Hugo_Symbol	Entrez_Gene_Id	Center	NCBI_Build	Chromosome	Start_position	End_position	Strand	Variant_Classification	Variant_Type	Reference_Allele	Tumor_Seq_Allele1	Tumor_Seq_Allele2	dbSNP_RS	dbSNP_Val_Status	Tumor_Sample_Barcode	Matched_Norm_Sample_Barcode	Match_Norm_Seq_Allele1	Match_Norm_Seq_Allele2	Tumor_Validation_Allele1	Tumor_Validation_Allele2	Match_Norm_Validation_Allele1	Match_Norm_Validation_Allele2	Verification_Status	Validation_Status	Mutation_Status	Sequencing_Phase	Sequence_Source	Validation_Method	Score	BAM_file	Sequencer	Tumor_Sample_UUID	Matched_Norm_Sample_UUID	Genome_Change	Annotation_Transcript	Transcript_Strand	Transcript_Exon	Transcript_Position	cDNA_Change	Codon_Change	Protein_Change	Other_Transcripts	Refseq_mRNA_Id	Refseq_prot_Id	SwissProt_acc_Id	SwissProt_entry_Id	Description	UniProt_AApos	UniProt_Region	UniProt_Site	UniProt_Natural_Variations	UniProt_Experimental_Info	GO_Biological_Process	GO_Cellular_Component	GO_Molecular_Function	COSMIC_overlapping_mutations	COSMIC_fusion_genes	COSMIC_tissue_types_affected	COSMIC_total_alterations_in_gene	Tumorscape_Amplification_Peaks	Tumorscape_Deletion_Peaks	TCGAscape_Amplification_Peaks	TCGAscape_Deletion_Peaks	DrugBank	ref_context	gc_content	CCLE_ONCOMAP_overlapping_mutations	CCLE_ONCOMAP_total_mutations_in_gene	CGC_Mutation_Type	CGC_Translocation_Partner	CGC_Tumor_Types_Somatic	CGC_Tumor_Types_Germline	CGC_Other_Diseases	DNARepairGenes_Role	FamilialCancerDatabase_Syndromes	MUTSIG_Published_Results	OREGANNO_ID	OREGANNO_Values	t_alt_count	t_ref_count	validation_status	validation_method	validation_tumor_sample	validation_alt_allele	pox	qox	pox_cutoff	isArtifactMode	oxoGCut
MYOM3	127294	broad.mit.edu	37	1	24416117	24416117	+	Missense_Mutation	SNP	C	G	G			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr1:24416117C>G	uc001bin.3	-	14	1688	c.1525G>C	c.(1525-1527)GCC>CCC	p.A509P	MYOM3_uc001bim.3_Missense_Mutation_p.A166P|MYOM3_uc001bio.2_Missense_Mutation_p.A509P|MYOM3_uc001bip.1_Missense_Mutation_p.A166P	NM_152372	NP_689585	Q5VTT5	MYOM3_HUMAN	myomesin family, member 3	509	Fibronectin type-III 2.									skin(2)|ovary(1)	3		Colorectal(325;3.55e-05)|Renal(390;0.000703)|Lung NSC(340;0.001)|all_lung(284;0.0014)|Ovarian(437;0.00351)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;5.31e-24)|Colorectal(126;7.52e-08)|COAD - Colon adenocarcinoma(152;4.01e-06)|GBM - Glioblastoma multiforme(114;4.36e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00108)|KIRC - Kidney renal clear cell carcinoma(1967;0.00404)|STAD - Stomach adenocarcinoma(196;0.00966)|READ - Rectum adenocarcinoma(331;0.0678)|Lung(427;0.153)		ATCTCGCTGGCATGGACATTG	0.498													3	3					0	0	0.115264	0	0
NBPF9	400818	broad.mit.edu	37	1	144615252	144615252	+	Missense_Mutation	SNP	T	A	A	rs66504027		TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr1:144615252T>A	uc009wig.1	+	4	200	c.124T>A	c.(124-126)TGT>AGT	p.C42S	NBPF9_uc010oxn.1_Intron|NBPF9_uc010oxo.1_Intron|NBPF9_uc010oxr.1_Intron|NBPF9_uc010oxt.1_Intron|NBPF9_uc001ekg.1_Intron|NBPF9_uc001ekk.1_Intron|NBPF10_uc009wir.2_Intron|NBPF9_uc010oyd.1_Intron|NBPF9_uc010oye.1_5'UTR|NBPF9_uc001eli.3_RNA|NBPF9_uc010oyf.1_5'UTR|NBPF9_uc010oyg.1_Missense_Mutation_p.M41K|NBPF9_uc009wii.1_5'UTR|NBPF9_uc009wif.1_RNA|C1orf152_uc001elf.3_5'Flank	NM_001037675	NP_001032764	Q3BBV1	NBPFK_HUMAN	hypothetical protein LOC400818	42						cytoplasm					0						CTCAAAGAGATGTTTTCTAAC	0.463													6	143					0	0	0.217242	0	0
ITGA10	8515	broad.mit.edu	37	1	145532515	145532515	+	Missense_Mutation	SNP	G	A	A			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr1:145532515G>A	uc001eoa.2	+	9	1044	c.968G>A	c.(967-969)AGA>AAA	p.R323K	NBPF10_uc001emp.3_Intron|ITGA10_uc010oyv.1_Missense_Mutation_p.R192K|ITGA10_uc009wiw.2_Missense_Mutation_p.R180K|ITGA10_uc010oyw.1_Missense_Mutation_p.R268K	NM_003637	NP_003628	O75578	ITA10_HUMAN	integrin, alpha 10 precursor	323	VWFA.|Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway	integrin complex	collagen binding|receptor activity			lung(2)|ovary(2)|kidney(2)|large_intestine(1)|skin(1)	8	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					AGAGAAATTAGAACTATTGCC	0.473													58	94					0	0	0.870114	0	0
SEMA6C	10500	broad.mit.edu	37	1	151109386	151109386	+	Silent	SNP	C	T	T			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr1:151109386C>T	uc001ewu.2	-	11	1221	c.921G>A	c.(919-921)GTG>GTA	p.V307V	SEMA6C_uc001ewv.2_Silent_p.V307V|SEMA6C_uc001eww.2_Silent_p.V267V|SEMA6C_uc010pcq.1_Silent_p.V307V|SEMA6C_uc009wml.1_RNA	NM_030913	NP_112175	Q9H3T2	SEM6C_HUMAN	semaphorin Y precursor	307	Extracellular (Potential).|Sema.					integral to membrane	receptor activity			ovary(1)|skin(1)	2	Lung SC(34;0.00471)|Ovarian(49;0.0147)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			CATGCAGGTTCACAGGCCCAG	0.542													46	104					0	0	0.853193	0	0
PEAR1	375033	broad.mit.edu	37	1	156877993	156877993	+	Missense_Mutation	SNP	C	T	T			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr1:156877993C>T	uc001fqj.1	+	9	1092	c.976C>T	c.(976-978)CGT>TGT	p.R326C	PEAR1_uc009wsl.1_Missense_Mutation_p.R127C|PEAR1_uc001fqk.1_5'UTR	NM_001080471	NP_001073940	Q5VY43	PEAR1_HUMAN	platelet endothelial aggregation receptor 1	326	EGF-like 4.					integral to membrane				ovary(2)|central_nervous_system(1)	3	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					CCCGGACGCCCGTTGCTTCCC	0.692													10	11					0	0	0.361761	0	0
DUSP27	92235	broad.mit.edu	37	1	167096129	167096129	+	Silent	SNP	A	G	G			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr1:167096129A>G	uc001geb.1	+	5	1761	c.1761A>G	c.(1759-1761)ACA>ACG	p.T587T		NM_001080426	NP_001073895	Q5VZP5	DUS27_HUMAN	dual specificity phosphatase 27	587					protein dephosphorylation		protein tyrosine/serine/threonine phosphatase activity			ovary(3)	3						TCAGCCTGACAGCCTACCAGG	0.597													25	31					0	0	0.681144	0	0
C1orf112	55732	broad.mit.edu	37	1	169806133	169806133	+	Silent	SNP	C	T	T			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr1:169806133C>T	uc001ggp.2	+	18	1915	c.1605C>T	c.(1603-1605)TCC>TCT	p.S535S	C1orf112_uc001ggj.2_RNA|C1orf112_uc001ggq.2_Silent_p.S535S|C1orf112_uc009wvt.2_Silent_p.S212S|C1orf112_uc009wvu.1_Silent_p.S411S|C1orf112_uc001ggr.2_Silent_p.S400S|C1orf112_uc010plv.1_Silent_p.S477S	NM_018186	NP_060656	Q9NSG2	CA112_HUMAN	hypothetical protein LOC55732	535											0	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					AACATATTTCCTTCCAGGCGT	0.438													21	36					0	0	0.592651	0	0
SLC18A3	6572	broad.mit.edu	37	10	50819621	50819621	+	Missense_Mutation	SNP	G	C	C			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr10:50819621G>C	uc001jhw.2	+	1	1275	c.835G>C	c.(835-837)GGC>CGC	p.G279R	CHAT_uc001jhv.1_Intron|CHAT_uc001jhx.1_5'Flank|CHAT_uc001jhy.1_5'Flank|CHAT_uc001jia.2_5'Flank|CHAT_uc001jhz.2_5'Flank|CHAT_uc010qgs.1_5'Flank	NM_003055	NP_003046	Q16572	VACHT_HUMAN	vesicular acetylcholine transporter	279	Cytoplasmic (Potential).				neurotransmitter secretion	clathrin sculpted acetylcholine transport vesicle membrane|integral to plasma membrane|membrane fraction	acetylcholine transmembrane transporter activity			ovary(2)	2						CCTGCCAGTGGGCACTCCCAT	0.647													28	84					0	0	0.717897	0	0
TET1	80312	broad.mit.edu	37	10	70450862	70450862	+	Missense_Mutation	SNP	T	G	G			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr10:70450862T>G	uc001jok.3	+	12	6207	c.5702T>G	c.(5701-5703)ATT>AGT	p.I1901S		NM_030625	NP_085128	Q8NFU7	TET1_HUMAN	CXXC finger 6	1901					DNA demethylation|inner cell mass cell differentiation|negative regulation of methylation-dependent chromatin silencing|stem cell maintenance		iron ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|structure-specific DNA binding|zinc ion binding			ovary(5)|lung(2)|prostate(1)|breast(1)	9						GGCCCTGGCATTTCACAGCTT	0.572													81	65					0	0	0.870114	0	0
H2AFY2	55506	broad.mit.edu	37	10	71868875	71868875	+	Missense_Mutation	SNP	C	A	A			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr10:71868875C>A	uc001jqm.2	+	8	1324	c.865C>A	c.(865-867)CAG>AAG	p.Q289K	H2AFY2_uc001jqn.2_RNA|AIFM2_uc010qjg.1_Intron	NM_018649	NP_061119	Q9P0M6	H2AW_HUMAN	H2A histone family, member Y2	289	Macro.				chromatin modification|dosage compensation|nucleosome assembly	Barr body|nucleosome	DNA binding			skin(1)	1						ATGTGAAGAACAGCTTGAAGA	0.557													18	134					1.33834e-09	1.48704e-09	0.557998	1	0
TRIM8	81603	broad.mit.edu	37	10	104415049	104415049	+	Silent	SNP	G	A	A			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr10:104415049G>A	uc001kvz.2	+	3	1002	c.879G>A	c.(877-879)ACG>ACA	p.T293T		NM_030912	NP_112174	Q9BZR9	TRIM8_HUMAN	tripartite motif-containing 8	293						cytoplasm|PML body	ligase activity|protein homodimerization activity|zinc ion binding			ovary(1)	1		Colorectal(252;0.122)		Epithelial(162;3.93e-09)|all cancers(201;1.02e-07)|BRCA - Breast invasive adenocarcinoma(275;0.215)		TTGATAAGACGGAGGATGTCA	0.597													7	74					0	0	0.278610	0	0
NRAP	4892	broad.mit.edu	37	10	115372127	115372127	+	Missense_Mutation	SNP	C	G	G			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr10:115372127C>G	uc001laj.2	-	30	3528	c.3364G>C	c.(3364-3366)GCC>CCC	p.A1122P	NRAP_uc009xyb.2_Intron|NRAP_uc001lak.2_Missense_Mutation_p.A1087P|NRAP_uc001lal.3_Missense_Mutation_p.A1122P	NM_198060	NP_932326	Q86VF7	NRAP_HUMAN	nebulin-related anchoring protein isoform S	1122	Nebulin 29.					fascia adherens|muscle tendon junction	actin binding|muscle alpha-actinin binding|zinc ion binding			ovary(6)|central_nervous_system(3)|upper_aerodigestive_tract(1)	10		Colorectal(252;0.0233)|Breast(234;0.188)		Epithelial(162;0.00392)|all cancers(201;0.00569)		TGCACCAGGGCGGCCATGTCC	0.532													36	102					0	0	0.804634	0	0
NELL1	4745	broad.mit.edu	37	11	21594920	21594920	+	Missense_Mutation	SNP	A	T	T			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr11:21594920A>T	uc001mqe.2	+	19	2500	c.2347A>T	c.(2347-2349)ATG>TTG	p.M783L	NELL1_uc001mqf.2_Missense_Mutation_p.M736L|NELL1_uc009yid.2_Missense_Mutation_p.M811L|NELL1_uc010rdo.1_Missense_Mutation_p.M726L|NELL1_uc010rdp.1_Missense_Mutation_p.M496L|NELL1_uc001mqh.2_Missense_Mutation_p.M328L	NM_006157	NP_006148	Q92832	NELL1_HUMAN	nel-like 1 isoform 1 precursor	783	VWFC 5.				cell adhesion|nervous system development	extracellular region	calcium ion binding|structural molecule activity			ovary(2)|large_intestine(1)	3						AGTGTGGACGATGGCTGGATC	0.488													63	119					0	0	0.870114	0	0
IMMP1L	196294	broad.mit.edu	37	11	31482191	31482191	+	Missense_Mutation	SNP	T	C	C			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr11:31482191T>C	uc001msy.1	-	4	372	c.176A>G	c.(175-177)CAT>CGT	p.H59R	IMMP1L_uc001msz.1_Missense_Mutation_p.H59R|IMMP1L_uc009yjo.2_Missense_Mutation_p.H59R|IMMP1L_uc009yjp.2_Intron	NM_144981	NP_659418	Q96LU5	IMP1L_HUMAN	IMP1 inner mitochondrial membrane	59					proteolysis	mitochondrial inner membrane	serine-type peptidase activity				0	Lung SC(675;0.225)					ACCATAAAAATGTCGACTAAG	0.318													11	23					0	0	0.361761	0	0
PRR5L	79899	broad.mit.edu	37	11	36472765	36472765	+	Missense_Mutation	SNP	C	T	T			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr11:36472765C>T	uc001mwo.3	+	8	981	c.592C>T	c.(592-594)CAC>TAC	p.H198Y	PRR5L_uc001mwp.2_Missense_Mutation_p.H198Y|PRR5L_uc009ykk.2_Missense_Mutation_p.H70Y|PRR5L_uc010rfc.1_Intron	NM_001160167	NP_001153639	Q6MZQ0	PRR5L_HUMAN	protor-2 isoform a	198										ovary(1)	1						CCAGAGTGTTCACGAGCCCAC	0.502													59	79					0	0	0.870114	0	0
CKAP5	9793	broad.mit.edu	37	11	46804912	46804912	+	Missense_Mutation	SNP	A	G	G			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr11:46804912A>G	uc001ndi.1	-	18	2271	c.2161T>C	c.(2161-2163)TCA>CCA	p.S721P	CKAP5_uc009ylg.1_Missense_Mutation_p.S607P|CKAP5_uc001ndj.1_Missense_Mutation_p.S721P	NM_001008938	NP_001008938	Q14008	CKAP5_HUMAN	colonic and hepatic tumor over-expressed protein	721					cell division|centrosome organization|establishment or maintenance of microtubule cytoskeleton polarity|G2/M transition of mitotic cell cycle|mitotic prometaphase|RNA transport|spindle organization	centrosome|cytosol	protein binding|protein binding			ovary(1)|skin(1)	2						AAAGCCATTGACACAACCTGA	0.348													3	37					0	0	0.115264	0	0
GSTP1	2950	broad.mit.edu	37	11	67352235	67352235	+	Missense_Mutation	SNP	G	A	A			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr11:67352235G>A	uc001omf.2	+	4	473	c.224G>A	c.(223-225)CGC>CAC	p.R75H	GSTP1_uc001omg.1_Missense_Mutation_p.R56H	NM_000852	NP_000843	P09211	GSTP1_HUMAN	glutathione transferase	75	GST N-terminal.				anti-apoptosis|cellular response to lipopolysaccharide|central nervous system development|common myeloid progenitor cell proliferation|glutathione metabolic process|negative regulation of acute inflammatory response|negative regulation of ERK1 and ERK2 cascade|negative regulation of fibroblast proliferation|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of interleukin-1 beta production|negative regulation of JUN kinase activity|negative regulation of leukocyte proliferation|negative regulation of monocyte chemotactic protein-1 production|negative regulation of necrotic cell death|negative regulation of nitric-oxide synthase 2 biosynthetic process|negative regulation of stress-activated MAPK cascade|negative regulation of tumor necrosis factor production|nitric oxide storage|positive regulation of superoxide anion generation|response to reactive oxygen species|xenobiotic metabolic process	cytosol|protein complex	dinitrosyl-iron complex binding|glutathione transferase activity|JUN kinase binding|kinase regulator activity|nitric oxide binding|S-nitrosoglutathione binding			ovary(1)	1					Ethacrynic acid(DB00903)|Glutathione(DB00143)	CACCTGGGCCGCACCCTTGGT	0.617													53	59					0	0	0.870114	0	0
C11orf67	28971	broad.mit.edu	37	11	77580812	77580812	+	Silent	SNP	G	A	A			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr11:77580812G>A	uc001oyq.2	+	3	275	c.177G>A	c.(175-177)GAG>GAA	p.E59E	C11orf67_uc001oyp.2_Silent_p.E59E|C11orf67_uc001oyr.1_Silent_p.E59E	NM_024684	NP_078960	Q9H7C9	CK067_HUMAN	hypothetical protein LOC28971	59											0	all_cancers(14;5.69e-19)|all_epithelial(13;2.15e-21)|Breast(9;1.16e-15)|Ovarian(111;0.152)		Epithelial(5;1.37e-49)|all cancers(3;5.58e-46)|BRCA - Breast invasive adenocarcinoma(5;7.26e-31)			AAGTTGTTGAGAAGGGTGTAC	0.493													75	147					0	0	0.870114	0	0
PCF11	51585	broad.mit.edu	37	11	82877724	82877724	+	Silent	SNP	A	G	G			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr11:82877724A>G	uc001ozx.3	+	5	2130	c.1785A>G	c.(1783-1785)AAA>AAG	p.K595K	PCF11_uc010rsu.1_Silent_p.K595K	NM_015885	NP_056969	O94913	PCF11_HUMAN	pre-mRNA cleavage complex II protein Pcf11	595					mRNA 3'-end processing|mRNA cleavage|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage factor complex				ovary(1)	1						AGTCTGCCAAAAGATGGAAAT	0.348													43	61					0	0	0.870114	0	0
PCSK7	9159	broad.mit.edu	37	11	117077797	117077797	+	Silent	SNP	G	A	A			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr11:117077797G>A	uc001pqr.2	-	15	2067	c.1866C>T	c.(1864-1866)ATC>ATT	p.I622I	uc001pqq.1_RNA|PCSK7_uc001pqs.1_Intron	NM_004716	NP_004707	Q16549	PCSK7_HUMAN	proprotein convertase subtilisin/kexin type 7	622	Extracellular (Potential).				peptide hormone processing	integral to Golgi membrane	serine-type endopeptidase activity				0	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.72e-06)|Epithelial(105;6.71e-05)|all cancers(92;0.000537)		GTCTGTCCCTGATGTCTACTG	0.607			T	IGH@	MLCLS								16	82					0	0	0.834066	0	0
ARHGAP32	9743	broad.mit.edu	37	11	128840894	128840894	+	Missense_Mutation	SNP	C	T	T			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr11:128840894C>T	uc009zcp.2	-	22	4172	c.4172G>A	c.(4171-4173)CGG>CAG	p.R1391Q	ARHGAP32_uc009zcq.1_3'UTR|ARHGAP32_uc009zco.2_Missense_Mutation_p.R350Q|ARHGAP32_uc001qez.2_Missense_Mutation_p.R1042Q	NM_001142685	NP_001136157	A7KAX9	RHG32_HUMAN	Rho GTPase-activating protein isoform 1	1391	Interaction with GAB2.				cell communication|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell junction|cytosol|dendritic spine|endoplasmic reticulum membrane|endosome membrane|Golgi membrane|postsynaptic density|postsynaptic membrane	GTPase activator activity|phosphatidylinositol binding			lung(3)|ovary(2)	5						CAGCGGGACCCGGGCACCGTC	0.632													24	32					0	0	0.639603	0	0
AKAP3	10566	broad.mit.edu	37	12	4737430	4737430	+	Missense_Mutation	SNP	T	G	G			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr12:4737430T>G	uc001qnb.3	-	4	867	c.638A>C	c.(637-639)AAA>ACA	p.K213T		NM_006422	NP_006413	O75969	AKAP3_HUMAN	A-kinase anchor protein 3	213					acrosome reaction|cellular component movement	acrosomal vesicle	protein kinase A binding			skin(3)|large_intestine(1)|ovary(1)|kidney(1)	6						GGACTTGTATTTCAAATTTGG	0.468													111	74					0	0	0.870114	0	0
GTSF1	121355	broad.mit.edu	37	12	54856511	54856511	+	Splice_Site	SNP	T	A	A			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr12:54856511T>A	uc001sgb.2	-	5	331	c.245_splice	c.e5-1	p.V82_splice		NM_144594	NP_653195	Q8WW33	GTSF1_HUMAN	gametocyte specific factor 1								metal ion binding				0		Myeloproliferative disorder(1001;0.00452)				TTTGGTTGACTGCAAGACAAT	0.483													44	113					0	0	0.840704	0	0
WIF1	11197	broad.mit.edu	37	12	65460514	65460514	+	Missense_Mutation	SNP	G	T	T			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr12:65460514G>T	uc001ssk.2	-	6	782	c.637C>A	c.(637-639)CTT>ATT	p.L213I		NM_007191	NP_009122	Q9Y5W5	WIF1_HUMAN	WNT inhibitory factor 1 precursor	213	EGF-like 2.				multicellular organismal development|Wnt receptor signaling pathway	extracellular region	protein tyrosine kinase activity			ovary(2)|lung(1)|skin(1)	4			LUAD - Lung adenocarcinoma(6;0.0234)|LUSC - Lung squamous cell carcinoma(43;0.0975)	GBM - Glioblastoma multiforme(28;0.0231)		GGGGTACAAAGGGCTTATAGG	0.433			T	HMGA2	pleomorphic salivary gland adenoma								13	31					2.68362e-12	3.03366e-12	0.411799	1	0
PARP4	143	broad.mit.edu	37	13	25029240	25029240	+	Silent	SNP	T	C	C			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr13:25029240T>C	uc001upl.2	-	22	2779	c.2673A>G	c.(2671-2673)ACA>ACG	p.T891T	PARP4_uc010tdc.1_Silent_p.T891T	NM_006437	NP_006428	Q9UKK3	PARP4_HUMAN	poly (ADP-ribose) polymerase family, member 4	891	VWFA.				cell death|DNA repair|inflammatory response|protein ADP-ribosylation|response to drug|transport	cytoplasm|nucleus|ribonucleoprotein complex|spindle microtubule	DNA binding|enzyme binding|NAD+ ADP-ribosyltransferase activity			ovary(3)|skin(1)	4		all_epithelial(30;7.67e-16)|Lung SC(185;0.0225)|Breast(139;0.052)		all cancers(112;0.000127)|Epithelial(112;0.000778)|Kidney(163;0.039)|OV - Ovarian serous cystadenocarcinoma(117;0.0578)|KIRC - Kidney renal clear cell carcinoma(186;0.135)|Lung(94;0.195)		CTTGCAAGAATGTCACACCCT	0.502													90	158					0	0	0.870114	0	0
CPB2	1361	broad.mit.edu	37	13	46658419	46658419	+	Missense_Mutation	SNP	A	C	C			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr13:46658419A>C	uc001vaw.2	-	3	277	c.210T>G	c.(208-210)TTT>TTG	p.F70L	uc001vau.1_Intron|uc001vav.1_Intron|CPB2_uc001vax.2_Missense_Mutation_p.F70L	NM_001872	NP_001863	Q96IY4	CBPB2_HUMAN	plasma carboxypeptidase B2 isoform a	70					blood coagulation|fibrinolysis|proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			ovary(1)|skin(1)	2		Lung NSC(96;4.21e-05)|Breast(56;0.000118)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)|all_neural(104;0.235)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;5.44e-05)		CATTTACAAAAAAATGGACTT	0.368													69	83					0	0	0.870114	0	0
AP1G2	8906	broad.mit.edu	37	14	24032848	24032848	+	Splice_Site	SNP	C	T	T			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr14:24032848C>T	uc001wkl.2	-	13	1570	c.1233_splice	c.e13-1	p.R411_splice	AP1G2_uc001wkj.2_Splice_Site_p.R30_splice|AP1G2_uc001wkk.3_Splice_Site_p.R339_splice|AP1G2_uc001wkn.2_Splice_Site_p.R30_splice|uc001wko.1_Intron|AP1G2_uc001wkp.1_Intron|AP1G2_uc010tnp.1_Splice_Site_p.R411_splice	NM_003917	NP_003908	O75843	AP1G2_HUMAN	adaptor-related protein complex 1, gamma 2						interspecies interaction between organisms|intracellular protein transport|vesicle-mediated transport	AP-1 adaptor complex|endosome membrane	protein binding|protein transporter activity			ovary(1)	1	all_cancers(95;0.000251)			GBM - Glioblastoma multiforme(265;0.00672)		TGGAGCAAACCTAGGGGATAT	0.567											OREG0022605	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	39	19					0	0	0.819951	0	0
DHRS4	10901	broad.mit.edu	37	14	24424306	24424306	+	Missense_Mutation	SNP	G	A	A	rs79086208	byFrequency	TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr14:24424306G>A	uc001wla.2	+	2	224	c.191G>A	c.(190-192)CGG>CAG	p.R64Q	C14orf167_uc001wkz.2_5'Flank|C14orf167_uc001wky.2_5'Flank|C14orf167_uc001wkx.2_5'Flank|C14orf167_uc010akx.1_5'Flank|DHRS4_uc010aky.2_Missense_Mutation_p.R64Q|DHRS4_uc001wlb.2_Missense_Mutation_p.R64Q|DHRS4_uc010akz.2_Missense_Mutation_p.R64Q|DHRS4_uc001wlc.3_Missense_Mutation_p.R64Q|DHRS4L2_uc001wld.3_Missense_Mutation_p.R64Q|DHRS4L2_uc001wle.3_Missense_Mutation_p.R64Q	NM_021004	NP_066284	Q9BTZ2	DHRS4_HUMAN	peroxisomal short-chain alcohol dehydrogenase	64						mitochondrion|nuclear membrane|peroxisome	binding|carbonyl reductase (NADPH) activity			ovary(1)	1				GBM - Glioblastoma multiforme(265;0.00962)	Vitamin A(DB00162)	GTCAGCAGCCGGAAGCAGCAG	0.657													5	82					0	0	0.217242	0	0
C14orf106	55320	broad.mit.edu	37	14	45711249	45711249	+	Silent	SNP	A	C	C			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr14:45711249A>C	uc001wwf.2	-	4	1590	c.1131T>G	c.(1129-1131)CTT>CTG	p.L377L	C14orf106_uc010anh.2_RNA	NM_018353	NP_060823	Q6P0N0	M18BP_HUMAN	chromosome 14 open reading frame 106	377					cell division|CenH3-containing nucleosome assembly at centromere|mitosis	chromosome, centromeric region|nucleoplasm	DNA binding				0						GATTTTTTTTAAGTCCATTTG	0.308													29	15					0	0	0.693898	0	0
ADAM6	8755	broad.mit.edu	37	14	106622284	106622284	+	RNA	SNP	G	T	T	rs112834475	by1000genomes	TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr14:106622284G>T	uc010tyt.1	-	1110		c.25413C>A								Parts of antibodies, mostly variable regions.												0						AATATCCTTAGTTCTCCATGA	0.433													4	81					0.00909568	0.00916619	0.150653	1	0
ADAM6	8755	broad.mit.edu	37	14	107183620	107183620	+	RNA	SNP	T	A	A	rs3213594	by1000genomes	TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr14:107183620T>A	uc010tyt.1	-	29		c.1937A>T								Parts of antibodies, mostly variable regions.												0						TGAAGGTGAATCCAGAGGCTG	0.577													6	81					0	0	0.248553	0	0
LRRK1	79705	broad.mit.edu	37	15	101529603	101529603	+	Silent	SNP	A	G	G			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr15:101529603A>G	uc002bwr.2	+	6	1081	c.762A>G	c.(760-762)ACA>ACG	p.T254T	LRRK1_uc010usb.1_RNA|LRRK1_uc010usc.1_RNA|LRRK1_uc002bwq.1_Silent_p.T254T	NM_024652	NP_078928	Q38SD2	LRRK1_HUMAN	leucine-rich repeat kinase 1	254					small GTPase mediated signal transduction	mitochondrion	ATP binding|GTP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|lung(4)|central_nervous_system(3)|large_intestine(1)	12	Melanoma(26;0.00505)|Lung NSC(78;0.00793)|all_lung(78;0.0094)		OV - Ovarian serous cystadenocarcinoma(32;0.000932)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			CGGGAAAAACAGTGAGTAGTC	0.313													28	31					0	0	0.693898	0	0
MYH11	4629	broad.mit.edu	37	16	15880497	15880497	+	Missense_Mutation	SNP	G	T	T			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr16:15880497G>T	uc002ddy.2	-	5	730	c.623C>A	c.(622-624)ACA>AAA	p.T208K	MYH11_uc002ddv.2_Missense_Mutation_p.T208K|MYH11_uc002ddw.2_Missense_Mutation_p.T208K|MYH11_uc002ddx.2_Missense_Mutation_p.T208K|MYH11_uc010bvg.2_Missense_Mutation_p.H33Q|MYH11_uc002deb.3_Missense_Mutation_p.T208K	NM_002474	NP_002465	P35749	MYH11_HUMAN	smooth muscle myosin heavy chain 11 isoform	208	Myosin head-like.				axon guidance|cardiac muscle fiber development|elastic fiber assembly|skeletal muscle myosin thick filament assembly|smooth muscle contraction	cytosol|melanosome|muscle myosin complex|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			ovary(6)|skin(3)|lung(2)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)	15						CGTGATACTTGTGTCTTTCTT	0.527			T	CBFB	AML								20	33					4.35082e-09	4.71338e-09	0.592651	1	0
ARL6IP1	23204	broad.mit.edu	37	16	18810023	18810023	+	Missense_Mutation	SNP	A	G	G			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr16:18810023A>G	uc002dfl.1	-	2	239	c.170T>C	c.(169-171)CTG>CCG	p.L57P	ARL6IP1_uc010van.1_Missense_Mutation_p.L28P|ARL6IP1_uc010bvz.1_RNA	NM_015161	NP_055976	Q15041	AR6P1_HUMAN	ADP-ribosylation factor-like 6 interacting	57	Helical; (Potential).					integral to membrane	protein binding				0						GCTCACTTACAGAAACACCAA	0.413													58	94					0	0	0.870114	0	0
SMG1	23049	broad.mit.edu	37	16	18882177	18882177	+	Missense_Mutation	SNP	G	A	A			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr16:18882177G>A	uc002dfm.2	-	17	2699	c.2336C>T	c.(2335-2337)GCA>GTA	p.A779V	SMG1_uc010bwb.2_Missense_Mutation_p.A639V	NM_015092	NP_055907	Q96Q15	SMG1_HUMAN	PI-3-kinase-related kinase SMG-1	779	Interaction with SMG8 and SMG9.				DNA repair|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|peptidyl-serine phosphorylation|phosphatidylinositol phosphorylation|protein autophosphorylation	cytoplasm|nucleus	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			breast(5)|stomach(4)|lung(4)|kidney(2)|ovary(1)	16						ACTGCTGCATGCCTGCAGACA	0.373													7	5					0	0	0.278610	0	0
SEPHS2	22928	broad.mit.edu	37	16	30456699	30456699	+	Missense_Mutation	SNP	A	T	T			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr16:30456699A>T	uc010ves.1	-	2	526	c.350T>A	c.(349-351)ATC>AAC	p.I117N	SEPHS2_uc002dyh.1_Missense_Mutation_p.I60N|SEPHS2_uc010vet.1_5'UTR	NM_012248	NP_036380	Q99611	SPS2_HUMAN	selenophosphate synthetase 2	117					selenocysteine biosynthetic process		ATP binding|selenide, water dikinase activity			breast(2)	2						GTCCATCCCGATGCCCAGGGC	0.677													10	17					0	0	0.335167	0	0
PRSS53	339105	broad.mit.edu	37	16	31098021	31098021	+	Silent	SNP	C	T	T			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr16:31098021C>T	uc002eaq.2	-	4	441	c.441G>A	c.(439-441)CAG>CAA	p.Q147Q	PRSS53_uc002ear.2_5'UTR	NM_001039503	NP_001034592	Q2L4Q9	PRS53_HUMAN	polyserase 3 precursor	147	Peptidase S1 1.				proteolysis	extracellular region	serine-type endopeptidase activity				0						GATGGGCGGGCTGGGGCAGGC	0.657													38	41					0	0	0.827153	0	0
OGFOD1	55239	broad.mit.edu	37	16	56485680	56485680	+	Splice_Site	SNP	T	C	C			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr16:56485680T>C	uc002ejb.2	+	1	255	c.154_splice	c.e1+2	p.E52_splice	OGFOD1_uc002ejc.2_Intron|NUDT21_uc002eja.2_5'Flank	NM_018233	NP_060703	Q8N543	OGFD1_HUMAN	2-oxoglutarate and iron-dependent oxygenase								iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			skin(1)	1					Vitamin C(DB00126)	TCAGTCACGGTAACCGGGTGC	0.632													18	35					0	0	0.575678	0	0
TXNL4B	54957	broad.mit.edu	37	16	72120699	72120699	+	Missense_Mutation	SNP	G	T	T			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr16:72120699G>T	uc002fca.2	-	4	598	c.287C>A	c.(286-288)TCT>TAT	p.S96Y	TXNL4B_uc010cgl.2_Intron|TXNL4B_uc010vmn.1_Missense_Mutation_p.S96Y|TXNL4B_uc010vmo.1_Missense_Mutation_p.S96Y	NM_017853	NP_060323	Q9NX01	TXN4B_HUMAN	thioredoxin-like 4B	96					mitosis|mRNA processing|RNA splicing	spliceosomal complex				ovary(1)	1						GTGATCTGGAGATCTAGACAG	0.358													24	33					1.36565e-18	1.58512e-18	0.639603	1	0
ACSF3	197322	broad.mit.edu	37	16	89169104	89169104	+	Silent	SNP	G	A	A			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr16:89169104G>A	uc002fmp.2	+	4	1099	c.759G>A	c.(757-759)GCG>GCA	p.A253A	ACSF3_uc010cig.1_Silent_p.A253A|ACSF3_uc010cih.1_5'UTR|ACSF3_uc002fmq.1_RNA|ACSF3_uc010cii.1_RNA|ACSF3_uc002fmr.1_5'UTR	NM_174917	NP_777577	Q4G176	ACSF3_HUMAN	acyl-CoA synthetase family member 3 precursor	253					fatty acid metabolic process	mitochondrion	acid-thiol ligase activity|ATP binding				0				BRCA - Breast invasive adenocarcinoma(80;0.0281)		TGGTCAACGCGCTGCTCTGTC	0.627													5	68					0	0	0.184627	0	0
SLC2A4	6517	broad.mit.edu	37	17	7189210	7189210	+	Missense_Mutation	SNP	G	C	C			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr17:7189210G>C	uc002gfp.2	+	10	1509	c.1309G>C	c.(1309-1311)GGT>CGT	p.G437R	SLC2A4_uc002gfo.2_Missense_Mutation_p.G437R|SLC2A4_uc010cmd.2_RNA	NM_001042	NP_001033	P14672	GTR4_HUMAN	glucose transporter 4	437	Helical; Name=11; (Potential).				carbohydrate metabolic process|glucose homeostasis|glucose import	external side of plasma membrane|integral to plasma membrane|perinuclear region of cytoplasm	D-glucose transmembrane transporter activity|protein binding				0						CATTGGCATGGGTTTCCAGTA	0.627													24	41					0	0	0.624587	0	0
POLR2A	5430	broad.mit.edu	37	17	7399344	7399344	+	Missense_Mutation	SNP	C	G	G			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr17:7399344C>G	uc002ghf.3	+	2	412	c.178C>G	c.(178-180)CCG>GCG	p.P60A	POLR2A_uc002ghe.2_Missense_Mutation_p.P60A	NM_000937	NP_000928	P24928	RPB1_HUMAN	DNA-directed RNA polymerase II A	60					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|RNA-directed RNA polymerase activity|ubiquitin protein ligase binding			pancreas(1)	1		Prostate(122;0.173)				GCTGATGGACCCGAGGCAGGG	0.612													32	58					0	0	0.750413	0	0
GAS2L2	246176	broad.mit.edu	37	17	34077159	34077159	+	Silent	SNP	G	C	C			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr17:34077159G>C	uc002hjv.1	-	2	592	c.564C>G	c.(562-564)CCC>CCG	p.P188P		NM_139285	NP_644814	Q8NHY3	GA2L2_HUMAN	growth arrest-specific 2 like 2	188					cell cycle arrest	cytoplasm|cytoskeleton				ovary(1)|skin(1)	2		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		GCGAGGGGTCGGGCGGGGGCA	0.746													24	51					0	0	0.654019	0	0
TAF15	8148	broad.mit.edu	37	17	34172014	34172014	+	Missense_Mutation	SNP	G	T	T			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr17:34172014G>T	uc002hkd.2	+	15	1797	c.1711G>T	c.(1711-1713)GGT>TGT	p.G571C	TAF15_uc002hkc.2_Missense_Mutation_p.G568C	NM_139215	NP_631961	Q92804	RBP56_HUMAN	TBP-associated factor 15 isoform 1	571	21.|Arg/Gly-rich.|21 X approximate tandem repeats of D-R- [S,G](0,3)-G-G-Y-G-G.				positive regulation of transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|nucleotide binding|protein binding|RNA binding|zinc ion binding		TAF15/NR4A3(33)	bone(33)|lung(1)|skin(1)	35		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0193)		AGGAGACCGAGGTGGCTATGG	0.527			T	TEC|CHN1|ZNF384	extraskeletal myxoid chondrosarcomas|ALL								47	93					8.04919e-23	9.51268e-23	0.870114	1	0
RPRML	388394	broad.mit.edu	37	17	45056017	45056017	+	Silent	SNP	C	T	T			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr17:45056017C>T	uc002ilb.2	-	1	598	c.357G>A	c.(355-357)CTG>CTA	p.L119L	GOSR2_uc010wkh.1_Intron	NM_203400	NP_981945	Q8N4K4	RPRML_HUMAN	reprimo-like	119						integral to membrane					0						GCGCTCAGTACAGCCCCAGGA	0.682													7	12					0	0	0.248553	0	0
LRRC46	90506	broad.mit.edu	37	17	45914207	45914207	+	Missense_Mutation	SNP	G	A	A			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr17:45914207G>A	uc002ima.2	+	8	943	c.687G>A	c.(685-687)ATG>ATA	p.M229I	LRRC46_uc002imb.2_Missense_Mutation_p.M182I	NM_033413	NP_219481	Q96FV0	LRC46_HUMAN	leucine rich repeat containing 46	229										ovary(1)	1						GGATGGAGATGCAGCCCACCC	0.667													35	86					0	0	0.788014	0	0
ACSF2	80221	broad.mit.edu	37	17	48549793	48549793	+	Missense_Mutation	SNP	G	A	A			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr17:48549793G>A	uc002iqu.2	+	12	1432	c.1328G>A	c.(1327-1329)CGG>CAG	p.R443Q	ACSF2_uc010wml.1_Missense_Mutation_p.R400Q|ACSF2_uc010wmm.1_Missense_Mutation_p.R468Q|ACSF2_uc010wmn.1_Missense_Mutation_p.R430Q|ACSF2_uc010wmo.1_Missense_Mutation_p.R283Q|ACSF2_uc010dbt.1_Intron	NM_025149	NP_079425	Q96CM8	ACSF2_HUMAN	acyl-CoA synthetase family member 2 precursor	443					fatty acid metabolic process	mitochondrion	ATP binding|ligase activity				0	Breast(11;1.93e-18)		BRCA - Breast invasive adenocarcinoma(22;1.55e-09)			TCCCAGGCCCGGATCATGAAC	0.612													27	18					0	0	0.706142	0	0
PITPNC1	26207	broad.mit.edu	37	17	65665781	65665781	+	Splice_Site	SNP	T	C	C			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr17:65665781T>C	uc002jgc.2	+	7	965	c.618_splice	c.e7+2	p.K206_splice	PITPNC1_uc002jgb.2_Splice_Site_p.K206_splice	NM_012417	NP_036549	Q9UKF7	PITC1_HUMAN	phosphatidylinositol transfer protein,						signal transduction	cytoplasm	lipid binding|phosphatidylinositol transporter activity|protein binding			skin(1)	1	all_cancers(12;3.03e-10)		BRCA - Breast invasive adenocarcinoma(8;2.08e-08)|Colorectal(3;0.198)			GTACACAAGGTAAGTGGTCCA	0.468													11	7					0	0	0.387290	0	0
PNPLA6	10908	broad.mit.edu	37	19	7615223	7615223	+	Silent	SNP	G	A	A			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr19:7615223G>A	uc010xjq.1	+	17	2076	c.1881G>A	c.(1879-1881)GCG>GCA	p.A627A	PNPLA6_uc002mgq.1_Silent_p.A579A|PNPLA6_uc010xjp.1_Silent_p.A553A|PNPLA6_uc002mgr.1_Silent_p.A579A|PNPLA6_uc002mgs.2_Silent_p.A618A	NM_006702	NP_006693	Q8IY17	PLPL6_HUMAN	neuropathy target esterase isoform b	618	cNMP 2.|Cytoplasmic (Potential).				cell death|lipid catabolic process|phosphatidylcholine metabolic process	endoplasmic reticulum membrane|integral to membrane	lysophospholipase activity			ovary(3)	3						TGAGTGCGGCGCACACGGTGG	0.637													39	85					0	0	0.847076	0	0
JUNB	3726	broad.mit.edu	37	19	12902787	12902787	+	Missense_Mutation	SNP	T	C	C			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr19:12902787T>C	uc002mvc.2	+	1	478	c.202T>C	c.(202-204)TAC>CAC	p.Y68H	JUNB_uc002mvb.2_RNA	NM_002229	NP_002220	P17275	JUNB_HUMAN	jun B proto-oncogene	68						chromatin|nucleus	protein dimerization activity|transcription coactivator activity|transcription corepressor activity			lung(2)|central_nervous_system(1)	3						TGGCGGCAGCTACTTTTCTGG	0.672													12	15					0	0	0.411799	0	0
Unknown	0	broad.mit.edu	37	19	15881909	15881909	+	RNA	SNP	A	G	G	rs4807985	by1000genomes	TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr19:15881909A>G	uc002nbo.2	-	6		c.989T>C			uc010xor.1_Silent_p.D156D					Homo sapiens cDNA FLJ60024 complete cds, highly similar to Cytochrome P450 4F12 (EC 1.14.14.1).																		GGATGACGGCATCTGTGAAGT	0.537													5	83					0	0	0.184627	0	0
LSM14A	26065	broad.mit.edu	37	19	34712486	34712486	+	Missense_Mutation	SNP	G	T	T			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr19:34712486G>T	uc002nvb.3	+	9	1407	c.1211G>T	c.(1210-1212)CGT>CTT	p.R404L	LSM14A_uc002nva.3_Missense_Mutation_p.R404L|LSM14A_uc010xru.1_Missense_Mutation_p.R363L|LSM14A_uc002nvc.3_Missense_Mutation_p.R210L	NM_001114093	NP_001107565	Q8ND56	LS14A_HUMAN	LSM14 homolog A isoform a	404					cytoplasmic mRNA processing body assembly|multicellular organismal development|regulation of translation	cytoplasmic mRNA processing body|intracellular membrane-bounded organelle|stress granule				skin(1)	1	Esophageal squamous(110;0.162)					CGTCCAAACCGTGGCCGTGGG	0.507													17	36					2.35188e-11	2.63573e-11	0.539581	1	0
SIPA1L3	23094	broad.mit.edu	37	19	38572702	38572702	+	Missense_Mutation	SNP	T	C	C			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr19:38572702T>C	uc002ohk.2	+	3	1006	c.497T>C	c.(496-498)CTT>CCT	p.L166P		NM_015073	NP_055888	O60292	SI1L3_HUMAN	signal-induced proliferation-associated 1 like	166					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(1)|central_nervous_system(1)	2			Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			TTCCTCCCCCTTCGGCACCGC	0.711													47	66					0	0	0.859065	0	0
RUVBL2	10856	broad.mit.edu	37	19	49510337	49510337	+	Missense_Mutation	SNP	T	C	C			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr19:49510337T>C	uc002plr.1	+	5	341	c.328T>C	c.(328-330)TCC>CCC	p.S110P	RUVBL2_uc002plq.1_Missense_Mutation_p.S65P|RUVBL2_uc010yab.1_Missense_Mutation_p.S110P|RUVBL2_uc002pls.1_RNA|RUVBL2_uc010emn.1_Missense_Mutation_p.S65P|RUVBL2_uc010yac.1_Missense_Mutation_p.S65P	NM_006666	NP_006657	Q9Y230	RUVB2_HUMAN	RuvB-like 2	110					cellular response to UV|DNA recombination|DNA repair|histone H2A acetylation|histone H4 acetylation|protein folding|regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|Ino80 complex|membrane|MLL1 complex|NuA4 histone acetyltransferase complex|nuclear matrix	ATP binding|ATP-dependent DNA helicase activity|damaged DNA binding|identical protein binding|unfolded protein binding				0		all_epithelial(76;5.29e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		all cancers(93;0.000449)|OV - Ovarian serous cystadenocarcinoma(262;0.000555)|GBM - Glioblastoma multiforme(486;0.00585)|Epithelial(262;0.047)		TGAAATCTTCTCCCTGGAGAT	0.657													34	66					0	0	0.812448	0	0
EIF2AK2	5610	broad.mit.edu	37	2	37365711	37365711	+	Silent	SNP	G	A	A			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr2:37365711G>A	uc010ynh.1	-	7	1091	c.534C>T	c.(532-534)TCC>TCT	p.S178S	EIF2AK2_uc010fab.1_Silent_p.S178S|EIF2AK2_uc010yng.1_Silent_p.S178S|EIF2AK2_uc010fac.2_Silent_p.S178S|EIF2AK2_uc010fad.2_Silent_p.S178S	NM_002759	NP_002750	P19525	E2AK2_HUMAN	eukaryotic translation initiation factor 2-alpha	178					evasion by virus of host immune response|modulation by virus of host cellular process|negative regulation of osteoblast proliferation|protein autophosphorylation|response to virus|viral infectious cycle	cytosol	ATP binding|double-stranded RNA binding|eukaryotic translation initiation factor 2alpha kinase activity|protein binding|protein phosphatase type 2A regulator activity			ovary(2)|lung(2)|pancreas(1)	5		all_hematologic(82;0.248)				AAGAACCAGAGGACAGGTAGT	0.363													26	35					0	0	0.729181	0	0
Unknown	0	broad.mit.edu	37	2	89442598	89442598	+	RNA	SNP	C	T	T			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr2:89442598C>T	uc010ytr.1	-	32		c.4006G>A			uc002stl.2_Intron					Parts of antibodies, mostly variable regions.																		CCATGGTTCCCTCTGGGTCCT	0.572													36	68					0	0	0.840704	0	0
CNNM4	26504	broad.mit.edu	37	2	97428127	97428127	+	Missense_Mutation	SNP	A	G	G			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr2:97428127A>G	uc002swx.2	+	1	1489	c.1391A>G	c.(1390-1392)GAG>GGG	p.E464G		NM_020184	NP_064569	Q6P4Q7	CNNM4_HUMAN	cyclin M4	464	CBS 2.				biomineral tissue development|ion transport|response to stimulus|visual perception	integral to membrane|plasma membrane				breast(2)|ovary(1)	3						ATGCTGGAGGAGTTCAAGAAG	0.517													29	44					0	0	0.717897	0	0
TMEM131	23505	broad.mit.edu	37	2	98413329	98413329	+	Silent	SNP	T	A	A			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr2:98413329T>A	uc002syh.3	-	27	3220	c.2991A>T	c.(2989-2991)GCA>GCT	p.A997A		NM_015348	NP_056163	Q92545	TM131_HUMAN	RW1 protein	997						integral to membrane				ovary(4)|central_nervous_system(2)	6						CTTTTAACAATGCTTCCGTGA	0.393													21	35					0	0	0.592651	0	0
RGPD3	653489	broad.mit.edu	37	2	107032393	107032393	+	Silent	SNP	G	A	A			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr2:107032393G>A	uc010ywi.1	-	21	5034	c.4977C>T	c.(4975-4977)CTC>CTT	p.L1659L		NM_001144013	NP_001137485	A6NKT7	RGPD3_HUMAN	RANBP2-like and GRIP domain containing 3	1659					intracellular transport		binding			ovary(1)	1						TGGTGGAACTGAGCTTCTGAA	0.388													16	215					0	0	0.479597	0	0
MIR1302-3	100302128	broad.mit.edu	37	2	114340578	114340578	+	RNA	SNP	T	G	G			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr2:114340578T>G	hsa-mir-1302-3|MI0006364	-			c.96T>G			WASH2P_uc002tka.2_5'Flank|WASH2P_uc002tkb.2_5'Flank																	0						accaataatgttttttagcat	0.08													10	148					0	0	0.335167	0	0
MYL9	10398	broad.mit.edu	37	20	35177592	35177592	+	Silent	SNP	C	T	T			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr20:35177592C>T	uc002xfl.1	+	4	553	c.459C>T	c.(457-459)AAC>AAT	p.N153N	uc002xfk.3_Intron|MYL9_uc002xfm.1_Silent_p.N99N	NM_006097	NP_006088	P24844	MYL9_HUMAN	myosin regulatory light chain 9 isoform a	153	EF-hand 3.				axon guidance|muscle contraction|regulation of muscle contraction	cytosol|muscle myosin complex	calcium ion binding|structural constituent of muscle				0	Breast(12;0.0192)	Myeloproliferative disorder(115;0.00878)				AGAAAGGCAACTTCAACTACG	0.592													18	40					0	0	0.557998	0	0
PI4KAP2	375133	broad.mit.edu	37	22	21829555	21829555	+	Missense_Mutation	SNP	T	G	G			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr22:21829555T>G	uc002zuv.3	-	14	3847	c.1588A>C	c.(1588-1590)ATC>CTC	p.I530L	PI4KAP2_uc002zuw.2_Intron|PI4KAP2_uc011aid.1_Intron					SubName: Full=Putative uncharacterized protein PI4KA;												0						TCCAACATGATAGTGACCAGG	0.607													3	10					0	0	0.150653	0	0
TPST2	8459	broad.mit.edu	37	22	26937461	26937461	+	Missense_Mutation	SNP	G	A	A			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr22:26937461G>A	uc003acv.2	-	2	304	c.136C>T	c.(136-138)CGG>TGG	p.R46W	TPST2_uc003acw.2_Missense_Mutation_p.R46W|TPST2_uc003acx.2_Missense_Mutation_p.R46W|TPST2_uc011akf.1_Missense_Mutation_p.R46W	NM_003595	NP_003586	O60704	TPST2_HUMAN	tyrosylprotein sulfotransferase 2	46	Lumenal (Potential).				peptidyl-tyrosine sulfation	endoplasmic reticulum|Golgi membrane|integral to membrane|membrane fraction	protein-tyrosine sulfotransferase activity			central_nervous_system(1)	1						TGCTCAGGCCGCATGGCCCCC	0.701													3	33					0	0	0.184627	0	0
CYP2D7P1	1564	broad.mit.edu	37	22	42537280	42537280	+	Missense_Mutation	SNP	T	C	C	rs28367005	by1000genomes	TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr22:42537280T>C	uc003bci.2	-	7	1166	c.785A>G	c.(784-786)CAC>CGC	p.H262R	CYP2D7P1_uc003bcg.2_Missense_Mutation_p.H6R|CYP2D7P1_uc003bch.2_Missense_Mutation_p.H6R|CYP2D7P1_uc010gyv.2_Missense_Mutation_p.H46R|CYP2D7P1_uc010gyw.2_RNA|CYP2D7P1_uc010gyx.1_3'UTR	NR_002570				SubName: Full=Cytochrome P450 2D6;          EC=1.14.14.1;												0						GTAGGGCATGTGAGCCTGGTC	0.577													2	9					0	0	0.115264	0	0
CAPN7	23473	broad.mit.edu	37	3	15288921	15288921	+	Missense_Mutation	SNP	A	G	G			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr3:15288921A>G	uc003bzn.2	+	19	2431	c.2161A>G	c.(2161-2163)ATA>GTA	p.I721V		NM_014296	NP_055111	Q9Y6W3	CAN7_HUMAN	calpain 7	721	Domain N.				proteolysis	nucleus	calcium-dependent cysteine-type endopeptidase activity			ovary(1)	1						CCAATTCCATATAGAAAAGAC	0.343													37	54					0	0	0.840704	0	0
ACAA1	30	broad.mit.edu	37	3	38168151	38168151	+	Missense_Mutation	SNP	T	G	G			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr3:38168151T>G	uc003cht.2	-	8	874	c.667A>C	c.(667-669)ATT>CTT	p.I223L	ACAA1_uc003chu.2_Missense_Mutation_p.I190L|ACAA1_uc010hgy.2_Missense_Mutation_p.I182L|ACAA1_uc010hgz.2_Missense_Mutation_p.I223L|ACAA1_uc003chv.2_Missense_Mutation_p.I71L	NM_001607	NP_001598	P09110	THIK_HUMAN	acetyl-Coenzyme A acyltransferase 1 isoform a	223					fatty acid beta-oxidation using acyl-CoA oxidase|generation of precursor metabolites and energy	peroxisomal matrix	acetyl-CoA C-acyltransferase activity|protein binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0523)|Kidney(284;0.0657)		ACAGGCACAATCTCAGCTTGG	0.612													42	65					0	0	0.870114	0	0
TGM4	7047	broad.mit.edu	37	3	44926858	44926858	+	Missense_Mutation	SNP	G	T	T			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr3:44926858G>T	uc003coc.3	+	2	134	c.61G>T	c.(61-63)GCC>TCC	p.A21S	TGM4_uc003coa.2_Missense_Mutation_p.A21S|TGM4_uc003cob.2_RNA	NM_003241	NP_003232	P49221	TGM4_HUMAN	transglutaminase 4 (prostate)	21					peptide cross-linking|protein polyamination		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00963)|KIRC - Kidney renal clear cell carcinoma(197;0.0546)|Kidney(197;0.0686)	L-Glutamine(DB00130)	TCAGGACAACGCCGTTTCTCA	0.522													12	28					3.07112e-06	3.16861e-06	0.387290	1	0
SETD2	29072	broad.mit.edu	37	3	47127778	47127778	+	Missense_Mutation	SNP	C	A	A			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr3:47127778C>A	uc003cqs.2	-	11	5357	c.5304G>T	c.(5302-5304)AAG>AAT	p.K1768N	SETD2_uc003cqv.2_Missense_Mutation_p.K1835N|SETD2_uc003cqt.1_5'Flank	NM_014159	NP_054878	Q9BYW2	SETD2_HUMAN	SET domain containing 2	1768					regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	DNA binding|histone-lysine N-methyltransferase activity|oxidoreductase activity|transition metal ion binding			kidney(24)|ovary(5)|skin(1)|central_nervous_system(1)|breast(1)	32		Acute lymphoblastic leukemia(5;0.0169)		BRCA - Breast invasive adenocarcinoma(193;0.000302)|KIRC - Kidney renal clear cell carcinoma(197;0.00732)|Kidney(197;0.00844)		CCAGAAAGGACTTCAGGCAGG	0.512			N|F|S|Mis		clear cell renal carcinoma								19	32					2.37509e-13	2.70844e-13	0.592651	1	0
TMEM175	84286	broad.mit.edu	37	4	947053	947053	+	Missense_Mutation	SNP	C	G	G			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr4:947053C>G	uc003gbq.2	+	8	636	c.538C>G	c.(538-540)CTG>GTG	p.L180V	TMEM175_uc010ibl.1_Missense_Mutation_p.L180V|TMEM175_uc003gbp.1_Missense_Mutation_p.L98V|TMEM175_uc003gbr.2_Missense_Mutation_p.L98V|TMEM175_uc003gbu.2_Missense_Mutation_p.L98V|TMEM175_uc003gbs.2_Missense_Mutation_p.L63V|TMEM175_uc003gbt.2_Missense_Mutation_p.L63V|TMEM175_uc003gbv.2_Missense_Mutation_p.L63V|TMEM175_uc010ibm.2_Intron	NM_032326	NP_115702	Q9BSA9	TM175_HUMAN	transmembrane protein 175	180						integral to membrane					0			OV - Ovarian serous cystadenocarcinoma(23;0.0158)			CCACAGGGCTCTGTACCGACG	0.617													31	28					0	0	0.740014	0	0
DRD5	1816	broad.mit.edu	37	4	9784197	9784197	+	Missense_Mutation	SNP	A	T	T			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr4:9784197A>T	uc003gmb.3	+	1	940	c.544A>T	c.(544-546)AGG>TGG	p.R182W		NM_000798	NP_000789	P21918	DRD5_HUMAN	dopamine receptor D5	182	Extracellular (Potential).				activation of adenylate cyclase activity by dopamine receptor signaling pathway|activation of phospholipase C activity by dopamine receptor signaling pathway|cellular calcium ion homeostasis|negative regulation of NAD(P)H oxidase activity|reactive oxygen species metabolic process|synaptic transmission, dopaminergic	integral to plasma membrane				skin(1)	1					Apomorphine(DB00714)|Carphenazine(DB01038)|Fenoldopam(DB00800)|Zuclopenthixol(DB01624)	CAACTGGCACAGGGACCAGGC	0.617													31	47					0	0	0.729181	0	0
ANK2	287	broad.mit.edu	37	4	114232517	114232517	+	Missense_Mutation	SNP	T	A	A			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr4:114232517T>A	uc003ibe.3	+	24	2755	c.2655T>A	c.(2653-2655)AAT>AAA	p.N885K	ANK2_uc003ibd.3_Missense_Mutation_p.N864K|ANK2_uc003ibf.3_Missense_Mutation_p.N885K|ANK2_uc011cgc.1_Missense_Mutation_p.N94K|ANK2_uc003ibc.2_Missense_Mutation_p.N861K|ANK2_uc011cgb.1_Missense_Mutation_p.N900K	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	885					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		ATGGTATGAATTACCTGCGAT	0.438													33	33					0	0	0.779181	0	0
TRPC3	7222	broad.mit.edu	37	4	122825594	122825594	+	Missense_Mutation	SNP	A	C	C			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr4:122825594A>C	uc003ieg.2	-	8	2210	c.2136T>G	c.(2134-2136)GAT>GAG	p.D712E	TRPC3_uc010inr.2_Missense_Mutation_p.D584E|TRPC3_uc003ief.2_Missense_Mutation_p.D639E|TRPC3_uc011cgl.1_Missense_Mutation_p.D376E	NM_001130698	NP_001124170	Q13507	TRPC3_HUMAN	transient receptor potential cation channel,	627	Extracellular (Potential).				axon guidance|phototransduction|platelet activation	integral to plasma membrane	protein binding|store-operated calcium channel activity			ovary(2)	2						TGAATTTGTGATCATATTTGA	0.308													18	31					0	0	0.539581	0	0
MARCH6	10299	broad.mit.edu	37	5	10411600	10411600	+	Missense_Mutation	SNP	G	A	A			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr5:10411600G>A	uc003jet.1	+	19	2030	c.1847G>A	c.(1846-1848)GGG>GAG	p.G616E	MARCH6_uc011cmu.1_Missense_Mutation_p.G568E|MARCH6_uc003jeu.1_Missense_Mutation_p.G314E|MARCH6_uc011cmv.1_Missense_Mutation_p.G511E	NM_005885	NP_005876	O60337	MARH6_HUMAN	membrane-associated ring finger (C3HC4) 6	616	Cytoplasmic (Potential).				protein K48-linked ubiquitination	integral to endoplasmic reticulum membrane	ubiquitin conjugating enzyme binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|breast(1)	2						CAGCAGGGAGGGCCTGTTGGC	0.453													40	88					0	0	0.847076	0	0
Unknown	0	broad.mit.edu	37	5	33162424	33162424	+	RNA	SNP	G	T	T			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr5:33162424G>T	uc003jhx.2	+	1		c.159G>T								full-length cDNA clone CS0DI021YI22 of Placenta Cot 25-normalized of Homo sapiens (human).																		CACACAGTCCGTGTGCAGGGA	0.557													4	58					0.000602214	0.00061644	0.184627	1	0
GFM2	84340	broad.mit.edu	37	5	74026107	74026107	+	Silent	SNP	G	T	T			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr5:74026107G>T	uc003kdh.1	-	17	2008	c.1704C>A	c.(1702-1704)ATC>ATA	p.I568I	GFM2_uc003kdi.1_Silent_p.I521I|GFM2_uc010izj.1_Silent_p.I600I|GFM2_uc010izk.1_Intron	NM_032380	NP_115756	Q969S9	RRF2M_HUMAN	mitochondrial elongation factor G2 isoform 1	568					mitochondrial translation|ribosome disassembly	mitochondrion	GTP binding|GTPase activity				0		all_lung(232;0.00101)|Lung NSC(167;0.00278)|Ovarian(174;0.0129)|Breast(144;0.231)		OV - Ovarian serous cystadenocarcinoma(47;1.86e-56)		CTGAGTTTAGGATGGTCTCTC	0.368													29	68					3.69857e-22	4.33165e-22	0.729181	1	0
POC5	134359	broad.mit.edu	37	5	74981182	74981182	+	Silent	SNP	G	C	C			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr5:74981182G>C	uc003keh.3	-	10	1454	c.1257C>G	c.(1255-1257)TCC>TCG	p.S419S	POC5_uc010izu.2_Silent_p.S302S|POC5_uc003keg.3_Silent_p.S394S	NM_001099271	NP_001092741	Q8NA72	POC5_HUMAN	proteome of centriole 5 isoform 1	419					cell cycle	centriole				lung(1)	1						CGGCTGGTGGGGATGGCAGCA	0.557													44	135					0	0	0.847076	0	0
CHD1	1105	broad.mit.edu	37	5	98195710	98195710	+	Missense_Mutation	SNP	T	C	C			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr5:98195710T>C	uc003knf.2	-	32	4638	c.4490A>G	c.(4489-4491)TAT>TGT	p.Y1497C	CHD1_uc010jbn.2_Missense_Mutation_p.Y223C	NM_001270	NP_001261	O14646	CHD1_HUMAN	chromodomain helicase DNA binding protein 1	1497					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding|methylated histone residue binding			lung(2)|ovary(1)|breast(1)|pancreas(1)	5		all_cancers(142;5.36e-08)|all_epithelial(76;6.97e-11)|Lung NSC(167;0.000693)|Prostate(80;0.000986)|all_lung(232;0.00119)|Ovarian(225;0.024)|Colorectal(57;0.117)		COAD - Colon adenocarcinoma(37;0.0717)	Epirubicin(DB00445)	AGCATGCTTATATAATTTATG	0.249													37	23					0	0	0.819951	0	0
PCDHGA3	56112	broad.mit.edu	37	5	140724210	140724210	+	Nonsense_Mutation	SNP	A	T	T			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr5:140724210A>T	uc003ljm.1	+	1	610	c.610A>T	c.(610-612)AAA>TAA	p.K204*	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc010jfx.1_5'UTR|PCDHGA3_uc011dap.1_Nonsense_Mutation_p.K204*	NM_018916	NP_061739	Q9Y5H0	PCDG3_HUMAN	protocadherin gamma subfamily A, 3 isoform 1	204	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGACCGTGAGAAAAAAGAAAT	0.537													36	86					0	0	0.769981	0	0
LYPLA2P1	653639	broad.mit.edu	37	6	33333916	33333916	+	Missense_Mutation	SNP	G	T	T	rs211449		TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr6:33333916G>T	uc003shx.2	-	1	224	c.90C>A	c.(88-90)GAC>GAA	p.D30E		NR_001444				SubName: Full=Lysophospholipase II; Flags: Fragment;												0						TGTGCCCTGTGTCTCCAAGTC	0.562													4	83					0.00909568	0.00916619	0.150653	1	0
SLC22A7	10864	broad.mit.edu	37	6	43266249	43266249	+	Silent	SNP	G	A	A	rs140596352		TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr6:43266249G>A	uc003out.2	+	1	252	c.153G>A	c.(151-153)CTG>CTA	p.L51L	SLC22A7_uc010jyl.1_Silent_p.L51L|SLC22A7_uc003ous.2_Silent_p.L51L	NM_153320	NP_696961	Q9Y694	S22A7_HUMAN	solute carrier family 22 member 7 isoform b	51						basolateral plasma membrane|integral to plasma membrane|membrane fraction	anion:anion antiporter activity|sodium-independent organic anion transmembrane transporter activity				0			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.00998)|OV - Ovarian serous cystadenocarcinoma(102;0.0305)			GATGTGCCCTGCCGGGTGCCC	0.662													30	46					0	0	0.750413	0	0
LRRC1	55227	broad.mit.edu	37	6	53660212	53660212	+	Missense_Mutation	SNP	A	T	T			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr6:53660212A>T	uc003pcd.1	+	1	435	c.158A>T	c.(157-159)GAG>GTG	p.E53V		NM_018214	NP_060684	Q9BTT6	LRRC1_HUMAN	leucine rich repeat containing 1	53	LRR 2.					cytoplasm|membrane				ovary(1)	1	Lung NSC(77;0.0147)			BRCA - Breast invasive adenocarcinoma(397;0.0745)		GAGCTGCCCGAGGTAAGGGTC	0.682													8	21					0	0	0.278610	0	0
CD109	135228	broad.mit.edu	37	6	74407130	74407130	+	Missense_Mutation	SNP	T	C	C			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr6:74407130T>C	uc003php.2	+	2	507	c.82T>C	c.(82-84)TTT>CTT	p.F28L	CD109_uc010kaz.2_Missense_Mutation_p.F28L|CD109_uc003phq.2_Missense_Mutation_p.F28L|CD109_uc010kba.2_Missense_Mutation_p.F28L|uc003pho.1_5'Flank	NM_133493	NP_598000	Q6YHK3	CD109_HUMAN	CD109 antigen isoform 1 precursor	28						anchored to membrane|extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			large_intestine(2)|ovary(2)	4						TAGGCCTCGGTTTCTGGTGAC	0.507													44	62					0	0	0.864702	0	0
PHIP	55023	broad.mit.edu	37	6	79724879	79724879	+	Missense_Mutation	SNP	G	A	A			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr6:79724879G>A	uc003pir.2	-	15	1670	c.1444C>T	c.(1444-1446)CTC>TTC	p.L482F	PHIP_uc011dyp.1_Missense_Mutation_p.L482F	NM_017934	NP_060404	Q8WWQ0	PHIP_HUMAN	pleckstrin homology domain interacting protein	482	WD 7.				insulin receptor signaling pathway|negative regulation of apoptosis|positive regulation of cell proliferation|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of mitosis	nucleus	insulin receptor binding			large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)	6		all_cancers(76;0.00125)|Acute lymphoblastic leukemia(125;1.1e-05)|all_hematologic(105;0.00117)|all_epithelial(107;0.219)		BRCA - Breast invasive adenocarcinoma(397;0.231)		GCAGAAAAGAGAACTCTAGGA	0.358													10	56					0	0	0.335167	0	0
DNAH11	8701	broad.mit.edu	37	7	21908512	21908512	+	Missense_Mutation	SNP	G	T	T			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr7:21908512G>T	uc003svc.2	+	74	11922	c.11891G>T	c.(11890-11892)GGA>GTA	p.G3964V		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	3964	AAA 6 (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						ATTGACTCTGGAAAATTCCAC	0.498									Kartagener_syndrome				10	98					1.58986e-06	1.65346e-06	0.361761	1	0
GPNMB	10457	broad.mit.edu	37	7	23306207	23306207	+	Missense_Mutation	SNP	C	A	A			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr7:23306207C>A	uc003swc.2	+	7	1287	c.1126C>A	c.(1126-1128)CAC>AAC	p.H376N	GPNMB_uc003swb.2_Missense_Mutation_p.H364N|GPNMB_uc011jyy.1_Missense_Mutation_p.H318N|GPNMB_uc011jyz.1_Missense_Mutation_p.H265N	NM_001005340	NP_001005340	Q14956	GPNMB_HUMAN	glycoprotein (transmembrane) nmb isoform a	376	Extracellular (Potential).				negative regulation of cell proliferation	melanosome				ovary(3)|breast(2)	5			GBM - Glioblastoma multiforme(13;0.154)			CAGATATGGCCACTTTCAAGC	0.478													18	32					1.99824e-07	2.11196e-07	0.520397	1	0
GLI3	2737	broad.mit.edu	37	7	42063171	42063171	+	Missense_Mutation	SNP	C	T	T	rs35488756	byFrequency	TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr7:42063171C>T	uc011kbh.1	-	10	1484	c.1393G>A	c.(1393-1395)GGG>AGG	p.G465R	GLI3_uc011kbg.1_Missense_Mutation_p.G406R	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	465					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						TCTTTGTCCCCTTCCTCCTTG	0.542									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				36	55					0	0	0.812448	0	0
PILRA	29992	broad.mit.edu	37	7	99971777	99971777	+	Missense_Mutation	SNP	T	G	G			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr7:99971777T>G	uc003uuo.1	+	2	387	c.175T>G	c.(175-177)TGG>GGG	p.W59G	PILRA_uc011kjn.1_Missense_Mutation_p.W59G|PILRA_uc011kjo.1_Missense_Mutation_p.W59G|PILRA_uc003uup.1_Missense_Mutation_p.W59G|PILRA_uc003uuq.1_Missense_Mutation_p.W59G	NM_013439	NP_038467	Q9UKJ1	PILRA_HUMAN	paired immunoglobulin-like type 2 receptor alpha	59	Extracellular (Potential).|Ig-like V-type.				interspecies interaction between organisms	extracellular region|integral to membrane|plasma membrane	protein binding|receptor activity			skin(1)	1	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					CTATTACCCCTGGGAGTTAGC	0.547													9	81					0	0	0.307466	0	0
PTPRZ1	5803	broad.mit.edu	37	7	121651018	121651018	+	Missense_Mutation	SNP	G	C	C			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr7:121651018G>C	uc003vjy.2	+	12	2313	c.1918G>C	c.(1918-1920)GAA>CAA	p.E640Q	PTPRZ1_uc003vjz.2_Missense_Mutation_p.E640Q|PTPRZ1_uc011knt.1_Missense_Mutation_p.E90Q	NM_002851	NP_002842	P23471	PTPRZ_HUMAN	protein tyrosine phosphatase, receptor-type,	640	Extracellular (Potential).				central nervous system development	integral to plasma membrane	protein binding|protein tyrosine/threonine phosphatase activity|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|large_intestine(2)|lung(2)|central_nervous_system(1)|kidney(1)	9						ATCAGGTTCAGAAGAATCACT	0.418													38	52					0	0	0.819951	0	0
EPPK1	83481	broad.mit.edu	37	8	144942527	144942527	+	Missense_Mutation	SNP	C	G	G			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr8:144942527C>G	uc003zaa.1	-	1	4908	c.4895G>C	c.(4894-4896)GGA>GCA	p.G1632A		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	1632	Plectin 27.					cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			CCCGAACATTCCTGCTTTGAA	0.627													35	68					0	0	0.812448	0	0
CEP110	11064	broad.mit.edu	37	9	123900898	123900898	+	Missense_Mutation	SNP	T	G	G			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr9:123900898T>G	uc004bkx.1	+	14	2309	c.2278T>G	c.(2278-2280)TTC>GTC	p.F760V	CEP110_uc004bky.1_Missense_Mutation_p.F364V|CEP110_uc004bkz.1_Missense_Mutation_p.F208V|CEP110_uc004bla.1_Missense_Mutation_p.F208V	NM_007018	NP_008949	Q7Z7A1	CNTRL_HUMAN	centrosomal protein 110kDa	760	Potential.				cell division|G2/M transition of mitotic cell cycle	centrosome|cytosol	protein binding				0						AAAAGCCCAGTTCTCAGAAGA	0.418													37	53					0	0	0.804634	0	0
DNM1	1759	broad.mit.edu	37	9	130985083	130985083	+	Missense_Mutation	SNP	T	A	A			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr9:130985083T>A	uc011mau.1	+	9	1227	c.1140T>A	c.(1138-1140)GAT>GAA	p.D380E	DNM1_uc010mxr.2_Missense_Mutation_p.D380E|DNM1_uc011mat.1_Missense_Mutation_p.D380E	NM_004408	NP_004399	Q05193	DYN1_HUMAN	dynamin 1 isoform 1	380					receptor-mediated endocytosis	microtubule	GTP binding|GTPase activity			ovary(2)	2						TGGAGTTTGATGAGAAGGAAC	0.547													38	63					0	0	0.827153	0	0
ADAMTS13	11093	broad.mit.edu	37	9	136305499	136305499	+	Silent	SNP	G	T	T			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr9:136305499G>T	uc004cdv.3	+	16	2265	c.1821G>T	c.(1819-1821)GGG>GGT	p.G607G	ADAMTS13_uc004cdp.3_5'UTR|ADAMTS13_uc004cdt.1_Silent_p.G607G|ADAMTS13_uc004cdu.1_Silent_p.G576G|ADAMTS13_uc004cdw.3_Silent_p.G607G|ADAMTS13_uc004cdx.3_Silent_p.G576G|ADAMTS13_uc004cdy.1_RNA|ADAMTS13_uc004cdz.3_Silent_p.G277G|ADAMTS13_uc004cds.1_Silent_p.G132G|ADAMTS13_uc004cdr.1_RNA	NM_139025	NP_620594	Q76LX8	ATS13_HUMAN	ADAM metallopeptidase with thrombospondin type 1	607	Spacer.				cell-matrix adhesion|glycoprotein metabolic process|integrin-mediated signaling pathway|peptide catabolic process|platelet activation|protein processing|proteolysis	cell surface|proteinaceous extracellular matrix	calcium ion binding|integrin binding|metalloendopeptidase activity|zinc ion binding			central_nervous_system(2)|skin(2)|ovary(1)|kidney(1)	6				OV - Ovarian serous cystadenocarcinoma(145;1.06e-07)|Epithelial(140;1.28e-06)|all cancers(34;1.46e-05)		TCGTGGCTGGGAAGATGAGCA	0.642													27	57					3.65163e-15	4.20099e-15	0.706142	1	0
UBA1	7317	broad.mit.edu	37	X	47069022	47069022	+	Missense_Mutation	SNP	T	G	G			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chrX:47069022T>G	uc004dhj.3	+	17	2090	c.1939T>G	c.(1939-1941)TGG>GGG	p.W647G	UBA1_uc004dhk.3_Missense_Mutation_p.W647G|UBA1_uc004dhm.2_Missense_Mutation_p.W95G	NM_153280	NP_695012	P22314	UBA1_HUMAN	ubiquitin-activating enzyme E1	647					cell death|protein modification process		ATP binding|ligase activity|protein binding|small protein activating enzyme activity			ovary(1)	1						CTGTCTGCAGTGGGCTCGGGA	0.498													25	6					0	0	0.654019	0	0
PLXNB3	5365	broad.mit.edu	37	X	153037078	153037078	+	Missense_Mutation	SNP	G	C	C			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chrX:153037078G>C	uc004fii.2	+	14	2659	c.2485G>C	c.(2485-2487)GAG>CAG	p.E829Q	PLXNB3_uc011mzb.1_Intron|PLXNB3_uc011mzc.1_Missense_Mutation_p.E511Q|PLXNB3_uc010nuk.2_Missense_Mutation_p.E852Q|PLXNB3_uc011mzd.1_Missense_Mutation_p.E468Q|PLXNB3_uc004fij.1_5'Flank	NM_005393	NP_005384	Q9ULL4	PLXB3_HUMAN	plexin B3 isoform 1	829	Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	protein binding|receptor activity			lung(1)	1	all_hematologic(71;4.25e-06)|all_lung(58;3.83e-05)|Lung NSC(58;5.54e-05)|Acute lymphoblastic leukemia(192;6.56e-05)					GGGGGCTGTGGAGCTGCTGTG	0.692													10	0					0	0	0.387290	0	0
ATP1B1	481	broad.mit.edu	37	1	169100749	169100768	+	RNA	DEL	CGTTTTCAGGGACGTTTTGA	-	-			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr1:169100749_169100768delCGTTTTCAGGGACGTTTTGA	uc001gfs.1	+	6		c.993_1012delCGTTTTCAGGGACGTTTTGA						P05026	AT1B1_HUMAN	Synthetic construct DNA, clone: pF1KB8186, Homo sapiens ATP1B1 gene for ATPase, Na+/K+ transporting, beta 1 polypeptide, without stop codon, in Flexi system.						ATP biosynthetic process|blood coagulation|leukocyte migration	sodium:potassium-exchanging ATPase complex	protein binding|sodium:potassium-exchanging ATPase activity			ovary(1)	1	all_hematologic(923;0.208)					TGAGAAAGACCGTTTTCAGGGACGTTTTGATGTAAAAATT	0.400													26	57	---	---	---	---					
C10orf18	54906	broad.mit.edu	37	10	5790239	5790239	+	Frame_Shift_Del	DEL	T	-	-			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr10:5790239delT	uc001iij.2	+	15	5480	c.4855delT	c.(4855-4857)TTTfs	p.F1619fs	C10orf18_uc001iik.2_Frame_Shift_Del_p.F463fs	NM_017782	NP_060252	Q5VWN6	CJ018_HUMAN	hypothetical protein LOC54906	1619										ovary(1)|central_nervous_system(1)	2						GAACCATCTCTTTCCCGGTGA	0.453													29	105	---	---	---	---					
UEVLD	55293	broad.mit.edu	37	11	18568448	18568448	+	Frame_Shift_Del	DEL	G	-	-			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr11:18568448delG	uc001mot.2	-	8	945	c.865delC	c.(865-867)CTGfs	p.L289fs	UEVLD_uc001mou.2_Frame_Shift_Del_p.L289fs|UEVLD_uc010rde.1_Frame_Shift_Del_p.L159fs|UEVLD_uc010rdf.1_Frame_Shift_Del_p.L267fs|UEVLD_uc010rdg.1_Frame_Shift_Del_p.L159fs|UEVLD_uc001mov.2_Frame_Shift_Del_p.L267fs	NM_001040697	NP_001035787	Q8IX04	UEVLD_HUMAN	ubiquitin-conjugating enzyme E2-like isoform a	289					cellular carbohydrate metabolic process|protein modification process|protein transport		binding|oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor				0						GCAACGAGCAGGACACTGTGT	0.403													35	65	---	---	---	---					
LGR4	55366	broad.mit.edu	37	11	27412675	27412676	+	In_Frame_Ins	INS	-	AAG	AAG			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr11:27412675_27412676insAAG	uc001mrj.3	-	4	851_852	c.366_367insCTT	c.(364-369)insCTT	p.122_123insL	LGR4_uc001mrk.3_In_Frame_Ins_p.98_99insL	NM_018490	NP_060960	Q9BXB1	LGR4_HUMAN	leucine-rich repeat-containing G protein-coupled	122_123	LRR 3.|Extracellular (Potential).					integral to membrane|plasma membrane	protein-hormone receptor activity			ovary(1)	1						CGAATGGCTTCACTGGGTACTG	0.366													21	63	---	---	---	---					
KRT84	3890	broad.mit.edu	37	12	52771821	52771822	+	Frame_Shift_Ins	INS	-	TA	TA			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr12:52771821_52771822insTA	uc001sah.1	-	9	1847_1848	c.1799_1800insTA	c.(1798-1800)TACfs	p.Y600fs		NM_033045	NP_149034	Q9NSB2	KRT84_HUMAN	keratin, hair, basic, 4	600	Tail.					keratin filament	structural constituent of epidermis			skin(1)	1	all_hematologic(5;0.12)			BRCA - Breast invasive adenocarcinoma(357;0.189)		TGGGCTCTCAGTACTTGGTCCG	0.688													8	13	---	---	---	---					
KRT76	51350	broad.mit.edu	37	12	53162772	53162773	+	In_Frame_Ins	INS	-	GCT	GCT	rs78456199		TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr12:53162772_53162773insGCT	uc001sax.2	-	9	1695_1696	c.1641_1642insAGC	c.(1639-1644)insAGC	p.547_548insS		NM_015848	NP_056932	Q01546	K22O_HUMAN	keratin 76	547_548	Tail.				cytoskeleton organization	keratin filament	structural molecule activity			breast(1)|skin(1)	2						actccatagccactgctgctgc	0.134													11	5	---	---	---	---					
AP1G1	164	broad.mit.edu	37	16	71768532	71768533	+	Frame_Shift_Ins	INS	-	A	A			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr16:71768532_71768533insA	uc010cgg.2	-	22	2660_2661	c.2346_2347insT	c.(2344-2349)ATTAAAfs	p.I782fs	AP1G1_uc002fba.2_Frame_Shift_Ins_p.I785fs|AP1G1_uc002fbb.2_Frame_Shift_Ins_p.I805fs|AP1G1_uc002faz.2_Frame_Shift_Ins_p.I199fs	NM_001128	NP_001119	O43747	AP1G1_HUMAN	adaptor-related protein complex 1, gamma 1	782_783	GAE.				endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport|regulation of defense response to virus by virus|viral reproduction	clathrin adaptor complex|clathrin coated vesicle membrane|cytosol|Golgi membrane|lysosomal membrane|recycling endosome	kinesin binding|protein transporter activity			ovary(2)	2		Ovarian(137;0.125)				TTCAGAACTTTAATGACTTGTG	0.450													8	485	---	---	---	---					
OR7E24	26648	broad.mit.edu	37	19	9361741	9361741	+	Frame_Shift_Del	DEL	T	-	-			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr19:9361741delT	uc002mlb.1	+	1	22	c.22delT	c.(22-24)TTTfs	p.F8fs		NM_001079935	NP_001073404	Q6IFN5	O7E24_HUMAN	olfactory receptor, family 7, subfamily E,	8	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						TCCAATTCTCTTTTTTTTTTT	0.388													4	9	---	---	---	---					
OTOF	9381	broad.mit.edu	37	2	26693573	26693574	+	Frame_Shift_Ins	INS	-	C	C			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr2:26693573_26693574insC	uc002rhk.2	-	32	4037_4038	c.3910_3911insG	c.(3910-3912)GAGfs	p.E1304fs	OTOF_uc010yla.1_Frame_Shift_Ins_p.E34fs|OTOF_uc002rhh.2_Frame_Shift_Ins_p.E537fs|OTOF_uc002rhi.2_Frame_Shift_Ins_p.E614fs|OTOF_uc002rhj.2_Frame_Shift_Ins_p.E537fs	NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a	1304	Cytoplasmic (Potential).|Poly-Lys.				cellular membrane fusion|sensory perception of sound|synaptic vesicle exocytosis	basolateral plasma membrane|cell junction|cytosol|endoplasmic reticulum membrane|integral to membrane|membrane fraction|synaptic vesicle membrane	calcium ion binding			ovary(3)|breast(2)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					cttcttcttctccttctcctcc	0.515													34	49	---	---	---	---					
GALNT5	11227	broad.mit.edu	37	2	158115698	158115699	+	Frame_Shift_Ins	INS	-	T	T	rs141648249		TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr2:158115698_158115699insT	uc002tzg.2	+	1	1359_1360	c.1104_1105insT	c.(1102-1107)TCCTCTfs	p.S368fs	GALNT5_uc010zci.1_RNA	NM_014568	NP_055383	Q7Z7M9	GALT5_HUMAN	N-acetylgalactosaminyltransferase 5	368_369	Lumenal (Potential).				glycosaminoglycan biosynthetic process	Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(3)|skin(1)	4						AGATGTCTTCCTCTTCACTTGC	0.416													49	97	---	---	---	---					
TGIF2	60436	broad.mit.edu	37	20	35219568	35219569	+	Frame_Shift_Ins	INS	-	A	A			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr20:35219568_35219569insA	uc002xfn.2	+	3	621_622	c.448_449insA	c.(448-450)GAGfs	p.E150fs	C20orf24_uc002xfo.2_Intron	NM_021809	NP_068581	Q9GZN2	TGIF2_HUMAN	TGFB-induced factor homeobox 2	150	Repressive function.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			pancreas(1)|skin(1)	2	Breast(12;0.114)	Myeloproliferative disorder(115;0.00878)				CCCACGTGGGGAGCTGGAGTCT	0.629													42	63	---	---	---	---					
NF2	4771	broad.mit.edu	37	22	30069467	30069470	+	Frame_Shift_Del	DEL	AGAG	-	-			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr22:30069467_30069470delAGAG	uc003age.3	+	12	1775_1778	c.1332_1335delAGAG	c.(1330-1335)TCAGAGfs	p.S444fs	NF2_uc003afy.3_Frame_Shift_Del_p.S444fs|NF2_uc003afz.3_Frame_Shift_Del_p.S361fs|NF2_uc003agf.3_Frame_Shift_Del_p.S444fs|NF2_uc003agb.3_Frame_Shift_Del_p.S367fs|NF2_uc003agc.3_Frame_Shift_Del_p.S406fs|NF2_uc003agd.3_Intron|NF2_uc003agg.3_Frame_Shift_Del_p.S444fs|NF2_uc003aga.3_Frame_Shift_Del_p.S402fs|NF2_uc003agh.3_Frame_Shift_Del_p.S403fs|NF2_uc003agi.3_Frame_Shift_Del_p.S361fs|NF2_uc003agj.3_Intron|NF2_uc003agk.3_Frame_Shift_Del_p.S406fs|NF2_uc010gvp.2_Frame_Shift_Del_p.S108fs|NF2_uc011akq.1_Frame_Shift_Del_p.S70fs	NM_000268	NP_000259	P35240	MERL_HUMAN	neurofibromin 2 isoform 1	444_445	Glu-rich.				actin cytoskeleton organization|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of cell-cell adhesion|negative regulation of cell-matrix adhesion|negative regulation of DNA replication|negative regulation of tyrosine phosphorylation of Stat3 protein|negative regulation of tyrosine phosphorylation of Stat5 protein|positive regulation of stress fiber assembly|regulation of hippo signaling cascade|Schwann cell proliferation	cytoskeleton|early endosome|extrinsic to membrane|filopodium membrane|nucleolus|perinuclear region of cytoplasm|ruffle membrane	cytoskeletal protein binding|protein binding	p.E445fs*9(3)|p.?(2)|p.R446fs*48(1)|p.R446fs*49(1)		meninges(372)|soft_tissue(284)|central_nervous_system(20)|kidney(10)|pleura(9)|skin(7)|large_intestine(5)|breast(5)|urinary_tract(3)|thyroid(2)|endometrium(2)|ovary(2)|lung(2)|stomach(2)|bone(2)|pituitary(1)	728						CTGAGGAGTCAGAGAGGAGGTGAG	0.637			D|Mis|N|F|S|O		meningioma|acoustic neuroma|renal 	meningioma|acoustic neuroma			Neurofibromatosis_type_2				7	3	---	---	---	---					
ADAM29	11086	broad.mit.edu	37	4	175898831	175898832	+	Frame_Shift_Ins	INS	-	A	A			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr4:175898831_175898832insA	uc003iuc.2	+	5	2825_2826	c.2155_2156insA	c.(2155-2157)GAAfs	p.E719fs	ADAM29_uc003iud.2_Frame_Shift_Ins_p.E719fs|ADAM29_uc010irr.2_Frame_Shift_Ins_p.E719fs|ADAM29_uc011cki.1_Frame_Shift_Ins_p.E719fs	NM_014269	NP_055084	Q9UKF5	ADA29_HUMAN	ADAM metallopeptidase domain 29 preproprotein	719	Cytoplasmic (Potential).				proteolysis|spermatogenesis	integral to plasma membrane	metalloendopeptidase activity|zinc ion binding			skin(5)|central_nervous_system(3)|ovary(3)|large_intestine(2)|lung(2)|pancreas(1)	16		Breast(14;0.00908)|Melanoma(52;0.00951)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;3.08e-19)|Epithelial(43;6.24e-18)|OV - Ovarian serous cystadenocarcinoma(60;1.78e-09)|STAD - Stomach adenocarcinoma(60;0.00303)|GBM - Glioblastoma multiforme(59;0.0106)|LUSC - Lung squamous cell carcinoma(193;0.0286)		AAAAGAAGAGGAAAAAATTCAG	0.406													46	28	---	---	---	---					
CENPH	64946	broad.mit.edu	37	5	68505552	68505552	+	Frame_Shift_Del	DEL	A	-	-			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr5:68505552delA	uc003jvp.2	+	9	757	c.670delA	c.(670-672)AAAfs	p.K224fs	CENPH_uc010ixc.2_Frame_Shift_Del_p.K205fs	NM_022909	NP_075060	Q9H3R5	CENPH_HUMAN	centromere protein H	224					cell division|CenH3-containing nucleosome assembly at centromere|chromosome segregation|kinetochore organization|mitotic prometaphase	condensed chromosome kinetochore|cytosol|nucleoplasm	kinetochore binding|protein binding			large_intestine(1)	1		Lung NSC(167;5.51e-05)|Prostate(74;0.00634)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;1.41e-56)|Epithelial(20;1.29e-52)|all cancers(19;3.15e-48)|Lung(70;0.0178)		TTTGGGGAGTAAAGTCAATTG	0.289													31	26	---	---	---	---					
MSH3	4437	broad.mit.edu	37	5	80160742	80160743	+	Frame_Shift_Ins	INS	-	GAAA	GAAA			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr5:80160742_80160743insGAAA	uc003kgz.2	+	22	3364_3365	c.3111_3112insGAAA	c.(3109-3114)GATGAAfs	p.D1037fs		NM_002439	NP_002430	P20585	MSH3_HUMAN	mutS homolog 3	1037_1038					maintenance of DNA repeat elements|meiotic mismatch repair|negative regulation of DNA recombination|positive regulation of helicase activity|reciprocal meiotic recombination|somatic recombination of immunoglobulin gene segments	MutSbeta complex|nuclear chromosome	ATP binding|DNA-dependent ATPase activity|double-strand/single-strand DNA junction binding|enzyme binding|loop DNA binding|Y-form DNA binding			lung(2)|ovary(1)|breast(1)	4		Lung NSC(167;0.00479)|all_lung(232;0.00507)|Ovarian(174;0.0261)|Breast(144;0.244)		OV - Ovarian serous cystadenocarcinoma(54;2.38e-45)|Epithelial(54;1.58e-38)|all cancers(79;4.93e-33)		TCAGTGAGGATGAAAGCAAACT	0.396								MMR					38	129	---	---	---	---					
SLC26A8	116369	broad.mit.edu	37	6	35923086	35923086	+	Frame_Shift_Del	DEL	T	-	-			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr6:35923086delT	uc003olm.2	-	17	2186	c.2075delA	c.(2074-2076)AACfs	p.N692fs	SLC26A8_uc010jwa.2_RNA|SLC26A8_uc003olk.2_Frame_Shift_Del_p.N274fs|SLC26A8_uc003oln.2_Frame_Shift_Del_p.N692fs|SLC26A8_uc003oll.2_Frame_Shift_Del_p.N587fs	NM_052961	NP_443193	Q96RN1	S26A8_HUMAN	solute carrier family 26, member 8 isoform a	692	Interaction with RACGAP1.|STAS.|Cytoplasmic (Potential).				cell differentiation|meiosis|multicellular organismal development|spermatogenesis	integral to membrane|plasma membrane	anion:anion antiporter activity|chloride channel activity|oxalate transmembrane transporter activity|protein binding|sulfate transmembrane transporter activity			ovary(2)	2						TGGTGAGCTGTTTCTTGATGA	0.507													45	64	---	---	---	---					
C6orf153	88745	broad.mit.edu	37	6	42989414	42989419	+	In_Frame_Del	DEL	GCCGGG	-	-	rs3833662		TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr6:42989414_42989419delGCCGGG	uc003otp.1	+	1	30_35	c.22_27delGCCGGG	c.(22-27)GCCGGGdel	p.AG14del		NM_033112	NP_149103	Q96EU6	RRP36_HUMAN	hypothetical protein LOC88745	14_15					ribosomal small subunit biogenesis|rRNA processing	nucleolus					0			Colorectal(64;0.00237)|all cancers(41;0.0034)|COAD - Colon adenocarcinoma(64;0.00473)|OV - Ovarian serous cystadenocarcinoma(102;0.0539)|KIRC - Kidney renal clear cell carcinoma(15;0.133)|Kidney(15;0.188)			TAACTAccgcgccggggccggggccg	0.529													3	4	---	---	---	---					
KIAA0776	23376	broad.mit.edu	37	6	96996102	96996102	+	Frame_Shift_Del	DEL	C	-	-			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr6:96996102delC	uc003por.2	+	13	1513	c.1465delC	c.(1465-1467)CACfs	p.H489fs	KIAA0776_uc010kck.2_RNA	NM_015323	NP_056138	O94874	UFL1_HUMAN	hypothetical protein LOC23376	489					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)		TTTAAGAAAACACATACAAGA	0.308													17	19	---	---	---	---					
TNRC18	84629	broad.mit.edu	37	7	5396802	5396803	+	Frame_Shift_Ins	INS	-	G	G			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr7:5396802_5396803insG	uc003soi.3	-	16	5287_5288	c.4938_4939insC	c.(4936-4941)TTCAAGfs	p.F1646fs	TNRC18_uc003soj.2_Frame_Shift_Ins_p.F28fs	NM_001080495	NP_001073964	O15417	TNC18_HUMAN	trinucleotide repeat containing 18	1646_1647							DNA binding				0		Ovarian(82;0.142)		UCEC - Uterine corpus endometrioid carcinoma (126;0.195)|OV - Ovarian serous cystadenocarcinoma(56;5.32e-15)		TCCGAAAACTTGAAGGGCGACT	0.559													6	9	---	---	---	---					
CLIP2	7461	broad.mit.edu	37	7	73790237	73790239	+	In_Frame_Del	DEL	GTC	-	-			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr7:73790237_73790239delGTC	uc003uam.2	+	10	1833_1835	c.1506_1508delGTC	c.(1504-1509)AAGTCG>AAG	p.S503del	CLIP2_uc003uan.2_In_Frame_Del_p.S468del|CLIP2_uc003uao.2_5'UTR	NM_003388	NP_003379	Q9UDT6	CLIP2_HUMAN	CAP-GLY domain containing linker protein 2	503	Potential.					microtubule associated complex				skin(3)	3						TGGCCGAGAAGTCGCGCGTGCTG	0.670													6	9	---	---	---	---					
NCOA2	10499	broad.mit.edu	37	8	71039066	71039067	+	Frame_Shift_Ins	INS	-	AAAC	AAAC			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chr8:71039066_71039067insAAAC	uc003xyn.1	-	19	4059_4060	c.3897_3898insGTTT	c.(3895-3900)TTTCCAfs	p.F1299fs	NCOA2_uc011lfb.1_Frame_Shift_Ins_p.F387fs	NM_006540	NP_006531	Q15596	NCOA2_HUMAN	nuclear receptor coactivator 2	1299_1300					cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	histone acetyltransferase activity|ligand-dependent nuclear receptor binding|nuclear hormone receptor binding|signal transducer activity		PAX3/NCOA2(4)	lung(6)|soft_tissue(4)|breast(2)|skin(2)|ovary(1)|pancreas(1)	16	Breast(64;0.201)		Epithelial(68;0.0147)|OV - Ovarian serous cystadenocarcinoma(28;0.0455)|all cancers(69;0.0606)			GGAGGAAATGGAAACTGCTGTG	0.530			T	RUNXBP2	AML								11	40	---	---	---	---					
STAG2	10735	broad.mit.edu	37	X	123211859	123211862	+	Frame_Shift_Del	DEL	AGAT	-	-			TCGA-A4-8098-01A-11D-2396-08	TCGA-A4-8098-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	9c049bb8-3842-44e4-9961-ea59a3f347de	aea72058-4351-46a9-a314-5d54f681d649	g.chrX:123211859_123211862delAGAT	uc004etz.3	+	26	3065_3068	c.2726_2729delAGAT	c.(2725-2730)CAGATAfs	p.Q909fs	STAG2_uc004eua.2_Frame_Shift_Del_p.Q909fs|STAG2_uc004eub.2_Frame_Shift_Del_p.Q909fs|STAG2_uc004euc.2_Frame_Shift_Del_p.Q909fs|STAG2_uc004eud.2_Frame_Shift_Del_p.Q909fs|STAG2_uc004eue.2_Frame_Shift_Del_p.Q909fs	NM_006603	NP_006594	Q8N3U4	STAG2_HUMAN	stromal antigen 2 isoform b	909_910					cell division|meiosis|mitotic metaphase/anaphase transition|mitotic prometaphase|negative regulation of DNA endoreduplication|sister chromatid cohesion	chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(4)|skin(1)	5						AAAACAAGGCAGATAGACAAAATT	0.314													45	13	---	---	---	---					
