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
CROCCL1	84809	broad.mit.edu	37	1	16946434	16946434	+	RNA	SNP	C	T	T	rs367060		TCGA-FE-A3PD-01A-11D-A21Z-08	TCGA-FE-A3PD-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5bdca282-c671-48ff-b32b-2380996016c0	9ee50075-10f8-4945-8391-66c5e87d3333	g.chr1:16946434C>T	uc010ocf.1	-	3		c.464G>A			CROCCL1_uc009vov.1_RNA|CROCCL1_uc001aze.2_RNA|CROCCL1_uc001azf.2_RNA					Homo sapiens mRNA for FLJ00313 protein.												0						CTCAGCCTTCCGCCGGGCCAG	0.672000													7	20	---	---	---	---	0	0	0.248553	0	0
MST1P9	11223	broad.mit.edu	37	1	17084510	17084510	+	Silent	SNP	G	A	A	rs61769731	by1000genomes	TCGA-FE-A3PD-01A-11D-A21Z-08	TCGA-FE-A3PD-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5bdca282-c671-48ff-b32b-2380996016c0	9ee50075-10f8-4945-8391-66c5e87d3333	g.chr1:17084510G>A	uc010ock.1	-	12	1588	c.1588C>T	c.(1588-1590)CTA>TTA	p.L530L	CROCC_uc009voy.1_Intron|MST1P9_uc001azp.3_Silent_p.L130L	NR_002729				SubName: Full=Hepatocyte growth factor-like protein homolog;												0						ACCCGCTGTAGGCCTGGCTCT	0.577000													10	98	---	---	---	---	0	0	0.361761	0	0
OR6K2	81448	broad.mit.edu	37	1	158669597	158669597	+	Missense_Mutation	SNP	C	G	G	rs141159720	byFrequency	TCGA-FE-A3PD-01A-11D-A21Z-08	TCGA-FE-A3PD-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5bdca282-c671-48ff-b32b-2380996016c0	9ee50075-10f8-4945-8391-66c5e87d3333	g.chr1:158669597C>G	uc001fsu.1	-	1	846	c.846G>C	c.(844-846)TTG>TTC	p.L282F		NM_001005279	NP_001005279	Q8NGY2	OR6K2_HUMAN	olfactory receptor, family 6, subfamily K,	282	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_hematologic(112;0.0378)					AGAAGGGAGACAAAACTGCAA	0.403000													24	28	---	---	---	---	0	0	0.681144	0	0
CACNA1E	777	broad.mit.edu	37	1	181452990	181452990	+	Missense_Mutation	SNP	C	T	T			TCGA-FE-A3PD-01A-11D-A21Z-08	TCGA-FE-A3PD-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5bdca282-c671-48ff-b32b-2380996016c0	9ee50075-10f8-4945-8391-66c5e87d3333	g.chr1:181452990C>T	uc001gow.2	+	1	275	c.110C>T	c.(109-111)GCC>GTC	p.A37V		NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	37	Cytoplasmic (Potential).				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						GGGCAGGCGGCCGCCTACAAG	0.652000													4	145	---	---	---	---	0	0	0.150653	0	0
KIAA1217	56243	broad.mit.edu	37	10	24669920	24669920	+	Silent	SNP	T	C	C			TCGA-FE-A3PD-01A-11D-A21Z-08	TCGA-FE-A3PD-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5bdca282-c671-48ff-b32b-2380996016c0	9ee50075-10f8-4945-8391-66c5e87d3333	g.chr10:24669920T>C	uc001iru.3	+	3	880	c.477T>C	c.(475-477)CCT>CCC	p.P159P	KIAA1217_uc001irs.2_Silent_p.P79P|KIAA1217_uc001irt.3_Silent_p.P159P|KIAA1217_uc010qcy.1_Silent_p.P159P|KIAA1217_uc010qcz.1_Silent_p.P159P|KIAA1217_uc001irv.1_Silent_p.P9P|KIAA1217_uc010qda.1_RNA	NM_019590	NP_062536	Q5T5P2	SKT_HUMAN	sickle tail isoform 1	159					embryonic skeletal system development	cytoplasm				ovary(5)|skin(2)	7						CTCCAACCCCTTTTTCCAGAG	0.542000													3	113	---	---	---	---	0	0	0.184627	0	0
ARID5B	84159	broad.mit.edu	37	10	63852302	63852302	+	Missense_Mutation	SNP	A	G	G			TCGA-FE-A3PD-01A-11D-A21Z-08	TCGA-FE-A3PD-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5bdca282-c671-48ff-b32b-2380996016c0	9ee50075-10f8-4945-8391-66c5e87d3333	g.chr10:63852302A>G	uc001jlt.1	+	10	3106	c.3080A>G	c.(3079-3081)AAG>AGG	p.K1027R		NM_032199	NP_115575	Q14865	ARI5B_HUMAN	AT rich interactive domain 5B (MRF1-like)	1027					liver development|negative regulation of transcription, DNA-dependent|positive regulation of sequence-specific DNA binding transcription factor activity|transcription, DNA-dependent		protein binding|transcription regulatory region DNA binding			ovary(2)|upper_aerodigestive_tract(1)|kidney(1)	4	Prostate(12;0.016)|all_hematologic(501;0.215)					GCAGGGAAAAAGGCCCGGGCA	0.607000													4	171	---	---	---	---	0	0	0.150653	0	0
MALAT1	378938	broad.mit.edu	37	11	65266387	65266387	+	RNA	SNP	A	G	G			TCGA-FE-A3PD-01A-11D-A21Z-08	TCGA-FE-A3PD-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5bdca282-c671-48ff-b32b-2380996016c0	9ee50075-10f8-4945-8391-66c5e87d3333	g.chr11:65266387A>G	uc010roh.1	+	1		c.1155A>G				NR_002819				Homo sapiens clone alpha1 mRNA sequence.												0						CTAGAAAAGTAAAACTAGAAC	0.393000													31	51	---	---	---	---	0	0	0.717897	0	0
PIWIL4	143689	broad.mit.edu	37	11	94318686	94318686	+	Silent	SNP	G	A	A			TCGA-FE-A3PD-01A-11D-A21Z-08	TCGA-FE-A3PD-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5bdca282-c671-48ff-b32b-2380996016c0	9ee50075-10f8-4945-8391-66c5e87d3333	g.chr11:94318686G>A	uc001pfa.2	+	6	922	c.711G>A	c.(709-711)CAG>CAA	p.Q237Q	PIWIL4_uc010rue.1_RNA|PIWIL4_uc009ywk.1_RNA	NM_152431	NP_689644	Q7Z3Z4	PIWL4_HUMAN	piwi-like 4	237					cell differentiation|DNA methylation involved in gamete generation|gene silencing by RNA|meiosis|multicellular organismal development|piRNA metabolic process|regulation of translation|spermatogenesis	nucleus|piP-body	piRNA binding			skin(1)	1		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)				AAATTCCCCAGCACAAGTAGG	0.328000													4	191	---	---	---	---	0	0	0.150653	0	0
TMEM132B	114795	broad.mit.edu	37	12	126137125	126137125	+	Missense_Mutation	SNP	A	G	G			TCGA-FE-A3PD-01A-11D-A21Z-08	TCGA-FE-A3PD-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5bdca282-c671-48ff-b32b-2380996016c0	9ee50075-10f8-4945-8391-66c5e87d3333	g.chr12:126137125A>G	uc001uhe.1	+	8	2046	c.2038A>G	c.(2038-2040)AGG>GGG	p.R680G	TMEM132B_uc001uhf.1_Missense_Mutation_p.R192G	NM_052907	NP_443139	Q14DG7	T132B_HUMAN	transmembrane protein 132B	680	Extracellular (Potential).					integral to membrane				skin(11)|ovary(5)|large_intestine(1)|pancreas(1)|breast(1)	19	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000423)|Epithelial(86;0.00394)|all cancers(50;0.0362)		AGCAGACAAAAGGGCCATCGT	0.612000													3	172	---	---	---	---	0	0	0.115264	0	0
N6AMT2	221143	broad.mit.edu	37	13	21306248	21306248	+	Silent	SNP	C	G	G			TCGA-FE-A3PD-01A-11D-A21Z-08	TCGA-FE-A3PD-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5bdca282-c671-48ff-b32b-2380996016c0	9ee50075-10f8-4945-8391-66c5e87d3333	g.chr13:21306248C>G	uc001uno.1	-	4	321	c.240G>C	c.(238-240)GTG>GTC	p.V80V	N6AMT2_uc009zzr.1_Silent_p.V80V|N6AMT2_uc001unp.2_RNA	NM_174928	NP_777588	Q8WVE0	N6MT2_HUMAN	N-6 adenine-specific DNA methyltransferase 2	80							methyltransferase activity|nucleic acid binding				0		all_cancers(29;5.91e-19)|all_epithelial(30;1.42e-15)|all_lung(29;5.9e-14)|Lung SC(185;0.0367)		all cancers(112;0.000234)|Epithelial(112;0.000471)|OV - Ovarian serous cystadenocarcinoma(117;0.0111)|Lung(94;0.0161)|LUSC - Lung squamous cell carcinoma(192;0.0431)		TAGGGGCACTCACACATGCGA	0.398000													64	119	---	---	---	---	0	0	0.870114	0	0
GPX2	2877	broad.mit.edu	37	14	65406325	65406325	+	Missense_Mutation	SNP	A	G	G			TCGA-FE-A3PD-01A-11D-A21Z-08	TCGA-FE-A3PD-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5bdca282-c671-48ff-b32b-2380996016c0	9ee50075-10f8-4945-8391-66c5e87d3333	g.chr14:65406325A>G	uc010tsn.1	-	3	541	c.454T>C	c.(454-456)TGG>CGG	p.W152R	CHURC1_uc010tsj.1_Intron|CHURC1_uc010tsk.1_Intron|FNTB_uc010tsl.1_Intron|FNTB_uc010tsm.1_Intron|GPX2_uc001xhy.1_RNA	NM_002083	NP_002074	P18283	GPX2_HUMAN	glutathione peroxidase 2	152					response to oxidative stress	cytoplasm	electron carrier activity|glutathione peroxidase activity			ovary(1)	1				all cancers(60;0.00117)|OV - Ovarian serous cystadenocarcinoma(108;0.00557)|BRCA - Breast invasive adenocarcinoma(234;0.00971)	Glutathione(DB00143)	TCAAAGTTCCAGGCCACATCT	0.562000													3	127	---	---	---	---	0	0	0.150653	0	0
ADAMTS7	11173	broad.mit.edu	37	15	79059040	79059041	+	Missense_Mutation	DNP	AT	GC	GC	rs144043775	by1000genomes	TCGA-FE-A3PD-01A-11D-A21Z-08	TCGA-FE-A3PD-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5bdca282-c671-48ff-b32b-2380996016c0	9ee50075-10f8-4945-8391-66c5e87d3333	g.chr15:79059040_79059041AT>GC	uc002bej.3	-	19	3423_3424	c.3212_3213AT>GC	c.(3211-3213)AAT>AGC	p.N1071S	ADAMTS7_uc010und.1_3'UTR	NM_014272	NP_055087	Q9UKP4	ATS7_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1071					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0						CCTCGTGGAAATTGATGAAATT	0.619000													3	75	---	---	---	---	0	0	0.115264	0	0
UBN1	29855	broad.mit.edu	37	16	4920917	4920917	+	Silent	SNP	A	G	G			TCGA-FE-A3PD-01A-11D-A21Z-08	TCGA-FE-A3PD-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5bdca282-c671-48ff-b32b-2380996016c0	9ee50075-10f8-4945-8391-66c5e87d3333	g.chr16:4920917A>G	uc002cyb.2	+	11	1842	c.1503A>G	c.(1501-1503)AAA>AAG	p.K501K	UBN1_uc010uxw.1_Silent_p.K501K|UBN1_uc002cyc.2_Silent_p.K501K	NM_001079514	NP_001072982	Q9NPG3	UBN1_HUMAN	ubinuclein 1	501	Potential.				chromatin modification|interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter	PML body|tight junction	DNA binding|sequence-specific DNA binding transcription factor activity			skin(2)	2						ATGAAGAAAAAGGGGGCAGGA	0.522000													3	99	---	---	---	---	0	0	0.115264	0	0
VAT1L	57687	broad.mit.edu	37	16	78005791	78005791	+	Silent	SNP	C	A	A			TCGA-FE-A3PD-01A-11D-A21Z-08	TCGA-FE-A3PD-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5bdca282-c671-48ff-b32b-2380996016c0	9ee50075-10f8-4945-8391-66c5e87d3333	g.chr16:78005791C>A	uc002ffg.1	+	8	1219	c.1122C>A	c.(1120-1122)GGC>GGA	p.G374G		NM_020927	NP_065978	Q9HCJ6	VAT1L_HUMAN	vesicle amine transport protein 1 homolog (T.	374							oxidoreductase activity|zinc ion binding			central_nervous_system(1)	1						GGAACATTGGCAAGTTAATTC	0.522000											OREG0023950	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	586	---	---	---	---	5.4927e-09	5.99204e-09	0.307466	1	0
MSI2	124540	broad.mit.edu	37	17	55752345	55752345	+	Missense_Mutation	SNP	C	T	T			TCGA-FE-A3PD-01A-11D-A21Z-08	TCGA-FE-A3PD-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5bdca282-c671-48ff-b32b-2380996016c0	9ee50075-10f8-4945-8391-66c5e87d3333	g.chr17:55752345C>T	uc002iuz.1	+	12	976	c.803C>T	c.(802-804)GCG>GTG	p.A268V	MSI2_uc010wnm.1_Missense_Mutation_p.A264V	NM_138962	NP_620412	Q96DH6	MSI2H_HUMAN	musashi 2 isoform a	268						cytoplasm	nucleotide binding|RNA binding			central_nervous_system(1)|pancreas(1)	2	Breast(9;1.78e-08)			GBM - Glioblastoma multiforme(1;0.0025)		TCCAACCCGGCGCGGCCCGGA	0.642000			T	HOXA9	CML								5	253	---	---	---	---	0	0	0.184627	0	0
LAMA3	3909	broad.mit.edu	37	18	21484047	21484047	+	Missense_Mutation	SNP	G	A	A			TCGA-FE-A3PD-01A-11D-A21Z-08	TCGA-FE-A3PD-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5bdca282-c671-48ff-b32b-2380996016c0	9ee50075-10f8-4945-8391-66c5e87d3333	g.chr18:21484047G>A	uc002kuq.2	+	50	6555	c.6469G>A	c.(6469-6471)GAA>AAA	p.E2157K	LAMA3_uc002kur.2_Missense_Mutation_p.E2101K|LAMA3_uc002kus.3_Missense_Mutation_p.E548K|LAMA3_uc002kut.3_Missense_Mutation_p.E492K	NM_198129	NP_937762	Q16787	LAMA3_HUMAN	laminin alpha 3 subunit isoform 1	2157	Domain II and I.|Potential.				cell adhesion|epidermis development|hemidesmosome assembly|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|skin(2)|central_nervous_system(1)	11	all_cancers(21;7.81e-05)|all_epithelial(16;4.45e-07)|Lung NSC(20;0.00156)|all_lung(20;0.00508)|Colorectal(14;0.0202)|Ovarian(20;0.17)				Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	AAAGCAGCTGGAAGAGTGAGT	0.567000													52	76	---	---	---	---	0	0	0.870114	0	0
ZNF223	7766	broad.mit.edu	37	19	44570331	44570331	+	Missense_Mutation	SNP	C	G	G			TCGA-FE-A3PD-01A-11D-A21Z-08	TCGA-FE-A3PD-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5bdca282-c671-48ff-b32b-2380996016c0	9ee50075-10f8-4945-8391-66c5e87d3333	g.chr19:44570331C>G	uc002oyf.1	+	5	603	c.350C>G	c.(349-351)TCT>TGT	p.S117C	ZNF284_uc010ejd.2_RNA	NM_013361	NP_037493	Q9UK11	ZN223_HUMAN	zinc finger protein 223	117					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Prostate(69;0.0352)				CCTCAAGACTCTACCATAAAG	0.473000													41	50	---	---	---	---	0	0	0.834066	0	0
TMEM178	130733	broad.mit.edu	37	2	39934227	39934227	+	Missense_Mutation	SNP	G	A	A			TCGA-FE-A3PD-01A-11D-A21Z-08	TCGA-FE-A3PD-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5bdca282-c671-48ff-b32b-2380996016c0	9ee50075-10f8-4945-8391-66c5e87d3333	g.chr2:39934227G>A	uc002rrt.2	+	3	578	c.553G>A	c.(553-555)GTA>ATA	p.V185I	TMEM178_uc010fam.1_Intron	NM_152390	NP_689603	Q8NBL3	TM178_HUMAN	transmembrane protein 178 precursor	185	Helical; (Potential).					integral to membrane					0		all_hematologic(82;0.248)				CGGCATGGCCGTAGCCGTCCT	0.488000													3	75	---	---	---	---	0	0	0.184627	0	0
ROPN1B	152015	broad.mit.edu	37	3	125701153	125701153	+	Missense_Mutation	SNP	C	T	T			TCGA-FE-A3PD-01A-11D-A21Z-08	TCGA-FE-A3PD-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5bdca282-c671-48ff-b32b-2380996016c0	9ee50075-10f8-4945-8391-66c5e87d3333	g.chr3:125701153C>T	uc003eih.2	+	5	665	c.437C>T	c.(436-438)TCA>TTA	p.S146L	ROPN1B_uc010hsb.2_Missense_Mutation_p.S146L|ROPN1B_uc010hsc.2_Missense_Mutation_p.S54L	NM_001012337	NP_001012337	Q9BZX4	ROP1B_HUMAN	ropporin, rhophilin associated protein 1B	146					acrosome reaction|cell-cell adhesion|cytokinesis|fusion of sperm to egg plasma membrane|Rho protein signal transduction|sperm motility|spermatogenesis	cytoplasm|flagellum	cAMP-dependent protein kinase regulator activity|protein heterodimerization activity|protein homodimerization activity|receptor signaling complex scaffold activity				0				GBM - Glioblastoma multiforme(114;0.151)		GAGGTCTTATCATGTGACCAC	0.428000													48	96	---	---	---	---	0	0	0.870114	0	0
C7	730	broad.mit.edu	37	5	40979879	40979879	+	Missense_Mutation	SNP	C	G	G			TCGA-FE-A3PD-01A-11D-A21Z-08	TCGA-FE-A3PD-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5bdca282-c671-48ff-b32b-2380996016c0	9ee50075-10f8-4945-8391-66c5e87d3333	g.chr5:40979879C>G	uc003jmh.2	+	17	2332	c.2218C>G	c.(2218-2220)CTG>GTG	p.L740V	C7_uc011cpn.1_RNA	NM_000587	NP_000578	P10643	CO7_HUMAN	complement component 7 precursor	740	Complement control factor I module 1.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis	extracellular region|membrane attack complex					0		Ovarian(839;0.0112)				GATACTGCCTCTGACAGTTTG	0.413000													28	35	---	---	---	---	0	0	0.760397	0	0
PLEKHG1	57480	broad.mit.edu	37	6	151153024	151153024	+	Missense_Mutation	SNP	G	C	C			TCGA-FE-A3PD-01A-11D-A21Z-08	TCGA-FE-A3PD-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5bdca282-c671-48ff-b32b-2380996016c0	9ee50075-10f8-4945-8391-66c5e87d3333	g.chr6:151153024G>C	uc003qny.1	+	16	3089	c.2777G>C	c.(2776-2778)GGC>GCC	p.G926A	PLEKHG1_uc011eel.1_Missense_Mutation_p.G966A|PLEKHG1_uc011eem.1_Missense_Mutation_p.G985A|PLEKHG1_uc003qnz.2_Missense_Mutation_p.G926A	NM_001029884	NP_001025055	Q9ULL1	PKHG1_HUMAN	pleckstrin homology domain containing, family G	926					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(37;0.0923)	OV - Ovarian serous cystadenocarcinoma(155;6.69e-13)		TCTAAAGAAGGCTCCTTTATG	0.572000													129	213	---	---	---	---	0	0	0.870114	0	0
ZNF479	90827	broad.mit.edu	37	7	57187809	57187809	+	Missense_Mutation	SNP	T	G	G			TCGA-FE-A3PD-01A-11D-A21Z-08	TCGA-FE-A3PD-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5bdca282-c671-48ff-b32b-2380996016c0	9ee50075-10f8-4945-8391-66c5e87d3333	g.chr7:57187809T>G	uc010kzo.2	-	5	1584	c.1313A>C	c.(1312-1314)AAA>ACA	p.K438T		NM_033273	NP_150376	Q96JC4	ZN479_HUMAN	zinc finger protein 479	438	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(1)	4			GBM - Glioblastoma multiforme(1;9.18e-12)			TTCTTCACATTTGTAGGGTCT	0.453000													3	69	---	---	---	---	0	0	0.115264	0	0
PMS2L11	441263	broad.mit.edu	37	7	76634956	76634956	+	RNA	SNP	G	C	C	rs115661670	by1000genomes	TCGA-FE-A3PD-01A-11D-A21Z-08	TCGA-FE-A3PD-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5bdca282-c671-48ff-b32b-2380996016c0	9ee50075-10f8-4945-8391-66c5e87d3333	g.chr7:76634956G>C	uc003ufw.3	+	6		c.959G>C			PMS2L11_uc011kgn.1_RNA	NR_023383				Homo sapiens cDNA FLJ59034 complete cds, moderately similar to Protein deltex-2.												0						GACGCTGCCCGTGTCTCCGGA	0.692000													3	16	---	---	---	---	0	0	0.150653	0	0
AKAP9	10142	broad.mit.edu	37	7	91730275	91730275	+	Missense_Mutation	SNP	A	G	G			TCGA-FE-A3PD-01A-11D-A21Z-08	TCGA-FE-A3PD-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5bdca282-c671-48ff-b32b-2380996016c0	9ee50075-10f8-4945-8391-66c5e87d3333	g.chr7:91730275A>G	uc003ulg.2	+	45	11227	c.11002A>G	c.(11002-11004)AGG>GGG	p.R3668G	AKAP9_uc003ulf.2_Missense_Mutation_p.R3660G|AKAP9_uc003uli.2_Missense_Mutation_p.R3291G|AKAP9_uc003ulj.2_Missense_Mutation_p.R1438G|AKAP9_uc003ull.2_Missense_Mutation_p.R564G	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	3672	Potential.				G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			ATCTTTGAAAAGGGCAGAGGC	0.393000			T	BRAF	papillary thyroid								3	121	---	---	---	---	0	0	0.115264	0	0
ATG9B	285973	broad.mit.edu	37	7	150714349	150714349	+	Missense_Mutation	SNP	G	A	A			TCGA-FE-A3PD-01A-11D-A21Z-08	TCGA-FE-A3PD-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5bdca282-c671-48ff-b32b-2380996016c0	9ee50075-10f8-4945-8391-66c5e87d3333	g.chr7:150714349G>A	uc011kvc.1	-	9	2139	c.2063C>T	c.(2062-2064)GCG>GTG	p.A688V	ATG9B_uc003wig.3_RNA	NM_173681	NP_775952	Q674R7	ATG9B_HUMAN	ATG9 autophagy related 9 homolog B	688	Cytoplasmic (By similarity).				autophagic vacuole assembly	autophagic vacuole membrane|cytoplasmic vesicle|integral to membrane				ovary(1)	1	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		AGTCTGTCCCGCCGAGAGCCA	0.592000													3	50	---	---	---	---	0	0	0.115264	0	0
Unknown	0	broad.mit.edu	37	16	880161	880176	+	IGR	DEL	GCTGGGCTGCTGGGCT	-	-	rs11275697		TCGA-FE-A3PD-01A-11D-A21Z-08	TCGA-FE-A3PD-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5bdca282-c671-48ff-b32b-2380996016c0	9ee50075-10f8-4945-8391-66c5e87d3333	g.chr16:880161_880176delGCTGGGCTGCTGGGCT								PRR25 (16301 upstream) : LMF1 (23459 downstream)																							GTGAGTGGACgctgggctgctgggctgctgggctgc	0.481													3	3	---	---	---	---					
C17orf85	55421	broad.mit.edu	37	17	3721809	3721811	+	In_Frame_Del	DEL	TCC	-	-			TCGA-FE-A3PD-01A-11D-A21Z-08	TCGA-FE-A3PD-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5bdca282-c671-48ff-b32b-2380996016c0	9ee50075-10f8-4945-8391-66c5e87d3333	g.chr17:3721809_3721811delTCC	uc010ckl.1	-	10	1079_1081	c.1056_1058delGGA	c.(1054-1059)GAGGAA>GAA	p.352_353EE>E	C17orf85_uc002fwr.2_In_Frame_Del_p.62_63EE>E|C17orf85_uc002fwq.2_In_Frame_Del_p.72_73EE>E	NM_001114118	NP_001107590	Q53F19	CQ085_HUMAN	ELG protein isoform a	352_353	Glu-rich.						nucleotide binding			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (3;0.0725)		ctcttcctcttcctcctcctcct	0.379													9	213	---	---	---	---					
CABLES1	91768	broad.mit.edu	37	18	20716015	20716023	+	In_Frame_Del	DEL	GGCGCCGGC	-	-			TCGA-FE-A3PD-01A-11D-A21Z-08	TCGA-FE-A3PD-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5bdca282-c671-48ff-b32b-2380996016c0	9ee50075-10f8-4945-8391-66c5e87d3333	g.chr18:20716015_20716023delGGCGCCGGC	uc002kuc.2	+	1	289_297	c.289_297delGGCGCCGGC	c.(289-297)GGCGCCGGCdel	p.GAG97del	CABLES1_uc002kub.2_Intron	NM_001100619	NP_001094089	Q8TDN4	CABL1_HUMAN	Cdk5 and Abl enzyme substrate 1 isoform 2	97_99	Ala-rich.|Interacts with TDRD7 (By similarity).				blood coagulation|cell cycle|cell division|regulation of cell cycle|regulation of cell division	cytosol|nucleus	cyclin-dependent protein kinase regulator activity|protein binding			breast(1)	1	all_cancers(21;0.000102)|all_epithelial(16;2.48e-06)|Lung NSC(20;0.00696)|all_lung(20;0.0197)|Colorectal(14;0.0202)|Ovarian(20;0.127)					ggccaagccgggcgccggcggcgcctgcg	0.593													5	1	---	---	---	---					
LILRB1	10859	broad.mit.edu	37	19	55146148	55146150	+	In_Frame_Del	DEL	CTC	-	-			TCGA-FE-A3PD-01A-11D-A21Z-08	TCGA-FE-A3PD-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5bdca282-c671-48ff-b32b-2380996016c0	9ee50075-10f8-4945-8391-66c5e87d3333	g.chr19:55146148_55146150delCTC	uc002qgj.2	+	11	1757_1759	c.1417_1419delCTC	c.(1417-1419)CTCdel	p.L479del	LILRB1_uc010erp.1_In_Frame_Del_p.L94del|LILRB1_uc002qgl.2_In_Frame_Del_p.L479del|LILRB1_uc002qgk.2_In_Frame_Del_p.L480del|LILRB1_uc002qgm.2_In_Frame_Del_p.L480del|LILRB1_uc010erq.2_In_Frame_Del_p.L463del|LILRB1_uc010err.2_RNA	NM_006669	NP_006660	Q8NHL6	LIRB1_HUMAN	leukocyte immunoglobulin-like receptor,	479	Helical; (Potential).				regulation of immune response|response to virus	integral to membrane|plasma membrane	protein phosphatase 1 binding|receptor activity	p.L479del(1)		large_intestine(1)|ovary(1)|skin(1)	3				GBM - Glioblastoma multiforme(193;0.0188)		CAtcctactgctcctcctcctcc	0.458										HNSCC(37;0.09)			7	119	---	---	---	---					
COL6A3	1293	broad.mit.edu	37	2	238322858	238322860	+	5'Flank	DEL	CTC	-	-	rs113989639		TCGA-FE-A3PD-01A-11D-A21Z-08	TCGA-FE-A3PD-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5bdca282-c671-48ff-b32b-2380996016c0	9ee50075-10f8-4945-8391-66c5e87d3333	g.chr2:238322858_238322860delCTC	uc002vwl.2	-						COL6A3_uc002vwo.2_5'Flank|COL6A3_uc010znj.1_5'Flank|COL6A3_uc002vwq.2_5'Flank|COL6A3_uc002vwr.2_5'Flank|COL6A3_uc010znk.1_5'Flank	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor						axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		CTtcctccagctcctcctcctcc	0.384													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	20	19738824	19738828	+	IGR	DEL	CTCCC	-	-			TCGA-FE-A3PD-01A-11D-A21Z-08	TCGA-FE-A3PD-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5bdca282-c671-48ff-b32b-2380996016c0	9ee50075-10f8-4945-8391-66c5e87d3333	g.chr20:19738824_19738828delCTCCC								SLC24A3 (35284 upstream) : RIN2 (131382 downstream)																							ttcctctcctctcccctcccctccc	0.376													6	2	---	---	---	---					
Unknown	0	broad.mit.edu	37	21	9825838	9825839	+	IGR	INS	-	GCG	GCG	rs4127894		TCGA-FE-A3PD-01A-11D-A21Z-08	TCGA-FE-A3PD-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5bdca282-c671-48ff-b32b-2380996016c0	9ee50075-10f8-4945-8391-66c5e87d3333	g.chr21:9825838_9825839insGCG								None (None upstream) : None (None downstream)																							cggccgcgactgcggcggcggt	0.277													4	8	---	---	---	---					
MYH9	4627	broad.mit.edu	37	22	36696948	36696950	+	In_Frame_Del	DEL	CTC	-	-			TCGA-FE-A3PD-01A-11D-A21Z-08	TCGA-FE-A3PD-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5bdca282-c671-48ff-b32b-2380996016c0	9ee50075-10f8-4945-8391-66c5e87d3333	g.chr22:36696948_36696950delCTC	uc003apg.2	-	22	3016_3018	c.2785_2787delGAG	c.(2785-2787)GAGdel	p.E929del	MYH9_uc003aph.1_In_Frame_Del_p.E793del	NM_002473	NP_002464	P35579	MYH9_HUMAN	myosin, heavy polypeptide 9, non-muscle	929	Potential.				actin cytoskeleton reorganization|actin filament-based movement|angiogenesis|axon guidance|blood vessel endothelial cell migration|cytokinesis|integrin-mediated signaling pathway|leukocyte migration|membrane protein ectodomain proteolysis|monocyte differentiation|platelet formation|protein transport|regulation of cell shape	actomyosin contractile ring|cleavage furrow|cytosol|myosin complex|nucleus|ruffle|stress fiber|uropod	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity|protein anchor|protein homodimerization activity			breast(3)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)|pancreas(1)	11						GCTGGCAGCGCTCCTCCTCCTCC	0.665			T	ALK	ALCL		Deafness|autosomal dominant 17|Epstein syndrome|Fechtner syndrome|May-Hegglin anomaly|Sebastian syndrome		Hereditary_Macrothrombocytopenia_MYH9-associated				7	231	---	---	---	---					
Unknown	0	broad.mit.edu	37	3	23033132	23033133	+	IGR	INS	-	AA	AA	rs34093728		TCGA-FE-A3PD-01A-11D-A21Z-08	TCGA-FE-A3PD-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5bdca282-c671-48ff-b32b-2380996016c0	9ee50075-10f8-4945-8391-66c5e87d3333	g.chr3:23033132_23033133insAA								ZNF385D (619009 upstream) : UBE2E2 (211520 downstream)																							GAATCTGCTTTaaaaaaaaaaa	0.386													2	4	---	---	---	---					
SHOX2	6474	broad.mit.edu	37	3	157824075	157824077	+	5'Flank	DEL	GGA	-	-			TCGA-FE-A3PD-01A-11D-A21Z-08	TCGA-FE-A3PD-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5bdca282-c671-48ff-b32b-2380996016c0	9ee50075-10f8-4945-8391-66c5e87d3333	g.chr3:157824075_157824077delGGA	uc003fbr.2	-						SHOX2_uc003fbs.2_5'Flank|SHOX2_uc010hvw.2_5'Flank	NM_006884	NP_006875	O60902	SHOX2_HUMAN	short stature homeobox 2 isoform a						nervous system development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			Lung(72;0.00318)|LUSC - Lung squamous cell carcinoma(72;0.0043)			aagaggagagggaggaggaggag	0.236													2	4	---	---	---	---					
PROM1	8842	broad.mit.edu	37	4	15995680	15995680	+	Frame_Shift_Del	DEL	T	-	-			TCGA-FE-A3PD-01A-11D-A21Z-08	TCGA-FE-A3PD-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5bdca282-c671-48ff-b32b-2380996016c0	9ee50075-10f8-4945-8391-66c5e87d3333	g.chr4:15995680delT	uc003goo.2	-	15	1909	c.1697delA	c.(1696-1698)AATfs	p.N566fs	PROM1_uc003gor.2_Frame_Shift_Del_p.N566fs|PROM1_uc003gos.2_Frame_Shift_Del_p.N557fs|PROM1_uc003got.2_Frame_Shift_Del_p.N566fs|PROM1_uc003gou.2_Frame_Shift_Del_p.N557fs|PROM1_uc003gop.2_Frame_Shift_Del_p.N557fs|PROM1_uc003goq.3_Frame_Shift_Del_p.N557fs	NM_006017	NP_006008	O43490	PROM1_HUMAN	prominin 1 isoform 1	566	Extracellular (Potential).				camera-type eye photoreceptor cell differentiation|photoreceptor cell maintenance|retina layer formation	apical plasma membrane|cell surface|integral to plasma membrane|microvillus membrane|photoreceptor outer segment membrane|plasma membrane	beta-actinin binding|cadherin binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)|central_nervous_system(1)	7						AGTGCCTCTATTTTTTTTGCA	0.428													8	190	---	---	---	---					
LOC645323	645323	broad.mit.edu	37	5	87980814	87980816	+	5'Flank	DEL	GAG	-	-			TCGA-FE-A3PD-01A-11D-A21Z-08	TCGA-FE-A3PD-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5bdca282-c671-48ff-b32b-2380996016c0	9ee50075-10f8-4945-8391-66c5e87d3333	g.chr5:87980814_87980816delGAG	uc011cua.1	-						LOC645323_uc003kjh.3_5'Flank	NR_015436				Homo sapiens cDNA FLJ34037 fis, clone FCBBF2005439.												0						ggaggaggaagaggaggaggagg	0.409													4	5	---	---	---	---					
Unknown	0	broad.mit.edu	37	6	106620627	106620628	+	IGR	DEL	AG	-	-			TCGA-FE-A3PD-01A-11D-A21Z-08	TCGA-FE-A3PD-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5bdca282-c671-48ff-b32b-2380996016c0	9ee50075-10f8-4945-8391-66c5e87d3333	g.chr6:106620627_106620628delAG								PRDM1 (62813 upstream) : ATG5 (11726 downstream)																							GCagagagacagagagagagag	0.347													3	3	---	---	---	---					
Unknown	0	broad.mit.edu	37	7	1236439	1236440	+	IGR	INS	-	G	G			TCGA-FE-A3PD-01A-11D-A21Z-08	TCGA-FE-A3PD-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5bdca282-c671-48ff-b32b-2380996016c0	9ee50075-10f8-4945-8391-66c5e87d3333	g.chr7:1236439_1236440insG								ZFAND2A (36584 upstream) : UNCX (36214 downstream)																							gctgtgatgaagggggggtggg	0.267													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	9	69876385	69876386	+	IGR	INS	-	TCT	TCT			TCGA-FE-A3PD-01A-11D-A21Z-08	TCGA-FE-A3PD-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5bdca282-c671-48ff-b32b-2380996016c0	9ee50075-10f8-4945-8391-66c5e87d3333	g.chr9:69876385_69876386insTCT								LOC100133920 (211436 upstream) : FOXD4L5 (299323 downstream)																							TTCTTCTCTTCTCTTCTTGTTT	0.277													3	5	---	---	---	---					
MORC4	79710	broad.mit.edu	37	X	106186335	106186335	+	Frame_Shift_Del	DEL	A	-	-			TCGA-FE-A3PD-01A-11D-A21Z-08	TCGA-FE-A3PD-10A-01D-A21Z-08									Somatic	Phase_I	Capture				Illumina GAIIx	5bdca282-c671-48ff-b32b-2380996016c0	9ee50075-10f8-4945-8391-66c5e87d3333	g.chrX:106186335delA	uc004emu.3	-	15	2029	c.1786delT	c.(1786-1788)TACfs	p.Y596fs	MORC4_uc004emp.3_Intron|MORC4_uc004emv.3_Frame_Shift_Del_p.Y596fs|MORC4_uc004emw.3_Frame_Shift_Del_p.Y344fs	NM_024657	NP_078933	Q8TE76	MORC4_HUMAN	zinc finger, CW type with coiled-coil domain 2	596							ATP binding|zinc ion binding			ovary(1)	1						ACCCTCCTGTAAGGAGCAGGC	0.463													18	208	---	---	---	---					
