfactory receptor, family 11, subfamily H,	103_104	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TCCTTTCAGAGAAAAAAAACAT	0.386													140	19	---	---	---	---	
HEATR4	399671	broad.mit.edu	37	14	73986075	73986075	+	Intron	DEL	A	-	-	rs68181245		TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:73986075delA	uc010tub.1	-						HEATR4_uc010tua.1_Intron	NM_203309	NP_976054			HEAT repeat containing 4											ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00386)|OV - Ovarian serous cystadenocarcinoma(108;0.0719)		TCTGTGGGGGAAAAAAAAAAG	0.428													4	2	---	---	---	---	
KIAA0317	9870	broad.mit.edu	37	14	75137986	75137987	+	Intron	INS	-	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:75137986_75137987insT	uc001xqb.2	-						KIAA0317_uc010tut.1_Intron|KIAA0317_uc001xqc.2_Intron	NM_001039479	NP_001034568	O15033	K0317_HUMAN	hypothetical protein LOC9870						protein ubiquitination involved in ubiquitin-dependent protein catabolic process	integral to membrane|intracellular	ubiquitin-protein ligase activity			ovary(2)|kidney(1)|central_nervous_system(1)|pancreas(1)	5				BRCA - Breast invasive adenocarcinoma(234;0.00404)		AAAAACCTAGGTTTTTTTTTTT	0.386													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	97702046	97702049	+	IGR	DEL	CTTC	-	-			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:97702046_97702049delCTTC								VRK1 (354096 upstream) : C14orf64 (689898 downstream)																							ctttctctttcttccttccttcct	0.172													3	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	20172754	20172754	+	IGR	DEL	C	-	-			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:20172754delC								None (None upstream) : GOLGA6L6 (564340 downstream)																							TACAATATCACGAAAGAGTCA	0.428													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	21270386	21270387	+	IGR	DEL	AG	-	-			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:21270386_21270387delAG								NF1P1 (135761 upstream) : LOC646214 (662127 downstream)																							aaagaaagaaagagggagggag	0.000													6	3	---	---	---	---	
DMXL2	23312	broad.mit.edu	37	15	51783640	51783640	+	Intron	DEL	A	-	-			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:51783640delA	uc002abf.2	-						DMXL2_uc010ufy.1_Intron|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)		ttccatctccaaaaaaaaaaa	0.149													4	2	---	---	---	---	
GOLGA6B	55889	broad.mit.edu	37	15	72958135	72958136	+	Frame_Shift_Del	DEL	CC	-	-			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:72958135_72958136delCC	uc010uks.1	+	16	1750_1751	c.1709_1710delCC	c.(1708-1710)ACCfs	p.T570fs	uc002aux.1_5'Flank|uc002auy.1_5'Flank	NM_018652	NP_061122	A6NDN3	GOG6B_HUMAN	golgi autoantigen, golgin subfamily a, 6B	570	Potential.										0						GAGTCCTTCACCGTATATGAAA	0.629													168	8	---	---	---	---	
MAN2C1	4123	broad.mit.edu	37	15	75648888	75648888	+	Intron	DEL	A	-	-			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:75648888delA	uc002baf.2	-						MIR631_hsa-mir-631|MI0003645_5'Flank|MAN2C1_uc002bag.2_Intron|MAN2C1_uc002bah.2_Intron|MAN2C1_uc010bkk.2_Intron	NM_006715	NP_006706	Q9NTJ4	MA2C1_HUMAN	mannosidase, alpha, class 2C, member 1						mannose metabolic process		alpha-mannosidase activity|carbohydrate binding|protein binding|zinc ion binding				0						GTTTGGGCTCAGGGAAGGGCA	0.637													4	4	---	---	---	---	
SCNN1B	6338	broad.mit.edu	37	16	23354834	23354835	+	Intron	INS	-	A	A			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:23354834_23354835insA	uc002dln.2	+							NM_000336	NP_000327	P51168	SCNNB_HUMAN	sodium channel, nonvoltage-gated 1, beta						excretion|sensory perception of taste	apical plasma membrane	ligand-gated sodium channel activity|WW domain binding			ovary(3)|breast(2)|large_intestine(1)|pancreas(1)	7				GBM - Glioblastoma multiforme(48;0.0465)	Amiloride(DB00594)|Triamterene(DB00384)	gaaggaaaaggaaggaaggaag	0.010													4	2	---	---	---	---	
USP6	9098	broad.mit.edu	37	17	5035457	5035457	+	Intron	DEL	G	-	-			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:5035457delG	uc002gau.1	+						USP6_uc002gav.1_Intron|USP6_uc010ckz.1_Intron|USP6_uc002gaw.2_Intron|uc002gay.1_5'Flank	NM_004505	NP_004496	P35125	UBP6_HUMAN	ubiquitin specific protease 6						protein deubiquitination|regulation of vesicle-mediated transport|ubiquitin-dependent protein catabolic process	lysosome|plasma membrane|recycling endosome	calmodulin binding|cysteine-type endopeptidase activity|nucleic acid binding|protein binding|Rab GTPase activator activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			skin(2)|upper_aerodigestive_tract(1)|lung(1)|breast(1)	5						CCCCATGCCAGGGGCCCCAGT	0.637			T	COL1A1|CDH11|ZNF9|OMD	aneurysmal bone cysts								3	5	---	---	---	---	
MYH13	8735	broad.mit.edu	37	17	10209537	10209538	+	Intron	INS	-	TG	TG	rs66516471		TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:10209537_10209538insTG	uc002gmk.1	-							NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle						muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						ACCAAAATAGAtgtgtgtgtgt	0.287													4	2	---	---	---	---	
CYTSB	92521	broad.mit.edu	37	17	20209172	20209172	+	Intron	DEL	T	-	-			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:20209172delT	uc002gwq.2	+						CYTSB_uc002gws.2_Intron|CYTSB_uc002gwv.2_Intron|CYTSB_uc010vzf.1_Intron|CYTSB_uc002gww.2_Intron	NM_001033553	NP_001028725	Q5M775	CYTSB_HUMAN	spectrin domain with coiled-coils 1 NSP5b3b							nucleus					0						AACCTGTTGATTTTTTTTTTT	0.279													4	2	---	---	---	---	
SDK2	54549	broad.mit.edu	37	17	71397914	71397915	+	Intron	INS	-	C	C	rs140071991	by1000genomes	TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:71397914_71397915insC	uc010dfm.2	-						SDK2_uc002jjt.3_Intron|SDK2_uc010dfn.2_Intron	NM_001144952	NP_001138424	Q58EX2	SDK2_HUMAN	sidekick 2						cell adhesion	integral to membrane				ovary(2)	2						AGGAACCCCCACCCCCCAAGGC	0.609													3	3	---	---	---	---	
RPTOR	57521	broad.mit.edu	37	17	78674511	78674512	+	Intron	INS	-	ATGGTC	ATGGTC			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:78674511_78674512insATGGTC	uc002jyt.1	+						RPTOR_uc002jys.2_Intron|RPTOR_uc010wuf.1_Intron|RPTOR_uc010wug.1_Intron	NM_020761	NP_065812	Q8N122	RPTOR_HUMAN	raptor isoform 1						cell cycle arrest|cell growth|cellular response to amino acid stimulus|cellular response to nutrient levels|insulin receptor signaling pathway|positive regulation of protein serine/threonine kinase activity|positive regulation of TOR signaling cascade|TOR signaling cascade	cytosol|lysosome|TORC1 complex	protein complex binding			lung(4)|urinary_tract(1)|ovary(1)	6						tggtggtgatggtggtggtggt	0.000													4	2	---	---	---	---	
MYOM1	8736	broad.mit.edu	37	18	3085192	3085192	+	Intron	DEL	T	-	-	rs148266515		TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:3085192delT	uc002klp.2	-						MYOM1_uc002klq.2_Intron	NM_003803	NP_003794	P52179	MYOM1_HUMAN	myomesin 1 isoform a							striated muscle myosin thick filament	structural constituent of muscle			ovary(3)|central_nervous_system(1)|pancreas(1)	5						GTATCTGTGATTTTTTTTTTT	0.294													6	5	---	---	---	---	
TLE2	7089	broad.mit.edu	37	19	3013522	3013522	+	Intron	DEL	A	-	-			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:3013522delA	uc002lww.2	-						TLE2_uc010xhb.1_Intron|TLE2_uc010dth.2_Intron|TLE2_uc010xhc.1_Intron|TLE2_uc010dti.2_Intron|TLE2_uc010xhd.1_Intron	NM_003260	NP_003251	Q04725	TLE2_HUMAN	transducin-like enhancer protein 2 isoform 1						negative regulation of canonical Wnt receptor signaling pathway|negative regulation of transcription, DNA-dependent|organ morphogenesis|transcription, DNA-dependent|Wnt receptor signaling pathway	nucleus	protein binding|transcription corepressor activity				0				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)		CAGGAGGTTTAAAAAAAAAAG	0.413													4	2	---	---	---	---	
ARRDC5	645432	broad.mit.edu	37	19	4903041	4903042	+	5'Flank	INS	-	T	T	rs150232990		TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:4903041_4903042insT	uc002mbm.2	-							NM_001080523	NP_001073992	A6NEK1	ARRD5_HUMAN	arrestin domain containing 5						signal transduction						0				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0257)		CTCACTGGttcttttttttttt	0.277													4	2	---	---	---	---	
LDLR	3949	broad.mit.edu	37	19	11233654	11233654	+	Intron	DEL	T	-	-	rs35951147		TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:11233654delT	uc002mqk.3	+						LDLR_uc010xlk.1_Intron|LDLR_uc010xll.1_Intron|LDLR_uc010xlm.1_Intron|LDLR_uc010xln.1_Intron|LDLR_uc010xlo.1_Intron	NM_000527	NP_000518	P01130	LDLR_HUMAN	low density lipoprotein receptor precursor						cholesterol homeostasis|cholesterol metabolic process|interspecies interaction between organisms|intestinal cholesterol absorption|low-density lipoprotein particle clearance|receptor-mediated endocytosis	clathrin-coated endocytic vesicle membrane|coated pit|early endosome|endosome membrane|external side of plasma membrane|integral to plasma membrane|low-density lipoprotein particle|lysosome	calcium ion binding|low-density lipoprotein receptor activity|protein binding|very-low-density lipoprotein particle receptor activity			ovary(2)|skin(2)	4		Lung NSC(9;0.000245)|Renal(1328;0.0007)|Hepatocellular(1079;0.0524)		GBM - Glioblastoma multiforme(1328;1.36e-05)|STAD - Stomach adenocarcinoma(1328;0.000766)|Lung(535;0.197)	Methyl aminolevulinate(DB00992)|Porfimer(DB00707)	acctggctaattttttttttt	0.000													5	3	---	---	---	---	
CD97	976	broad.mit.edu	37	19	14507483	14507484	+	Intron	INS	-	T	T			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:14507483_14507484insT	uc002myl.2	+						CD97_uc002mym.2_Intron|CD97_uc002myn.2_Intron	NM_078481	NP_510966	P48960	CD97_HUMAN	CD97 antigen isoform 1 precursor						cell adhesion|cell-cell signaling|cellular component movement|immune response|inflammatory response|neuropeptide signaling pathway	extracellular space|integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(3)|breast(1)	4						GCCTTCAGGGCTGGAGTGCCCT	0.604													3	3	---	---	---	---	
SGK2	10110	broad.mit.edu	37	20	42213235	42213235	+	Intron	DEL	C	-	-			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:42213235delC	uc002xkv.2	+						SGK2_uc002xkt.2_Intron|SGK2_uc002xkr.2_Intron|SGK2_uc010ggm.2_Intron|SGK2_uc002xks.2_Intron|SGK2_uc002xku.2_Intron	NM_016276	NP_057360	Q9HBY8	SGK2_HUMAN	serum/glucocorticoid regulated kinase 2 isoform						intracellular protein kinase cascade|response to oxidative stress		ATP binding|potassium channel regulator activity|protein serine/threonine kinase activity|sodium channel regulator activity			lung(3)|upper_aerodigestive_tract(1)|breast(1)|central_nervous_system(1)	6		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			cccagcgccacgaacagtacc	0.139													5	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	22	21022401	21022401	+	IGR	DEL	G	-	-			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:21022401delG								MED15 (80483 upstream) : POM121L4P (21442 downstream)																							GGTGAGCGGCGAGTGCAGCAC	0.652													11	5	---	---	---	---	
WDR13	64743	broad.mit.edu	37	X	48457035	48457035	+	Intron	DEL	C	-	-			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:48457035delC	uc004dkh.1	+						WDR13_uc010nif.1_Intron|WDR13_uc004dki.1_Intron|WDR13_uc004dkj.1_Intron|WDR13_uc004dkk.1_Intron|WDR13_uc004dkl.3_5'UTR|WDR13_uc011mme.1_5'Flank	NM_017883	NP_060353	Q9H1Z4	WDR13_HUMAN	WD repeat domain 13 protein							cytoplasm|nucleus				ovary(2)	2						TCCTGCCGTACCCCCCCCCCC	0.602													6	3	---	---	---	---	
HMGB3	3149	broad.mit.edu	37	X	150155557	150155563	+	Intron	DEL	AAATTTT	-	-			TCGA-CU-A0YN-01	TCGA-CU-A0YN-01									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:150155557_150155563delAAATTTT	uc004fep.2	+						HMGB3_uc004feq.2_3'UTR|HMGB3_uc004fer.2_Intron	NM_005342	NP_005333	O15347	HMGB3_HUMAN	high-mobility group box 3						DNA recombination|multicellular organismal development	chromosome|nucleus	DNA bending activity|double-stranded DNA binding				0	Acute lymphoblastic leukemia(192;6.56e-05)					ACTTTAACTCAAATTTTTTGTGGTTTC	0.396													11	14	---	---	---	---	
