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
ERRFI1	54206	broad.mit.edu	37	1	8074413	8074413	+	Silent	SNP	T	A	A			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr1:8074413T>A	uc001aoz.2	-	4	495	c.246A>T	c.(244-246)GCA>GCT	p.A82A	ERRFI1_uc001apa.1_Silent_p.A7A	NM_018948	NP_061821	Q9UJM3	ERRFI_HUMAN	mitogen-inducible gene 6 protein	82					lung alveolus development|lung epithelium development|lung vasculature development|negative regulation of epidermal growth factor receptor activity|negative regulation of protein autophosphorylation|regulation of keratinocyte differentiation|response to stress|skin morphogenesis	cytoplasm|extrinsic to internal side of plasma membrane|nucleus	protein kinase binding|Rho GTPase activator activity			ovary(1)	1	Ovarian(185;0.06)|all_lung(157;0.151)	all_epithelial(116;1.76e-16)|all_lung(118;3.66e-05)|Lung NSC(185;0.000163)|Renal(390;0.000469)|Colorectal(325;0.0033)|Breast(348;0.0044)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.11)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;2.33e-70)|GBM - Glioblastoma multiforme(8;8.05e-37)|Colorectal(212;6.23e-08)|COAD - Colon adenocarcinoma(227;6.9e-06)|Kidney(185;4.89e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000864)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|STAD - Stomach adenocarcinoma(132;0.000985)|READ - Rectum adenocarcinoma(331;0.0642)		GACCATTTTCTGCAAAGCAGT	0.443000													4	256	---	---	---	---	0	0	0.014758	0	0
ELOVL1	64834	broad.mit.edu	37	1	43830608	43830608	+	Missense_Mutation	SNP	C	G	G			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr1:43830608C>G	uc001ciz.2	-	5	552	c.309G>C	c.(307-309)GAG>GAC	p.E103D	ELOVL1_uc001cja.2_Missense_Mutation_p.E103D|ELOVL1_uc001cjb.2_Missense_Mutation_p.E103D|ELOVL1_uc001cjc.2_RNA|ELOVL1_uc010okh.1_Intron	NM_022821	NP_073732	Q9BW60	ELOV1_HUMAN	elongation of very long chain fatty acids-like	103					fatty acid elongation, monounsaturated fatty acid|fatty acid elongation, saturated fatty acid|long-chain fatty-acyl-CoA biosynthetic process|sphingolipid biosynthetic process|triglyceride biosynthetic process|very long-chain fatty acid biosynthetic process	integral to endoplasmic reticulum membrane	fatty acid elongase activity|protein binding				0	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				CCCTAAGTGCCTCAGGGCTGT	0.557000													15	30	---	---	---	---	0	0	0.020292	0	0
SETDB1	9869	broad.mit.edu	37	1	150936158	150936158	+	Missense_Mutation	SNP	G	A	A			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr1:150936158G>A	uc001evu.2	+	20	3800	c.3610G>A	c.(3610-3612)GAG>AAG	p.E1204K	SETDB1_uc001evv.2_Missense_Mutation_p.E1204K|SETDB1_uc009wmg.1_Missense_Mutation_p.E1204K	NM_001145415	NP_001138887	Q15047	SETB1_HUMAN	SET domain, bifurcated 1 isoform 1	1204	SET.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|Golgi apparatus|nucleus|plasma membrane	DNA binding|histone-lysine N-methyltransferase activity|protein binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)	3	all_lung(15;9e-35)|Lung NSC(24;3.45e-31)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.108)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|BRCA - Breast invasive adenocarcinoma(12;0.0152)|LUSC - Lung squamous cell carcinoma(543;0.211)			CTATGATGGCGAGGAGTCTTG	0.517000													129	148	---	---	---	---	0	0	0.014410	0	0
FLG	2312	broad.mit.edu	37	1	152275908	152275908	+	Silent	SNP	C	T	T			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr1:152275908C>T	uc001ezu.1	-	3	11490	c.11454G>A	c.(11452-11454)CAG>CAA	p.Q3818Q		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	3818	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CGTCTCCTGACTGTTCCTCAT	0.582000									Ichthyosis				5	611	---	---	---	---	0	0	0.021553	0	0
ASH1L	55870	broad.mit.edu	37	1	155307970	155307970	+	Missense_Mutation	SNP	T	C	C			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr1:155307970T>C	uc009wqq.2	-	27	9208	c.8728A>G	c.(8728-8730)ACC>GCC	p.T2910A	RAG1AP1_uc010pey.1_Intron|ASH1L_uc001fkt.2_Missense_Mutation_p.T2905A	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like	2910					cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	11	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)			GGGGTACAGGTTGACTGGGGT	0.488000													34	89	---	---	---	---	0	0	0.017118	0	0
HEATR1	55127	broad.mit.edu	37	1	236729279	236729279	+	Missense_Mutation	SNP	G	C	C			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr1:236729279G>C	uc001hyd.1	-	31	4500	c.4375C>G	c.(4375-4377)CAG>GAG	p.Q1459E	HEATR1_uc009xgh.1_Missense_Mutation_p.Q621E	NM_018072	NP_060542	Q9H583	HEAT1_HUMAN	protein BAP28	1459					rRNA processing	nucleolus|ribonucleoprotein complex	protein binding			ovary(2)|skin(1)	3	Ovarian(103;0.0634)|Breast(184;0.133)	all_cancers(173;0.0255)|Prostate(94;0.175)	OV - Ovarian serous cystadenocarcinoma(106;0.00117)			CTTTGTATCTGATGCTGGACA	0.378000													34	58	---	---	---	---	0	0	0.013726	0	0
PARG	8505	broad.mit.edu	37	10	51093329	51093329	+	Missense_Mutation	SNP	C	T	T			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr10:51093329C>T	uc001jif.2	-	8	2011	c.1750G>A	c.(1750-1752)GCA>ACA	p.A584T	PARG_uc001jih.2_Missense_Mutation_p.A584T|PARG_uc001jig.2_Missense_Mutation_p.A170T|PARG_uc010qgv.1_Intron|PARG_uc009xoi.2_Intron|PARG_uc010qgw.1_Missense_Mutation_p.A475T|PARG_uc009xoj.2_Missense_Mutation_p.A135T|PARG_uc010qgx.1_Missense_Mutation_p.A502T	NM_003631	NP_003622	Q86W56	PARG_HUMAN	poly (ADP-ribose) glycohydrolase	584					carbohydrate metabolic process	nucleus	poly(ADP-ribose) glycohydrolase activity			ovary(2)	2				Epithelial(53;0.213)		TGAGCTTCTGCTTCTTCAAGT	0.318000													4	71	---	---	---	---	0	0	0.009096	0	0
PDCD11	22984	broad.mit.edu	37	10	105165806	105165806	+	Missense_Mutation	SNP	G	A	A			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr10:105165806G>A	uc001kwy.1	+	6	716	c.629G>A	c.(628-630)GGG>GAG	p.G210E		NM_014976	NP_055791	Q14690	RRP5_HUMAN	programmed cell death 11	210	S1 motif 2.				mRNA processing|rRNA processing	nucleolus	RNA binding|transcription factor binding			ovary(2)|breast(2)|skin(2)|central_nervous_system(1)	7		Colorectal(252;0.0747)|Breast(234;0.128)		Epithelial(162;7.21e-09)|all cancers(201;1.17e-08)|BRCA - Breast invasive adenocarcinoma(275;0.208)		GGTGTTGATGGGACCAGAGCT	0.512000													3	176	---	---	---	---	0	0	0.004672	0	0
NAV2	89797	broad.mit.edu	37	11	19955323	19955323	+	Silent	SNP	G	A	A			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr11:19955323G>A	uc010rdm.1	+	8	1963	c.1602G>A	c.(1600-1602)ACG>ACA	p.T534T	NAV2_uc001mpp.2_Silent_p.T447T|NAV2_uc001mpr.3_Silent_p.T511T	NM_145117	NP_660093	Q8IVL1	NAV2_HUMAN	neuron navigator 2 isoform 2	534						nucleus	ATP binding|helicase activity			skin(4)|ovary(1)|pancreas(1)	6						CCTCTGTGACGGAGAGGCTGG	0.378000													3	102	---	---	---	---	0	0	0.009096	0	0
HNRNPUL2	221092	broad.mit.edu	37	11	62494174	62494174	+	Missense_Mutation	SNP	C	T	T			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr11:62494174C>T	uc001nuw.2	-	1	648	c.455G>A	c.(454-456)AGG>AAG	p.R152K	HNRNPUL2_uc001nuu.1_RNA|TTC9C_uc001nux.2_5'Flank|TTC9C_uc001nuy.2_5'Flank	NM_001079559	NP_001073027	Q1KMD3	HNRL2_HUMAN	heterogeneous nuclear ribonucleoprotein U-like	152	Glu-rich.				cell killing	nucleus	ATP binding|nucleic acid binding				0						GTCTTCCTCCCTCTTGCCGAG	0.706000													17	34	---	---	---	---	0	0	0.014323	0	0
KDM2A	22992	broad.mit.edu	37	11	67012703	67012703	+	Missense_Mutation	SNP	C	T	T			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr11:67012703C>T	uc001ojw.2	+	14	2471	c.1607C>T	c.(1606-1608)CCC>CTC	p.P536L	KDM2A_uc001ojx.2_RNA|KDM2A_uc001ojy.2_Missense_Mutation_p.P230L|KDM2A_uc010rpn.1_Missense_Mutation_p.P97L|KDM2A_uc001ojz.1_5'UTR	NM_012308	NP_036440	Q9Y2K7	KDM2A_HUMAN	F-box and leucine-rich repeat protein 11	536					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	DNA binding|histone demethylase activity (H3-K36 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			ovary(4)|lung(3)|breast(1)|skin(1)	9						CCTACCATCCCCATTACGAAG	0.527000													109	203	---	---	---	---	0	0	0.014410	0	0
SUV420H1	51111	broad.mit.edu	37	11	67925361	67925361	+	Missense_Mutation	SNP	A	G	G			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr11:67925361A>G	uc001onm.1	-	11	2708	c.2452T>C	c.(2452-2454)TAT>CAT	p.Y818H	SUV420H1_uc009yse.1_Missense_Mutation_p.Y404H|SUV420H1_uc001onn.1_Missense_Mutation_p.Y646H|SUV420H1_uc009ysf.2_Missense_Mutation_p.Y578H	NM_017635	NP_060105	Q4FZB7	SV421_HUMAN	suppressor of variegation 4-20 homolog 1 isoform	818					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			ovary(2)|kidney(1)	3						TACTGACTATAGTCATCCACC	0.448000													62	106	---	---	---	---	0	0	0.014410	0	0
POU2AF1	5450	broad.mit.edu	37	11	111228348	111228348	+	Missense_Mutation	SNP	G	A	A			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr11:111228348G>A	uc001plg.3	-	4	533	c.278C>T	c.(277-279)CCG>CTG	p.P93L		NM_006235	NP_006226	Q16633	OBF1_HUMAN	POU class 2 associating factor 1	93					humoral immune response|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	protein binding|transcription coactivator activity			kidney(1)	1		all_cancers(61;1.36e-12)|all_epithelial(67;1.87e-07)|Melanoma(852;1.46e-05)|Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|all_neural(223;0.0146)|Medulloblastoma(222;0.0245)|Breast(348;0.0389)		Epithelial(105;1.01e-06)|BRCA - Breast invasive adenocarcinoma(274;3.12e-06)|all cancers(92;1.8e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0364)		CAGGGTGGCCGGGGTGGGCTG	0.627000			T	BCL6	NHL								3	68	---	---	---	---	0	0	0.004672	0	0
LGR5	8549	broad.mit.edu	37	12	71978313	71978313	+	Nonsense_Mutation	SNP	G	A	A			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr12:71978313G>A	uc001swl.2	+	18	2571	c.2523G>A	c.(2521-2523)TGG>TGA	p.W841*	LGR5_uc001swm.2_Nonsense_Mutation_p.W817*|LGR5_uc001swn.1_RNA	NM_003667	NP_003658	O75473	LGR5_HUMAN	leucine-rich repeat-containing G protein-coupled	841	Cytoplasmic (Potential).					integral to plasma membrane	protein-hormone receptor activity			lung(4)|skin(3)|ovary(1)|pancreas(1)	9						CCTACGTCTGGACAAGATCAA	0.448000													25	51	---	---	---	---	0	0	0.018920	0	0
LOC374491	374491	broad.mit.edu	37	13	25168432	25168432	+	RNA	SNP	T	C	C	rs149337771	by1000genomes	TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr13:25168432T>C	uc001upm.2	+	10		c.1104T>C			LOC374491_uc001upn.2_RNA|LOC374491_uc001upo.2_RNA					Homo sapiens mRNA; cDNA DKFZp434J0717 (from clone DKFZp434J0717).												0						TTGAAACAGCTGGTGTATTAA	0.373000													3	56	---	---	---	---	0	0	0.004672	0	0
ARHGDIG	398	broad.mit.edu	37	16	332688	332688	+	Silent	SNP	G	A	A			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr16:332688G>A	uc002cgm.1	+	6	627	c.552G>A	c.(550-552)GAG>GAA	p.E184E	PDIA2_uc002cgn.1_5'UTR|PDIA2_uc010bqt.1_5'UTR|PDIA2_uc002cgo.1_5'Flank	NM_001176	NP_001167	Q99819	GDIR3_HUMAN	Rho GDP dissociation inhibitor (GDI) gamma	184					negative regulation of cell adhesion|regulation of small GTPase mediated signal transduction|Rho protein signal transduction	cytoplasmic membrane-bounded vesicle|cytosol	GTPase activator activity|Rho GDP-dissociation inhibitor activity			central_nervous_system(1)	1		all_cancers(16;6.71e-07)|all_epithelial(16;1.59e-06)|Hepatocellular(16;0.000105)|Lung NSC(18;0.00769)|all_lung(18;0.0186)				CTCCGGTGGAGGAAGCGCCGA	0.642000													3	36	---	---	---	---	0	0	0.009096	0	0
C16orf11	146325	broad.mit.edu	37	16	613508	613508	+	Missense_Mutation	SNP	C	G	G			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr16:613508C>G	uc002chk.2	+	2	493	c.214C>G	c.(214-216)CCA>GCA	p.P72A		NM_145270	NP_660313	P0CG20	CP011_HUMAN	hypothetical protein LOC146325	72										central_nervous_system(1)	1						GCTAGACTCCCCAGACTGGGC	0.662000													15	35	---	---	---	---	0	0	0.020292	0	0
LCMT1	51451	broad.mit.edu	37	16	25175977	25175977	+	Missense_Mutation	SNP	G	A	A			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr16:25175977G>A	uc002dnx.1	+	7	786	c.628G>A	c.(628-630)GCA>ACA	p.A210T	LCMT1_uc002dny.1_Missense_Mutation_p.A155T|LCMT1_uc002dnz.1_Missense_Mutation_p.A110T|LCMT1_uc002doa.1_Missense_Mutation_p.A55T	NM_016309	NP_057393	Q9UIC8	LCMT1_HUMAN	leucine carboxyl methyltransferase 1 isoform a	210							protein binding|protein C-terminal carboxyl O-methyltransferase activity|S-adenosylmethionine-dependent methyltransferase activity				0				GBM - Glioblastoma multiforme(48;0.0336)	L-Leucine(DB00149)	AGAGCAGTCCGCAAACCTCCT	0.428000													3	131	---	---	---	---	0	0	0.014758	0	0
Unknown	0	broad.mit.edu	37	16	90161571	90161571	+	Missense_Mutation	SNP	A	G	G			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr16:90161571A>G	uc002fqp.2	+	3	924	c.446A>G	c.(445-447)CAA>CGA	p.Q149R	uc002fqq.2_Missense_Mutation_p.Q166R					Homo sapiens, Similar to tubulin, beta, 2, clone IMAGE:4873024, mRNA.																		CAACTGGGCCAAGGGACGCTA	0.577000													3	60	---	---	---	---	0	0	0.014758	0	0
ZNHIT3	9326	broad.mit.edu	37	17	34842567	34842567	+	Silent	SNP	C	T	T	rs139241535	byFrequency	TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr17:34842567C>T	uc002hms.1	+	1	95	c.24C>T	c.(22-24)ACC>ACT	p.T8T	ZNHIT3_uc010cus.1_Silent_p.T8T|ZNHIT3_uc002hmt.1_RNA|ZNHIT3_uc010cut.1_RNA	NM_004773	NP_004764	Q15649	ZNHI3_HUMAN	thyroid hormone receptor interactor 3	8					regulation of transcription, DNA-dependent	intracellular	metal ion binding|thyroid hormone receptor binding				0		Breast(25;0.00957)|Ovarian(249;0.17)	Kidney(155;0.104)	UCEC - Uterine corpus endometrioid carcinoma (308;0.0188)		AATGTAGCACCGTCGTCTGCG	0.657000													11	401	---	---	---	---	0	0	0.013537	0	0
MYO19	80179	broad.mit.edu	37	17	34870998	34870998	+	Missense_Mutation	SNP	T	A	A			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr17:34870998T>A	uc010wcy.1	-	9	1567	c.575A>T	c.(574-576)AAC>ATC	p.N192I	MYO19_uc002hmw.2_Missense_Mutation_p.N192I|MYO19_uc010cuu.2_RNA|MYO19_uc010wcz.1_Intron|MYO19_uc010wda.1_Missense_Mutation_p.N58I|MYO19_uc002hmx.2_Missense_Mutation_p.N192I	NM_001163735	NP_001157207	Q96H55	MYO19_HUMAN	myosin XIX isoform 2	192	Myosin head-like.					mitochondrial outer membrane|myosin complex	actin binding|ATP binding|motor activity			ovary(1)	1		Breast(25;0.00957)|Ovarian(249;0.17)	Kidney(155;0.104)	UCEC - Uterine corpus endometrioid carcinoma (308;0.0185)		GCGACTGCTGTTGTTATTCCT	0.517000													10	34	---	---	---	---	0	0	0.013537	0	0
GRB7	2886	broad.mit.edu	37	17	37901566	37901566	+	Missense_Mutation	SNP	C	T	T			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr17:37901566C>T	uc002hsr.2	+	10	1332	c.1082C>T	c.(1081-1083)TCC>TTC	p.S361F	GRB7_uc002hss.2_Missense_Mutation_p.S361F|GRB7_uc010cwc.2_Missense_Mutation_p.S361F|GRB7_uc002hst.2_Missense_Mutation_p.S361F	NM_005310	NP_005301	Q14451	GRB7_HUMAN	growth factor receptor-bound protein 7	361					blood coagulation|epidermal growth factor receptor signaling pathway|leukocyte migration|negative regulation of translation|positive regulation of cell migration|stress granule assembly	cytosol|focal adhesion|stress granule	phosphatidylinositol binding|protein kinase binding|SH3/SH2 adaptor activity			lung(2)|ovary(1)|breast(1)|skin(1)	5	all_cancers(6;1.06e-93)|all_epithelial(6;2.33e-113)|Breast(7;9.37e-100)|Lung NSC(9;9.76e-10)|all_lung(9;5.34e-09)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)		UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|Epithelial(3;6.86e-60)|all cancers(3;1.65e-53)|BRCA - Breast invasive adenocarcinoma(8;2.03e-43)|STAD - Stomach adenocarcinoma(3;1.43e-12)|Colorectal(5;6.23e-08)|COAD - Colon adenocarcinoma(5;8.58e-06)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|LUSC - Lung squamous cell carcinoma(15;0.171)			TGTTTGGGCTCCCCACCCTTG	0.592000													21	90	---	---	---	---	0	0	0.014323	0	0
Unknown	0	broad.mit.edu	37	17	45127107	45127107	+	Missense_Mutation	SNP	C	G	G	rs147409399	by1000genomes	TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr17:45127107C>G	uc010wkj.1	+	2	659	c.305C>G	c.(304-306)ACC>AGC	p.T102S	uc010wkl.1_RNA					SubName: Full=Putative uncharacterized protein LRRC37A3;																		CCTTCGTTCACCCAAGAGCAT	0.592000													4	89	---	---	---	---	0	0	0.009096	0	0
AP3D1	8943	broad.mit.edu	37	19	2129435	2129435	+	Missense_Mutation	SNP	T	C	C			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr19:2129435T>C	uc002luz.2	-	7	837	c.614A>G	c.(613-615)AAT>AGT	p.N205S	AP3D1_uc002luy.2_Intron|AP3D1_uc002lva.2_Missense_Mutation_p.N205S	NM_003938	NP_003929	O14617	AP3D1_HUMAN	adaptor-related protein complex 3, delta 1	205	HEAT 4.				eye pigment biosynthetic process|intracellular protein transport|regulation of sequestering of zinc ion|vesicle-mediated transport	endosome membrane|Golgi membrane|membrane coat	binding|protein transporter activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GCAGATGACATTGACGGCAGC	0.577000													11	82	---	---	---	---	0	0	0.016522	0	0
FBN3	84467	broad.mit.edu	37	19	8146248	8146248	+	Missense_Mutation	SNP	A	G	G			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr19:8146248A>G	uc002mjf.2	-	57	7351	c.7330T>C	c.(7330-7332)TGC>CGC	p.C2444R	FBN3_uc002mje.2_Missense_Mutation_p.C283R	NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	2444	EGF-like 39; calcium-binding.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						TCACCTTTGCAGGTCCTGCCA	0.587000													3	54	---	---	---	---	0	0	0.009096	0	0
OR2Z1	284383	broad.mit.edu	37	19	8842269	8842269	+	Silent	SNP	G	A	A			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr19:8842269G>A	uc010xkg.1	+	1	879	c.879G>A	c.(877-879)AGG>AGA	p.R293R		NM_001004699	NP_001004699	Q8NG97	OR2Z1_HUMAN	olfactory receptor, family 2, subfamily Z,	293	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|skin(1)	2						ACAGTCTGAGGAATCCGGAGG	0.522000													5	119	---	---	---	---	0	0	0.014758	0	0
MUC16	94025	broad.mit.edu	37	19	9065420	9065420	+	Silent	SNP	T	G	G			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr19:9065420T>G	uc002mkp.2	-	3	22230	c.22026A>C	c.(22024-22026)ACA>ACC	p.T7342T		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	7344	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						ATGTGTCTAATGTAAAGGTAC	0.458000													33	57	---	---	---	---	0	0	0.023175	0	0
MRPL4	51073	broad.mit.edu	37	19	10369175	10369175	+	Silent	SNP	G	A	A			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr19:10369175G>A	uc002mnm.2	+	8	793	c.639G>A	c.(637-639)GGG>GGA	p.G213G	MRPL4_uc002mnn.2_Silent_p.G213G|MRPL4_uc002mno.2_Silent_p.G213G	NM_146387	NP_666499	Q9BYD3	RM04_HUMAN	mitochondrial ribosomal protein L4 isoform a	213					translation	mitochondrion|ribosome	structural constituent of ribosome			ovary(1)	1		Renal(1328;0.0112)	OV - Ovarian serous cystadenocarcinoma(20;1.39e-09)|Epithelial(33;1.99e-06)|all cancers(31;4.81e-06)	Lung(535;0.00705)		GCCGCTGGGGGGACTCCGTAC	0.647000													3	124	---	---	---	---	0	0	0.009096	0	0
ATP4A	495	broad.mit.edu	37	19	36045884	36045884	+	Silent	SNP	G	A	A			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr19:36045884G>A	uc002oal.1	-	16	2450	c.2421C>T	c.(2419-2421)GTC>GTT	p.V807V	ATP4A_uc010eee.1_5'UTR	NM_000704	NP_000695	P20648	ATP4A_HUMAN	hydrogen/potassium-exchanging ATPase 4A	807	Lumenal (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport	integral to plasma membrane	ATP binding|hydrogen:potassium-exchanging ATPase activity|magnesium ion binding			ovary(1)	1	all_lung(56;1.05e-07)|Lung NSC(56;1.63e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)		Esomeprazole(DB00736)|Lansoprazole(DB00448)|Omeprazole(DB00338)|Pantoprazole(DB00213)|Rabeprazole(DB01129)|Trifluoperazine(DB00831)	GGGGCACGCTGACGGTGATGT	0.547000													47	59	---	---	---	---	0	0	0.014410	0	0
PSG8	440533	broad.mit.edu	37	19	43269731	43269731	+	Missense_Mutation	SNP	C	T	T			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr19:43269731C>T	uc002ouo.2	-	1	101	c.3G>A	c.(1-3)ATG>ATA	p.M1I	PSG3_uc002ouf.2_Intron|PSG1_uc002oug.1_Intron|PSG8_uc002oui.2_5'UTR|PSG8_uc002ouh.2_Missense_Mutation_p.M1I|PSG8_uc010ein.2_Missense_Mutation_p.M1I|PSG8_uc002ouj.3_Intron|PSG8_uc002ouk.3_Intron|PSG8_uc002oul.3_Intron|PSG8_uc002oum.3_Intron|PSG1_uc002oun.2_Intron|PSG8_uc002oup.3_Intron	NM_182707	NP_874366	Q9UQ74	PSG8_HUMAN	pregnancy specific beta-1-glycoprotein 8 isoform	1						extracellular region					0		Prostate(69;0.00899)				AGAGGAGCCCCATGGTCTCTG	0.597000													34	52	---	---	---	---	0	0	0.030466	0	0
SLC1A5	6510	broad.mit.edu	37	19	47281988	47281988	+	Silent	SNP	G	A	A			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr19:47281988G>A	uc002pfs.2	-	5	1622	c.1002C>T	c.(1000-1002)TAC>TAT	p.Y334Y	SLC1A5_uc010xyh.1_Silent_p.Y132Y|SLC1A5_uc002pfq.2_Silent_p.Y158Y|SLC1A5_uc002pfr.2_Silent_p.Y106Y	NM_005628	NP_005619	Q15758	AAAT_HUMAN	solute carrier family 1 member 5 isoform 1	334					cellular nitrogen compound metabolic process	integral to plasma membrane|melanosome|membrane fraction	neutral amino acid transmembrane transporter activity|protein binding|receptor activity|sodium:dicarboxylate symporter activity				0		all_epithelial(76;0.00314)|Ovarian(192;0.0798)|all_neural(266;0.107)		OV - Ovarian serous cystadenocarcinoma(262;0.000338)|all cancers(93;0.000882)|Epithelial(262;0.0211)|GBM - Glioblastoma multiforme(486;0.0341)	L-Asparagine(DB00174)|L-Glutamine(DB00130)	ACAGGAAGCGGTAGGGGTTTT	0.597000													3	63	---	---	---	---	0	0	0.009096	0	0
CPT1C	126129	broad.mit.edu	37	19	50215184	50215184	+	Missense_Mutation	SNP	G	A	A			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr19:50215184G>A	uc002ppj.2	+	16	2190	c.1985G>A	c.(1984-1986)CGA>CAA	p.R662Q	CPT1C_uc002ppl.3_3'UTR|CPT1C_uc002ppi.2_Missense_Mutation_p.R579Q|CPT1C_uc002ppk.2_Missense_Mutation_p.R651Q|CPT1C_uc010eng.2_Missense_Mutation_p.R662Q|CPT1C_uc010enh.2_Missense_Mutation_p.R662Q|CPT1C_uc010ybc.1_3'UTR|CPT1C_uc010eni.1_Intron	NM_152359	NP_689572	Q8TCG5	CPT1C_HUMAN	carnitine palmitoyltransferase 1C isoform 2	662	Cytoplasmic (Potential).				fatty acid metabolic process	integral to membrane|mitochondrial outer membrane	carnitine O-palmitoyltransferase activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.107)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0011)|GBM - Glioblastoma multiforme(134;0.00786)		ATCGTGTCCCGATTCCTCCAC	0.607000													24	104	---	---	---	---	0	0	0.030593	0	0
ZNF160	90338	broad.mit.edu	37	19	53572532	53572532	+	Missense_Mutation	SNP	G	A	A			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr19:53572532G>A	uc010eqk.2	-	7	1671	c.1255C>T	c.(1255-1257)CAC>TAC	p.H419Y	ZNF160_uc002qaq.3_Missense_Mutation_p.H419Y|ZNF160_uc002qar.3_Missense_Mutation_p.H419Y	NM_001102603	NP_001096073	Q9HCG1	ZN160_HUMAN	zinc finger protein 160	419	C2H2-type 6.				hemopoiesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(134;0.02)		TCTCCAGTGTGGATTGTCTGA	0.428000													5	196	---	---	---	---	0	0	0.021553	0	0
IL1R1	3554	broad.mit.edu	37	2	102781357	102781357	+	Missense_Mutation	SNP	G	A	A			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr2:102781357G>A	uc002tbq.2	+	4	503	c.185G>A	c.(184-186)AGC>AAC	p.S62N	IL1R1_uc010fix.2_Missense_Mutation_p.S62N|IL1R1_uc002tbp.2_Missense_Mutation_p.S62N|IL1R1_uc002tbr.2_Missense_Mutation_p.S62N	NM_000877	NP_000868	P14778	IL1R1_HUMAN	interleukin 1 receptor, type I precursor	62	Extracellular (Potential).|Ig-like C2-type 1.				innate immune response	integral to plasma membrane	interleukin-1, Type I, activating receptor activity|platelet-derived growth factor receptor binding			skin(1)	1					Anakinra(DB00026)	AAAGATGACAGCAAGACACCT	0.383000													3	92	---	---	---	---	0	0	0.004672	0	0
WASH2P	375260	broad.mit.edu	37	2	114356239	114356239	+	Silent	SNP	T	C	C			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr2:114356239T>C	uc002tkh.2	+	6	775	c.717T>C	c.(715-717)CGT>CGC	p.R239R	WASH2P_uc002tka.2_RNA|WASH2P_uc002tkb.2_RNA|WASH2P_uc002tkd.2_RNA	NM_182905	NP_878908			WAS protein family homolog 1												0						CCTTTGCCCGTGTGTCAGACT	0.642000													2	6	---	---	---	---	0	0	0.014758	0	0
ZNF804A	91752	broad.mit.edu	37	2	185801992	185801992	+	Missense_Mutation	SNP	G	C	C			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr2:185801992G>C	uc002uph.2	+	4	2463	c.1869G>C	c.(1867-1869)GAG>GAC	p.E623D		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	623						intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						TGGAAGCAGAGAATAGTTACA	0.338000													5	262	---	---	---	---	0	0	0.029380	0	0
TNS1	7145	broad.mit.edu	37	2	218713500	218713500	+	Silent	SNP	G	A	A			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr2:218713500G>A	uc002vgt.2	-	17	1763	c.1365C>T	c.(1363-1365)GGC>GGT	p.G455G	TNS1_uc002vgr.2_Silent_p.G455G|TNS1_uc002vgs.2_Silent_p.G455G|TNS1_uc010zjv.1_Silent_p.G455G|TNS1_uc010fvj.1_Silent_p.G523G|TNS1_uc010fvk.1_Silent_p.G580G|TNS1_uc010fvi.1_Silent_p.G142G	NM_022648	NP_072174	Q9HBL0	TENS1_HUMAN	tensin	455						cytoplasm|cytoskeleton|focal adhesion	actin binding			ovary(3)|breast(1)	4		Renal(207;0.0483)|Lung NSC(271;0.213)		Epithelial(149;4.43e-06)|all cancers(144;0.000653)|LUSC - Lung squamous cell carcinoma(224;0.0091)|Lung(261;0.013)		GGTACATGGCGCCTTGCTTCT	0.657000													3	101	---	---	---	---	0	0	0.009096	0	0
COL4A4	1286	broad.mit.edu	37	2	227945177	227945177	+	Silent	SNP	T	C	C			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr2:227945177T>C	uc010zlt.1	-	24	2439	c.1785A>G	c.(1783-1785)AAA>AAG	p.K595K		NM_000092	NP_000083	P53420	CO4A4_HUMAN	alpha 4 type IV collagen precursor	595	Triple-helical region.				axon guidance|glomerular basement membrane development	basal lamina|collagen type IV	extracellular matrix structural constituent|protein binding			ovary(5)|central_nervous_system(3)|pancreas(1)|breast(1)|skin(1)	11		Renal(207;0.00844)|all_lung(227;0.0187)|Lung NSC(271;0.0879)|all_hematologic(139;0.21)|Esophageal squamous(248;0.242)		Epithelial(121;6.7e-11)|all cancers(144;5.39e-08)|Lung(261;0.0132)|LUSC - Lung squamous cell carcinoma(224;0.0181)		CTGGATCCCCTTTTTCTCCAG	0.463000													3	221	---	---	---	---	0	0	0.009096	0	0
SIGLEC1	6614	broad.mit.edu	37	20	3675022	3675022	+	Silent	SNP	G	A	A			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr20:3675022G>A	uc002wja.2	-	12	3102	c.3102C>T	c.(3100-3102)CCC>CCT	p.P1034P	SIGLEC1_uc002wjb.1_5'Flank|SIGLEC1_uc002wiz.3_Silent_p.P1034P	NM_023068	NP_075556	Q9BZZ2	SN_HUMAN	sialoadhesin precursor	1034	Ig-like C2-type 10.|Extracellular (Potential).				cell-cell adhesion|cell-matrix adhesion|endocytosis|inflammatory response	extracellular region|integral to membrane|plasma membrane	sugar binding			pancreas(4)|ovary(2)|skin(2)|breast(1)|central_nervous_system(1)	10						AGCTGCCTTCGGGTCCCCCCA	0.652000													39	92	---	---	---	---	0	0	0.033182	0	0
MYH7B	57644	broad.mit.edu	37	20	33582119	33582119	+	Missense_Mutation	SNP	C	T	T			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr20:33582119C>T	uc002xbi.1	+	25	2833	c.2741C>T	c.(2740-2742)GCG>GTG	p.A914V		NM_020884	NP_065935	A7E2Y1	MYH7B_HUMAN	myosin, heavy polypeptide 7B, cardiac muscle,	872	Potential.					membrane|myosin filament	actin binding|ATP binding|motor activity			ovary(1)|breast(1)	2			BRCA - Breast invasive adenocarcinoma(18;0.00691)			GCGCTGGCTGCGGCCGAGGCC	0.672000													3	66	---	---	---	---	0	0	0.004672	0	0
DNTTIP1	116092	broad.mit.edu	37	20	44432018	44432018	+	Splice_Site	SNP	G	A	A			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr20:44432018G>A	uc002xpk.2	+	8	671	c.603_splice	c.e8+1	p.K201_splice		NM_052951	NP_443183	Q9H147	TDIF1_HUMAN	terminal deoxynucleotidyltransferase interacting							nucleus				ovary(1)|central_nervous_system(1)	2		Myeloproliferative disorder(115;0.0122)				AGGCCCCAAGGTATGATTATG	0.507000													15	47	---	---	---	---	0	0	0.006122	0	0
GNAS	2778	broad.mit.edu	37	20	57428474	57428474	+	Missense_Mutation	SNP	G	A	A			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr20:57428474G>A	uc002xzw.2	+	1	439	c.154G>A	c.(154-156)GAA>AAA	p.E52K	GNASAS_uc002xzs.1_5'Flank|GNAS_uc002xzt.2_Intron|GNAS_uc002xzu.3_Intron|GNAS_uc010gjq.2_Intron|GNAS_uc002xzv.2_RNA	NM_080425	NP_536350	P63092	GNAS2_HUMAN	GNAS complex locus XLas	Error:Variant_position_missing_in_P63092_after_alignment					activation of adenylate cyclase activity|cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|intracellular transport|platelet activation|regulation of insulin secretion|sensory perception of smell|transmembrane transport|water transport	heterotrimeric G-protein complex|intrinsic to membrane|trans-Golgi network membrane	adenylate cyclase activity|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|identical protein binding|signal transducer activity			pituitary(201)|thyroid(35)|ovary(15)|adrenal_gland(9)|liver(7)|large_intestine(5)|parathyroid(5)|kidney(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|testis(1)|stomach(1)|small_intestine(1)|autonomic_ganglia(1)|pancreas(1)	292	all_lung(29;0.0104)		BRCA - Breast invasive adenocarcinoma(13;2.19e-08)|Colorectal(105;0.109)			GATGGAGACCGAACCGCCTCA	0.652000			Mis		pituitary adenoma		McCune-Albright syndrome; pseudohypoparathyroidism|type IA		3-Methylglutaconic_Aciduria_and_Myelodysplasia|McCune-Albright_syndrome|Mazabraud_syndrome	TSP Lung(22;0.16)			2	6	---	---	---	---	0	0	0.004672	0	0
COL20A1	57642	broad.mit.edu	37	20	61947922	61947922	+	Missense_Mutation	SNP	G	A	A			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr20:61947922G>A	uc011aau.1	+	21	2642	c.2542G>A	c.(2542-2544)GCC>ACC	p.A848T	COL20A1_uc011aav.1_Missense_Mutation_p.A669T	NM_020882	NP_065933	Q9P218	COKA1_HUMAN	collagen, type XX, alpha 1	848	TSP N-terminal.				cell adhesion	collagen|extracellular space	structural molecule activity			central_nervous_system(1)	1	all_cancers(38;1.39e-10)					CCTGATGGTGGCCTTCAGCCT	0.652000													7	10	---	---	---	---	0	0	0.006214	0	0
C21orf99	149992	broad.mit.edu	37	21	14439208	14439208	+	RNA	SNP	A	G	G			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr21:14439208A>G	uc002yja.3	+	10		c.2726A>G				NR_026916				Homo sapiens C21orf99 protein (C21orf99) mRNA, complete cds.												0						AAGAGAAGAAATGCCAATATA	0.299000													5	27	---	---	---	---	0	0	0.021553	0	0
DEPDC5	9681	broad.mit.edu	37	22	32215193	32215193	+	Missense_Mutation	SNP	A	G	G			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr22:32215193A>G	uc003als.2	+	22	1994	c.1852A>G	c.(1852-1854)ATG>GTG	p.M618V	DEPDC5_uc011als.1_Missense_Mutation_p.M618V|DEPDC5_uc011alu.1_Missense_Mutation_p.M618V|DEPDC5_uc011alv.1_RNA|DEPDC5_uc003alt.2_Missense_Mutation_p.M618V|DEPDC5_uc003alu.2_Missense_Mutation_p.M58V|DEPDC5_uc003alv.2_RNA|DEPDC5_uc011alt.1_Missense_Mutation_p.M590V	NM_014662	NP_055477	O75140	DEPD5_HUMAN	DEP domain containing 5 isoform 1	618					intracellular signal transduction					ovary(4)|central_nervous_system(3)|pancreas(1)	8						AAGGCGCTGGATGCACACTTT	0.363000													26	100	---	---	---	---	0	0	0.030593	0	0
CRELD2	79174	broad.mit.edu	37	22	50315381	50315381	+	Silent	SNP	C	T	T			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr22:50315381C>T	uc003bja.2	+	5	699	c.564C>T	c.(562-564)CTC>CTT	p.L188L	CRELD2_uc003biz.3_Silent_p.L188L|CRELD2_uc010haj.2_Silent_p.L188L|CRELD2_uc010hal.2_Silent_p.L188L|CRELD2_uc010hak.2_Silent_p.L188L|CRELD2_uc010ham.2_Silent_p.L188L	NM_024324	NP_077300	Q6UXH1	CREL2_HUMAN	cysteine-rich with EGF-like domains 2 isoform b	188						endoplasmic reticulum|extracellular region	calcium ion binding				0		all_cancers(38;5.53e-07)|all_epithelial(38;3.84e-06)|all_lung(38;0.00208)|Breast(42;0.0104)|Lung NSC(38;0.0199)|Ovarian(80;0.0907)|Lung SC(80;0.236)		BRCA - Breast invasive adenocarcinoma(115;0.198)|LUAD - Lung adenocarcinoma(64;0.247)		TCAGCTCGCTCCGGAACGAGA	0.677000													6	177	---	---	---	---	0	0	0.003080	0	0
FANCD2	2177	broad.mit.edu	37	3	10106529	10106529	+	Missense_Mutation	SNP	G	A	A			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr3:10106529G>A	uc003buw.2	+	23	2216	c.2138G>A	c.(2137-2139)GGT>GAT	p.G713D	FANCD2_uc003bux.1_Missense_Mutation_p.G713D|FANCD2_uc003buy.1_Missense_Mutation_p.G713D|FANCD2_uc010hcw.1_RNA	NM_033084	NP_149075	Q9BXW9	FACD2_HUMAN	Fanconi anemia complementation group D2 isoform	713					DNA repair|response to gamma radiation	nucleoplasm	protein binding|protein binding			central_nervous_system(2)|ovary(1)|skin(1)	4				OV - Ovarian serous cystadenocarcinoma(96;0.148)		AAAGATGGGGGTCCGGTGACC	0.463000			D|Mis|N|F			AML|leukemia		Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				4	243	---	---	---	---	0	0	0.014758	0	0
CPZ	8532	broad.mit.edu	37	4	8605771	8605771	+	Missense_Mutation	SNP	T	A	A			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr4:8605771T>A	uc003glm.2	+	4	691	c.565T>A	c.(565-567)TCC>ACC	p.S189T	CPZ_uc003gll.2_RNA|CPZ_uc003gln.2_Missense_Mutation_p.S52T|CPZ_uc003glo.2_Missense_Mutation_p.S178T|CPZ_uc003glp.2_RNA	NM_001014447	NP_001014447	Q66K79	CBPZ_HUMAN	carboxypeptidase Z isoform 1	189					proteolysis|Wnt receptor signaling pathway	proteinaceous extracellular matrix	metallocarboxypeptidase activity|zinc ion binding			ovary(2)|pancreas(1)	3						CAGCCACCACTCCTACGCCCA	0.697000													5	67	---	---	---	---	0	0	0.021553	0	0
POLR2B	5431	broad.mit.edu	37	4	57889901	57889901	+	Missense_Mutation	SNP	T	G	G			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr4:57889901T>G	uc003hcl.1	+	20	2883	c.2840T>G	c.(2839-2841)ATT>AGT	p.I947S	POLR2B_uc011cae.1_Missense_Mutation_p.I940S|POLR2B_uc011caf.1_Missense_Mutation_p.I872S|POLR2B_uc003hcm.1_Missense_Mutation_p.I440S	NM_000938	NP_000929	P30876	RPB2_HUMAN	DNA directed RNA polymerase II polypeptide B	947					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|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|protein binding|ribonucleoside binding			ovary(2)	2	Glioma(25;0.08)|all_neural(26;0.181)					ACTTGTGGTATTCAGTATAGA	0.328000													60	98	---	---	---	---	0	0	0.014410	0	0
DMXL1	1657	broad.mit.edu	37	5	118556676	118556676	+	Missense_Mutation	SNP	C	A	A			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr5:118556676C>A	uc003ksd.2	+	36	8295	c.8114C>A	c.(8113-8115)ACA>AAA	p.T2705K	DMXL1_uc010jcl.1_Missense_Mutation_p.T2726K	NM_005509	NP_005500	Q9Y485	DMXL1_HUMAN	Dmx-like 1	2705										ovary(2)	2		all_cancers(142;0.0314)|all_epithelial(76;0.00559)|Prostate(80;0.11)|Breast(839;0.231)		OV - Ovarian serous cystadenocarcinoma(64;0.000563)|Epithelial(69;0.00179)|all cancers(49;0.0243)		GATGATTTAACAGCTGTTCAA	0.388000													3	100	---	---	---	---	0.004672	0.0048893	0.004672	1	0
PSD2	84249	broad.mit.edu	37	5	139216458	139216458	+	Missense_Mutation	SNP	C	T	T			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr5:139216458C>T	uc003leu.1	+	10	1671	c.1466C>T	c.(1465-1467)ACG>ATG	p.T489M		NM_032289	NP_115665	Q9BQI7	PSD2_HUMAN	pleckstrin and Sec7 domain containing 2	489					regulation of ARF protein signal transduction	cytoplasm|integral to membrane	ARF guanyl-nucleotide exchange factor activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGGACAGGCACGAAGAAGGTG	0.592000													6	201	---	---	---	---	0	0	0.029380	0	0
DBN1	1627	broad.mit.edu	37	5	176893991	176893991	+	Missense_Mutation	SNP	G	A	A			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr5:176893991G>A	uc003mgy.2	-	7	800	c.628C>T	c.(628-630)CGG>TGG	p.R210W	DBN1_uc003mgx.2_Missense_Mutation_p.R212W|DBN1_uc010jkn.1_Missense_Mutation_p.R160W|DBN1_uc003mgz.1_Missense_Mutation_p.R147W	NM_004395	NP_004386	Q16643	DREB_HUMAN	drebrin 1 isoform a	210					actin filament organization|regulation of dendrite development|regulation of neuronal synaptic plasticity	actomyosin|cytoplasm|dendrite	actin binding|profilin binding			breast(3)|ovary(1)|lung(1)|skin(1)	6	all_cancers(89;2.17e-05)|Renal(175;0.000269)|Lung NSC(126;0.0014)|all_lung(126;0.0025)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TGCTCCATCCGCTCCTGCTCG	0.667000													3	70	---	---	---	---	0	0	0.004672	0	0
DNAH8	1769	broad.mit.edu	37	6	38749066	38749066	+	Missense_Mutation	SNP	C	T	T			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr6:38749066C>T	uc003ooe.1	+	14	2125	c.1525C>T	c.(1525-1527)CGC>TGC	p.R509C		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						CCCTCTTGCTCGCAACATGCC	0.383000													50	108	---	---	---	---	0	0	0.014410	0	0
ARID1B	57492	broad.mit.edu	37	6	157528133	157528133	+	Missense_Mutation	SNP	G	A	A			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr6:157528133G>A	uc003qqn.2	+	20	5956	c.5804G>A	c.(5803-5805)CGT>CAT	p.R1935H	ARID1B_uc003qqo.2_Missense_Mutation_p.R1895H|ARID1B_uc003qqp.2_Missense_Mutation_p.R1882H	NM_017519	NP_059989	Q8NFD5	ARI1B_HUMAN	AT rich interactive domain 1B (SWI1-like)	1940					chromatin-mediated maintenance of transcription|nervous system development|transcription, DNA-dependent	SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			ovary(1)|breast(1)	2		Breast(66;0.000162)|Ovarian(120;0.0265)		OV - Ovarian serous cystadenocarcinoma(65;3.19e-17)|BRCA - Breast invasive adenocarcinoma(81;1.01e-05)		AATATTGTCCGTAGCTTGTCA	0.557000													5	263	---	---	---	---	0	0	0.014758	0	0
SYTL3	94120	broad.mit.edu	37	6	159178397	159178397	+	Missense_Mutation	SNP	A	G	G			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr6:159178397A>G	uc003qrp.2	+	13	1536	c.1292A>G	c.(1291-1293)CAT>CGT	p.H431R	SYTL3_uc011efp.1_Missense_Mutation_p.H431R|SYTL3_uc003qro.2_Missense_Mutation_p.H363R|SYTL3_uc003qrq.2_Missense_Mutation_p.H363R|SYTL3_uc003qrr.2_Missense_Mutation_p.H431R|SYTL3_uc003qrs.2_Missense_Mutation_p.H363R|SYTL3_uc011efq.1_Missense_Mutation_p.H157R	NM_001009991	NP_001009991	Q4VX76	SYTL3_HUMAN	synaptotagmin-like 3	431					intracellular protein transport	endomembrane system|membrane	Rab GTPase binding				0		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;1.54e-17)|BRCA - Breast invasive adenocarcinoma(81;8.24e-06)		TTCCGCTGGCATCCGCTCCGG	0.527000													18	83	---	---	---	---	0	0	0.010504	0	0
SLC22A2	6582	broad.mit.edu	37	6	160679691	160679691	+	Silent	SNP	G	A	A			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr6:160679691G>A	uc003qtf.2	-	1	269	c.99C>T	c.(97-99)TTC>TTT	p.F33F	SLC22A2_uc003qte.1_Silent_p.F33F|SLC22A2_uc003qth.1_Silent_p.F33F	NM_003058	NP_003049	O15244	S22A2_HUMAN	solute carrier family 22 member 2	33	Helical; (Potential).				body fluid secretion|neurotransmitter biosynthetic process|neurotransmitter secretion	integral to plasma membrane|membrane fraction	neurotransmitter transporter activity|organic cation transmembrane transporter activity			breast(1)|skin(1)	2		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;2.28e-17)|BRCA - Breast invasive adenocarcinoma(81;6.29e-06)		AGATGGGCGCGAAGGTAGCCG	0.612000													33	71	---	---	---	---	0	0	0.021022	0	0
BRAF	673	broad.mit.edu	37	7	140453136	140453136	+	Missense_Mutation	SNP	A	T	T			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr7:140453136A>T	uc003vwc.3	-	15	1860	c.1799T>A	c.(1798-1800)GTG>GAG	p.V600E		NM_004333	NP_004324	P15056	BRAF_HUMAN	B-Raf	600	Protein kinase.		V -> D (in a melanoma cell line; requires 2 nucleotide substitutions).|V -> E (in sarcoma, colorectal adenocarcinoma, metastatic melanoma, ovarian serous carcinoma, pilocytic astrocytoma; somatic mutation; most common mutation; constitutive and elevated kinase activity; efficiently induces cell transformation; suppression of mutation in melanoma causes growth arrest and promotes apoptosis).		activation of MAPKK activity|anti-apoptosis|nerve growth factor receptor signaling pathway|organ morphogenesis|positive regulation of peptidyl-serine phosphorylation|small GTPase mediated signal transduction|synaptic transmission	cytosol|nucleus|plasma membrane	ATP binding|metal ion binding	p.V600E(16892)|p.V600?(325)|p.V600K(176)|p.V600R(36)|p.V600M(25)|p.V600A(23)|p.V600D(21)|p.V600G(11)|p.V600_K601>E(8)|p.T599_V600insTT(3)|p.T599_R603>I(2)|p.T599_V600>IAL(2)|p.V600L(2)|p.T599_V600insT(2)|p.V600_W604del(1)|p.V600_S605>DV(1)|p.V600_S605>D(1)|p.T599_V600insV(1)|p.T599_V600insDFGLAT(1)	KIAA1549/BRAF(229)|AKAP9_ENST00000356239/BRAF(10)|AGTRAP/BRAF(2)|FCHSD1/BRAF(2)|SLC45A3/BRAF(2)	thyroid(8166)|large_intestine(5052)|skin(3798)|NS(368)|central_nervous_system(284)|ovary(236)|lung(78)|eye(53)|prostate(44)|endometrium(30)|biliary_tract(28)|soft_tissue(27)|haematopoietic_and_lymphoid_tissue(22)|breast(18)|upper_aerodigestive_tract(13)|stomach(13)|pancreas(10)|small_intestine(10)|testis(7)|bone(6)|cervix(5)|genital_tract(4)|oesophagus(3)|urinary_tract(3)|adrenal_gland(3)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|meninges(1)|kidney(1)|autonomic_ganglia(1)|pituitary(1)|salivary_gland(1)	18290	Melanoma(164;0.00956)				Sorafenib(DB00398)	TCGAGATTTCACTGTAGCTAG	0.368000	V600E(UACC257_SKIN)|V600D(K029AX_SKIN)|V600E(HS695T_SKIN)|V600E(COLO679_SKIN)|V600E(BT474_BREAST)|V600E(IGR39_SKIN)|V600E(A101D_SKIN)|V600E(COLO783_SKIN)|V600E(IGR37_SKIN)|V600E(A375_SKIN)|V600E(WM793_SKIN)|V600E(COLO818_SKIN)|V600E(HS294T_SKIN)|V600E(SKMEL28_SKIN)|V600E(DU4475_BREAST)|V600E(SIGM5_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|V600E(IGR1_SKIN)|V600E(SKHEP1_LIVER)|V600E(WM983B_SKIN)|V600E(GCT_SOFT_TISSUE)|V600E(RVH421_SKIN)|V600D(WM2664_SKIN)|V600E(CL34_LARGE_INTESTINE)|V600E(SKMEL24_SKIN)|V600D(WM115_SKIN)|V600E(MALME3M_SKIN)|V600E(A673_BONE)|V600E(C32_SKIN)|V600E(DBTRG05MG_CENTRAL_NERVOUS_SYSTEM)|V600E(COLO800_SKIN)|V600E(COLO741_SKIN)|V600E(HS939T_SKIN)|V600E(COLO205_LARGE_INTESTINE)|V600E(K029AX_SKIN)|V600E(AM38_CENTRAL_NERVOUS_SYSTEM)|V600E(SH4_SKIN)|V600E(WM88_SKIN)|V600E(KG1C_CENTRAL_NERVOUS_SYSTEM)|V600E(COLO849_SKIN)|V600E(MELHO_SKIN)|V600E(BHT101_THYROID)|V600E(G361_SKIN)|V600E(UACC62_SKIN)|V600E(BCPAP_THYROID)|V600E(8505C_THYROID)|V600E(SW1417_LARGE_INTESTINE)|V600E(COLO829_SKIN)|V600E(RKO_LARGE_INTESTINE)|V600E(A2058_SKIN)|V600E(RPMI7951_SKIN)|V600E(OUMS23_LARGE_INTESTINE)|V600E(SKMEL5_SKIN)|V600E(ES2_OVARY)|V600E(LOXIMVI_SKIN)	61	Mis|T|O	AKAP9|KIAA1549	melanoma|colorectal|papillary thyroid|borderline ov|Non small-cell lung cancer (NSCLC)|cholangiocarcinoma|pilocytic astrocytoma		Cardio-facio-cutaneous syndrome		Cardiofaciocutaneous_syndrome				52	83	---	---	---	---	0	0	0.014410	0	0
FUT10	84750	broad.mit.edu	37	8	33247184	33247184	+	Missense_Mutation	SNP	G	A	A			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr8:33247184G>A	uc003xje.2	-	4	865	c.509C>T	c.(508-510)ACT>ATT	p.T170I	FUT10_uc003xjc.2_Missense_Mutation_p.T177I|FUT10_uc003xjd.2_Missense_Mutation_p.T142I|FUT10_uc011lbi.1_Missense_Mutation_p.T220I|FUT10_uc003xjf.2_Missense_Mutation_p.T108I|FUT10_uc003xjg.2_Missense_Mutation_p.T142I|FUT10_uc003xjh.2_Missense_Mutation_p.T170I	NM_032664	NP_116053	Q6P4F1	FUT10_HUMAN	fucosyltransferase 10	170	Lumenal (Potential).				embryo development|fertilization|hemopoiesis|L-fucose catabolic process|nervous system development|protein folding|protein glycosylation|protein targeting|wound healing	Golgi cisterna membrane|integral to membrane	alpha(1,3)-fucosyltransferase activity			ovary(1)|pancreas(1)	2				KIRC - Kidney renal clear cell carcinoma(67;0.129)|Kidney(114;0.154)		GAACGTGGCAGTGTAGTTGAA	0.463000													3	154	---	---	---	---	0	0	0.009096	0	0
ARMC1	55156	broad.mit.edu	37	8	66525624	66525624	+	Missense_Mutation	SNP	T	C	C			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr8:66525624T>C	uc003xvl.2	-	4	555	c.320A>G	c.(319-321)TAT>TGT	p.Y107C	ARMC1_uc011leo.1_Intron	NM_018120	NP_060590	Q9NVT9	ARMC1_HUMAN	armadillo repeat-containing protein	107					metal ion transport		metal ion binding			skin(1)	1			Epithelial(68;0.103)|OV - Ovarian serous cystadenocarcinoma(28;0.235)			AAGAATGTCATAGATTTCAGA	0.348000													52	77	---	---	---	---	0	0	0.014410	0	0
BNC2	54796	broad.mit.edu	37	9	16436640	16436640	+	Missense_Mutation	SNP	C	T	T			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr9:16436640C>T	uc003zml.2	-	6	1692	c.1552G>A	c.(1552-1554)GCC>ACC	p.A518T	BNC2_uc011lmw.1_Missense_Mutation_p.A423T|BNC2_uc003zmm.2_Missense_Mutation_p.A476T|BNC2_uc003zmq.1_Missense_Mutation_p.A532T|BNC2_uc003zmr.1_Missense_Mutation_p.A555T|BNC2_uc003zmp.1_Missense_Mutation_p.A546T|BNC2_uc010mij.1_Missense_Mutation_p.A440T|BNC2_uc011lmv.1_Missense_Mutation_p.A344T|BNC2_uc003zmo.1_Missense_Mutation_p.A440T|BNC2_uc003zmj.2_Missense_Mutation_p.A283T|BNC2_uc003zmk.2_RNA|BNC2_uc003zmi.2_Missense_Mutation_p.A283T|BNC2_uc003zmn.1_Missense_Mutation_p.A283T	NM_017637	NP_060107	Q6ZN30	BNC2_HUMAN	basonuclin 2	518					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	zinc ion binding			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(50;9.01e-08)		ACAGGGGTGGCAGCTCCTGAG	0.512000													49	102	---	---	---	---	0	0	0.014410	0	0
Unknown	0	broad.mit.edu	37	9	68413572	68413572	+	RNA	SNP	C	T	T			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr9:68413572C>T	uc004aex.2	+	1		c.127C>T								Homo sapiens mRNA; cDNA DKFZp564N0763 (from clone DKFZp564N0763).																		CCAGTGGCGCCGGATCTAGGA	0.567000													2	5	---	---	---	---	0	0	0.004672	0	0
TSTD2	158427	broad.mit.edu	37	9	100364973	100364973	+	Silent	SNP	G	A	A			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr9:100364973G>A	uc004axn.2	-	10	1817	c.1329C>T	c.(1327-1329)ACC>ACT	p.T443T	TSTD2_uc004axo.2_Silent_p.T217T	NM_139246	NP_640339	Q5T7W7	TSTD2_HUMAN	thiosulfate sulfurtransferase (rhodanese)-like	443										ovary(2)	2						AGGCAGGGCAGGTCAAAACGA	0.527000													3	126	---	---	---	---	0	0	0.009096	0	0
KIAA1958	158405	broad.mit.edu	37	9	115337082	115337082	+	Missense_Mutation	SNP	A	G	G			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr9:115337082A>G	uc004bgf.1	+	2	897	c.722A>G	c.(721-723)CAC>CGC	p.H241R	KIAA1958_uc011lwx.1_Missense_Mutation_p.H241R	NM_133465	NP_597722	Q8N8K9	K1958_HUMAN	hypothetical protein LOC158405	241										skin(1)	1						CCTCAGACTCACGCTGGTCCC	0.532000													50	132	---	---	---	---	0	0	0.014410	0	0
MAGEB10	139422	broad.mit.edu	37	X	27839566	27839566	+	Missense_Mutation	SNP	A	G	G			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chrX:27839566A>G	uc004dbw.2	+	3	370	c.143A>G	c.(142-144)GAT>GGT	p.D48G		NM_182506	NP_872312	Q96LZ2	MAGBA_HUMAN	melanoma antigen family B, 10	48										lung(1)|breast(1)|central_nervous_system(1)	3						TGTTTGAAGGATGTTTTCCAG	0.522000													13	30	---	---	---	---	0	0	0.006122	0	0
FOXR2	139628	broad.mit.edu	37	X	55650393	55650393	+	Silent	SNP	C	T	T			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chrX:55650393C>T	uc004duo.2	+	1	561	c.249C>T	c.(247-249)GAC>GAT	p.D83D		NM_198451	NP_940853	Q6PJQ5	FOXR2_HUMAN	forkhead box R2	83					embryo development|organ development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			lung(2)|central_nervous_system(1)	3						TGTGGGTGGACCCCAATATCC	0.552000													32	50	---	---	---	---	0	0	0.010818	0	0
DGAT2L6	347516	broad.mit.edu	37	X	69424816	69424816	+	Missense_Mutation	SNP	C	A	A			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chrX:69424816C>A	uc004dxx.1	+	7	971	c.874C>A	c.(874-876)CCA>ACA	p.P292T		NM_198512	NP_940914	Q6ZPD8	DG2L6_HUMAN	diacylglycerol O-acyltransferase 2-like 6	292					lipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	acyltransferase activity			ovary(1)	1						GGAACCCCTTCCAATTCCCAG	0.463000													7	21	---	---	---	---	8.12818e-05	8.70877e-05	0.029380	1	0
ZCCHC16	340595	broad.mit.edu	37	X	111698774	111698774	+	Missense_Mutation	SNP	G	A	A			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chrX:111698774G>A	uc004epo.1	+	3	1259	c.818G>A	c.(817-819)CGC>CAC	p.R273H		NM_001004308	NP_001004308	Q6ZR62	ZCH16_HUMAN	zinc finger, CCHC domain containing 16	273							nucleic acid binding|zinc ion binding			ovary(1)	1						AAACGAGCCCGCCAGCAAGAA	0.552000													4	161	---	---	---	---	0	0	0.014758	0	0
AMOT	154796	broad.mit.edu	37	X	112058796	112058796	+	Silent	SNP	C	T	T			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chrX:112058796C>T	uc004epr.2	-	2	1182	c.1182G>A	c.(1180-1182)CAG>CAA	p.Q394Q	AMOT_uc004eps.2_5'UTR|AMOT_uc004ept.1_Silent_p.Q394Q	NM_001113490	NP_001106962	Q4VCS5	AMOT_HUMAN	angiomotin isoform 1	394					actin cytoskeleton organization|cell-cell junction assembly|negative regulation of angiogenesis|negative regulation of vascular permeability|positive regulation of blood vessel endothelial cell migration|positive regulation of cell size|positive regulation of stress fiber assembly|regulation of cell migration	actin filament|cell surface|cytoplasm|endocytic vesicle|external side of plasma membrane|integral to membrane|lamellipodium|ruffle|stress fiber|tight junction|tight junction	angiostatin binding|protein binding|receptor activity			ovary(1)	1						gctgctgctgctgttgttggt	0.338000													3	52	---	---	---	---	0	0	0.004672	0	0
SEPT6	23157	broad.mit.edu	37	X	118771054	118771054	+	Missense_Mutation	SNP	A	C	C			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chrX:118771054A>C	uc004erv.2	-	7	1157	c.892T>G	c.(892-894)TAT>GAT	p.Y298D	SEPT6_uc010nqk.2_Intron|SEPT6_uc004ers.2_Missense_Mutation_p.Y298D|SEPT6_uc004ert.2_Missense_Mutation_p.Y298D|SEPT6_uc004eru.2_Missense_Mutation_p.Y298D|SEPT6_uc004erw.2_Missense_Mutation_p.Y240D|SEPT6_uc011mtv.1_Missense_Mutation_p.Y240D|SEPT6_uc011mtw.1_Missense_Mutation_p.Y328D	NM_015129	NP_055944	Q14141	SEPT6_HUMAN	septin 6 isoform B	298					cell cycle|cytokinesis|interspecies interaction between organisms	cleavage furrow|condensed chromosome kinetochore|midbody|septin complex|spindle	GTP binding|protein binding			lung(1)|ovary(1)|prostate(1)|kidney(1)	4						CAGCGGCGATACAGCTCATAG	0.517000													50	137	---	---	---	---	0	0	0.014410	0	0
IGSF1	3547	broad.mit.edu	37	X	130416966	130416966	+	Missense_Mutation	SNP	T	A	A			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chrX:130416966T>A	uc004ewd.2	-	6	1178	c.940A>T	c.(940-942)ATC>TTC	p.I314F	IGSF1_uc004ewe.3_Missense_Mutation_p.I303F|IGSF1_uc004ewf.2_Missense_Mutation_p.I294F	NM_001555	NP_001546	Q8N6C5	IGSF1_HUMAN	immunoglobulin superfamily, member 1 isoform 1	314	Extracellular (Potential).				regulation of transcription, DNA-dependent	extracellular region|integral to membrane	inhibin beta-A binding|inhibin beta-B binding			ovary(3)|lung(1)|central_nervous_system(1)	5						GTCACCCAGATTTTCAGGACA	0.433000													49	89	---	---	---	---	0	0	0.014410	0	0
Unknown	0	broad.mit.edu	37	1	205410199	205410199	+	IGR	DEL	A	-	-			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr1:205410199delA								LEMD1 (19018 upstream) : MIR135B (7231 downstream)																							ATCTGCAGGGAAAGGCAGGGG	0.587													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	10	42392302	42392302	+	IGR	DEL	G	-	-	rs72505279		TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr10:42392302delG								None (None upstream) : LOC441666 (435013 downstream)																							aacatcgaatggaatcgaatg	0.000													10	9	---	---	---	---					
SAPS3	55291	broad.mit.edu	37	11	68331877	68331877	+	Frame_Shift_Del	DEL	G	-	-			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr11:68331877delG	uc001onw.2	+	9	1219	c.952delG	c.(952-954)GAAfs	p.E318fs	SAPS3_uc001onv.2_Frame_Shift_Del_p.E318fs|SAPS3_uc001ony.3_Frame_Shift_Del_p.E318fs|SAPS3_uc001onx.2_Frame_Shift_Del_p.E318fs|SAPS3_uc009ysh.2_Frame_Shift_Del_p.E318fs|SAPS3_uc001onu.2_Frame_Shift_Del_p.E318fs|SAPS3_uc010rqc.1_Intron|SAPS3_uc010rqd.1_Frame_Shift_Del_p.E25fs	NM_001164161	NP_001157633	Q5H9R7	PP6R3_HUMAN	SAPS domain family, member 3 isoform 6	318					regulation of phosphoprotein phosphatase activity	cytoplasm|nucleus	protein phosphatase binding				0			LUAD - Lung adenocarcinoma(13;0.102)			ATCTTTTCATGAACTCCTGCT	0.483													52	188	---	---	---	---					
MAP3K9	4293	broad.mit.edu	37	14	71275774	71275776	+	In_Frame_Del	DEL	CCT	-	-	rs3832971		TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr14:71275774_71275776delCCT	uc001xmm.2	-	1	113_115	c.113_115delAGG	c.(112-117)GAGGCG>GCG	p.E38del	MAP3K9_uc001xml.2_In_Frame_Del_p.E38del	NM_033141	NP_149132	P80192	M3K9_HUMAN	mitogen-activated protein kinase kinase kinase	38	Ala-rich.|Poly-Glu.				activation of JUN kinase activity|protein autophosphorylation		ATP binding|JUN kinase kinase kinase activity|MAP kinase kinase activity|protein homodimerization activity			stomach(2)|lung(1)|central_nervous_system(1)|skin(1)	5				all cancers(60;0.00779)|BRCA - Breast invasive adenocarcinoma(234;0.00884)|OV - Ovarian serous cystadenocarcinoma(108;0.08)		GCCGCCGCCGcctcctcctcctc	0.680													4	2	---	---	---	---					
MLH3	27030	broad.mit.edu	37	14	75514604	75514604	+	Frame_Shift_Del	DEL	T	-	-			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr14:75514604delT	uc001xrd.1	-	2	1971	c.1755delA	c.(1753-1755)AAAfs	p.K585fs	MLH3_uc001xre.1_Frame_Shift_Del_p.K585fs|MLH3_uc010tuy.1_RNA	NM_001040108	NP_001035197	Q9UHC1	MLH3_HUMAN	mutL homolog 3 isoform 1	585					mismatch repair|reciprocal meiotic recombination	chiasma|MutLbeta complex|synaptonemal complex	ATP binding|ATPase activity|mismatched DNA binding|protein binding|satellite DNA binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00688)		TGCTAGATTCTTTTTTTTTCT	0.358								MMR					7	135	---	---	---	---					
Unknown	0	broad.mit.edu	37	16	32213861	32213864	+	IGR	DEL	GAGC	-	-			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr16:32213861_32213864delGAGC								HERC2P4 (49987 upstream) : TP53TG3B (470977 downstream)																							ggcgggggcggagcggggcggggC	0.529													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	17	22253308	22253308	+	IGR	DEL	T	-	-			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr17:22253308delT								FLJ36000 (340238 upstream) : None (None downstream)																							ataactgcacttctttgaggc	0.000													8	10	---	---	---	---					
MLLT6	4302	broad.mit.edu	37	17	36861701	36861703	+	5'Flank	DEL	GAG	-	-			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr17:36861701_36861703delGAG	uc002hqi.3	+						MLLT6_uc010wdr.1_5'Flank|MLLT6_uc010cvm.1_5'Flank	NM_005937	NP_005928	P55198	AF17_HUMAN	myeloid/lymphoid or mixed-lineage leukemia						regulation of transcription, DNA-dependent	nucleus	protein binding|zinc ion binding			breast(3)|prostate(1)|lung(1)|skin(1)	6	Breast(7;4.43e-21)					CAGAGCGAGCgaggaggaggagg	0.443			T	MLL	AL								3	4	---	---	---	---					
MED13	9969	broad.mit.edu	37	17	60142663	60142663	+	5'Flank	DEL	G	-	-			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr17:60142663delG	uc002izo.2	-							NM_005121	NP_005112	Q9UHV7	MED13_HUMAN	mediator complex subunit 13						androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			large_intestine(1)|ovary(1)	2						GGGGAGGGCCGGGGGGGGGGT	0.478													3	4	---	---	---	---					
EIF3G	8666	broad.mit.edu	37	19	10230518	10230519	+	Frame_Shift_Del	DEL	AA	-	-			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr19:10230518_10230519delAA	uc002mnd.2	-	1	81_82	c.17_18delTT	c.(16-18)TTTfs	p.F6fs	EIF3G_uc010dxa.2_Frame_Shift_Del_p.F6fs|EIF3G_uc010xlb.1_Frame_Shift_Del_p.F6fs	NM_003755	NP_003746	O75821	EIF3G_HUMAN	eukaryotic translation initiation factor 3,	6						cytosol|eukaryotic translation initiation factor 3 complex|nucleus|perinuclear region of cytoplasm	nucleotide binding|protein binding|translation initiation factor activity				0			OV - Ovarian serous cystadenocarcinoma(20;3.53e-09)|Epithelial(33;4.91e-06)|all cancers(31;1.1e-05)			CGACTCACTCAAAGTCTCCAGT	0.649											OREG0025231	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	141	---	---	---	---					
DNMT3A	1788	broad.mit.edu	37	2	25471030	25471043	+	Frame_Shift_Del	DEL	GGGCTGGCCTCCTC	-	-			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr2:25471030_25471043delGGGCTGGCCTCCTC	uc002rgc.2	-	7	975_988	c.718_731delGAGGAGGCCAGCCC	c.(718-732)GAGGAGGCCAGCCCTfs	p.E240fs	DNMT3A_uc002rgd.2_Frame_Shift_Del_p.E240fs|DNMT3A_uc010eyi.2_RNA|DNMT3A_uc002rgb.2_Frame_Shift_Del_p.E51fs	NM_022552	NP_072046	Q9Y6K1	DNM3A_HUMAN	DNA cytosine methyltransferase 3 alpha isoform	240_244	Interaction with DNMT1 and DNMT3B.				regulation of gene expression by genetic imprinting	cytoplasm|euchromatin|nuclear matrix	DNA (cytosine-5-)-methyltransferase activity|DNA binding|metal ion binding|protein binding			haematopoietic_and_lymphoid_tissue(133)|lung(4)|ovary(3)	140	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CACAGCAGGAGGGCTGGCCTCCTCCACCTTCTGA	0.584			Mis|F|N|S		AML								19	109	---	---	---	---					
Unknown	0	broad.mit.edu	37	2	131026620	131026620	+	IGR	DEL	C	-	-			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr2:131026620delC								TUBA3E (70586 upstream) : CCDC115 (69196 downstream)																							CACTCTGTTTCCCCCATAGGG	0.647													3	5	---	---	---	---					
Unknown	0	broad.mit.edu	37	2	223680424	223680424	+	IGR	DEL	G	-	-			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr2:223680424delG								MOGAT1 (105775 upstream) : ACSL3 (45308 downstream)																							ctctgcctctgcctctgcctc	0.015													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	20	25738717	25738718	+	IGR	DEL	CT	-	-			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr20:25738717_25738718delCT								ZNF337 (61248 upstream) : FAM182B (5384 downstream)																							TCAATGAAACCTTCTGTGGCAG	0.520													3	4	---	---	---	---					
RRP7B	91695	broad.mit.edu	37	22	42976253	42976253	+	RNA	DEL	A	-	-			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr22:42976253delA	uc003bcs.2	-	2		c.196delT			RRP7B_uc003bct.2_RNA					Homo sapiens cDNA FLJ90011 fis, clone HEMBA1000443, highly similar to Gastric cancer antigen Zg14.												0						CATTGAAGACAAAAAGAGTCC	0.557													9	9	---	---	---	---					
Unknown	0	broad.mit.edu	37	4	11136713	11136717	+	IGR	DEL	CCTTT	-	-			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr4:11136713_11136717delCCTTT								CLNK (450327 upstream) : MIR572 (233734 downstream)																							ccctcccttccctttccctcccctc	0.259													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	4	70172663	70172664	+	IGR	INS	-	C	C			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr4:70172663_70172664insC								UGT2B28 (11896 upstream) : UGT2B4 (173220 downstream)																							TGGCATATGGACACCTCAAATT	0.381													7	41	---	---	---	---					
Unknown	0	broad.mit.edu	37	5	180165976	180165977	+	IGR	INS	-	C	C	rs150261063	by1000genomes	TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr5:180165976_180165977insC								FLT4 (89352 upstream) : OR2Y1 (146 downstream)																							gaaactctgttccccccgccac	0.178													3	5	---	---	---	---					
PRDM1	639	broad.mit.edu	37	6	106547263	106547264	+	Frame_Shift_Ins	INS	-	T	T			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr6:106547263_106547264insT	uc003prd.2	+	4	734_735	c.500_501insT	c.(499-501)TCTfs	p.S167fs	PRDM1_uc003pre.2_Frame_Shift_Ins_p.S33fs	NM_001198	NP_001189	O75626	PRDM1_HUMAN	PR domain containing 1, with ZNF domain isoform	167	SET.				negative regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(54)|ovary(1)|skin(1)	56	Breast(9;0.022)	all_cancers(87;2.2e-31)|all_epithelial(87;2.03e-21)|Acute lymphoblastic leukemia(125;4.99e-11)|all_lung(197;7.55e-09)|all_hematologic(75;5.82e-08)|Lung NSC(302;1.28e-06)|Colorectal(196;0.0112)|Ovarian(999;0.0365)		all cancers(137;1.83e-46)|Epithelial(106;5.59e-35)|OV - Ovarian serous cystadenocarcinoma(136;1.99e-20)|GBM - Glioblastoma multiforme(226;3.72e-11)|BRCA - Breast invasive adenocarcinoma(108;1.38e-05)		CCAGCACACTCTCCCCGGGAGC	0.485			D|N|Mis|F|S		DLBCL								36	102	---	---	---	---					
Unknown	0	broad.mit.edu	37	6	109649160	109649160	+	IGR	DEL	T	-	-			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr6:109649160delT								C6orf182 (164047 upstream) : CD164 (38558 downstream)																							ACCCCTTTAAttttttttttt	0.214													3	5	---	---	---	---					
Unknown	0	broad.mit.edu	37	7	57929339	57929342	+	IGR	DEL	TTTG	-	-			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr7:57929339_57929342delTTTG								ZNF716 (396074 upstream) : None (None downstream)																							CACATTCTGATTTGTTTTTTGTAT	0.363													2	4	---	---	---	---					
FAM74A3	728495	broad.mit.edu	37	9	40715923	40715924	+	RNA	DEL	AA	-	-	rs62565543		TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chr9:40715923_40715924delAA	uc010mmk.2	+	1		c.400_401delAA				NR_026801				Homo sapiens family with sequence similarity 74, member A3 (FAM74A3), non-coding RNA.											skin(1)	1				GBM - Glioblastoma multiforme(29;0.02)|Lung(182;0.0681)		GAAGACGTGGAAAGAGCTCAGA	0.569													3	5	---	---	---	---					
SRPX	8406	broad.mit.edu	37	X	38079976	38079978	+	In_Frame_Del	DEL	GCA	-	-	rs72249350		TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chrX:38079976_38079978delGCA	uc004ddy.1	-	1	154_156	c.68_70delTGC	c.(67-72)CTGCGC>CGC	p.L23del	SRPX_uc004ddz.1_In_Frame_Del_p.L23del|SRPX_uc011mkh.1_In_Frame_Del_p.L23del|SRPX_uc011mki.1_In_Frame_Del_p.L23del	NM_006307	NP_006298	P78539	SRPX_HUMAN	sushi-repeat-containing protein, X-linked	23			Missing.		cell adhesion	cell surface|membrane					0						GGCGGGACGCgcagcagcagcag	0.576											OREG0019726	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	11	---	---	---	---					
Unknown	0	broad.mit.edu	37	Y	13483364	13483364	+	IGR	DEL	T	-	-			TCGA-IM-A3U2-01A-21D-A22D-08	TCGA-IM-A3U2-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	40050969-977d-42b9-beb8-80e2363e9b36	3f186011-5639-4841-bdae-0ff04f6158b5	g.chrY:13483364delT								None (None upstream) : None (None downstream)																							tctgtcacaattcccctttag	0.000													14	22	---	---	---	---					
