Hugo_Symbol	Entrez_Gene_Id	Center	NCBI_Build	Chromosome	Start_position	End_position	Strand	Variant_Classification	Variant_Type	Reference_Allele	Tumor_Seq_Allele1	Tumor_Seq_Allele2	dbSNP_RS	dbSNP_Val_Status	Tumor_Sample_Barcode	Matched_Norm_Sample_Barcode	Match_Norm_Seq_Allele1	Match_Norm_Seq_Allele2	Tumor_Validation_Allele1	Tumor_Validation_Allele2	Match_Norm_Validation_Allele1	Match_Norm_Validation_Allele2	Verification_Status	Validation_Status	Mutation_Status	Sequencing_Phase	Sequence_Source	Validation_Method	Score	BAM_file	Sequencer	Tumor_Sample_UUID	Matched_Norm_Sample_UUID	Genome_Change	Annotation_Transcript	Transcript_Strand	Transcript_Exon	Transcript_Position	cDNA_Change	Codon_Change	Protein_Change	Other_Transcripts	Refseq_mRNA_Id	Refseq_prot_Id	SwissProt_acc_Id	SwissProt_entry_Id	Description	UniProt_AApos	UniProt_Region	UniProt_Site	UniProt_Natural_Variations	UniProt_Experimental_Info	GO_Biological_Process	GO_Cellular_Component	GO_Molecular_Function	COSMIC_overlapping_mutations	COSMIC_fusion_genes	COSMIC_tissue_types_affected	COSMIC_total_alterations_in_gene	Tumorscape_Amplification_Peaks	Tumorscape_Deletion_Peaks	TCGAscape_Amplification_Peaks	TCGAscape_Deletion_Peaks	DrugBank	ref_context	gc_content	CCLE_ONCOMAP_overlapping_mutations	CCLE_ONCOMAP_total_mutations_in_gene	CGC_Mutation_Type	CGC_Translocation_Partner	CGC_Tumor_Types_Somatic	CGC_Tumor_Types_Germline	CGC_Other_Diseases	DNARepairGenes_Role	FamilialCancerDatabase_Syndromes	MUTSIG_Published_Results	OREGANNO_ID	OREGANNO_Values	t_alt_count	t_ref_count	validation_status	validation_method	validation_tumor_sample	validation_alt_allele	filter
MST1P2	11209	broad.mit.edu	37	1	16975947	16975947	+	RNA	SNP	C	T	T			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr1:16975947C>T	uc010och.1	+	11		c.1969C>T			MST1P2_uc001azl.3_RNA|MST1P2_uc009vox.2_RNA|MST1P2_uc001azm.3_RNA	NR_027504				Homo sapiens cDNA FLJ43241 fis, clone HEART1000010, weakly  similar to Hepatocyte growth factor-like protein precursor.												0						AGAGCCAGGCCTACAGCGGGT	0.577													3	92	---	---	---	---	PASS
SRRM1	10250	broad.mit.edu	37	1	24998071	24998071	+	Silent	SNP	G	A	A			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr1:24998071G>A	uc001bjm.2	+	16	2819	c.2595G>A	c.(2593-2595)GCG>GCA	p.A865A	SRRM1_uc010oel.1_Silent_p.A877A|SRRM1_uc009vri.1_Silent_p.A794A	NM_005839	NP_005830	Q8IYB3	SRRM1_HUMAN	serine/arginine repetitive matrix 1	865	Ala-rich.				mRNA 3'-end processing|mRNA export from nucleus|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|cytosol|nuclear matrix|nuclear speck	DNA binding|protein binding|RNA binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3		Colorectal(325;3.46e-05)|Renal(390;0.0007)|Lung NSC(340;0.000946)|all_lung(284;0.00125)|Ovarian(437;0.00764)|Breast(348;0.0148)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.19)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0422)|OV - Ovarian serous cystadenocarcinoma(117;1.01e-24)|Colorectal(126;5.95e-08)|COAD - Colon adenocarcinoma(152;3.24e-06)|GBM - Glioblastoma multiforme(114;0.000148)|BRCA - Breast invasive adenocarcinoma(304;0.00177)|KIRC - Kidney renal clear cell carcinoma(1967;0.00348)|STAD - Stomach adenocarcinoma(196;0.00483)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.138)		CAGTGGCAGCGCCAGAGCCGA	0.299													7	60	---	---	---	---	PASS
YBX1	4904	broad.mit.edu	37	1	43162410	43162410	+	Missense_Mutation	SNP	G	C	C			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr1:43162410G>C	uc001chs.2	+	5	623	c.452G>C	c.(451-453)CGT>CCT	p.R151P		NM_004559	NP_004550	P67809	YBOX1_HUMAN	nuclease sensitive element binding protein 1	151					CRD-mediated mRNA stabilization|negative regulation of transcription, DNA-dependent|nuclear mRNA splicing, via spliceosome|positive regulation of cell division|transcription from RNA polymerase II promoter	CRD-mediated mRNA stability complex|extracellular region|histone pre-mRNA 3'end processing complex|nucleoplasm|stress granule|U12-type spliceosomal complex	double-stranded DNA binding|protein binding|RNA binding|sequence-specific DNA binding transcription factor activity|single-stranded DNA binding			ovary(4)|upper_aerodigestive_tract(1)	5	Ovarian(52;0.00744)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				TATCCACGTCGTAGGGGTCCT	0.517													3	105	---	---	---	---	PASS
LCE1F	353137	broad.mit.edu	37	1	152748962	152748962	+	Missense_Mutation	SNP	C	G	G	rs116630978	by1000genomes	TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr1:152748962C>G	uc010pdv.1	+	1	115	c.115C>G	c.(115-117)CCT>GCT	p.P39A		NM_178354	NP_848131	Q5T754	LCE1F_HUMAN	late cornified envelope 1F	39	Pro-rich.				keratinization						0	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			taagtgccctccTGTCTCTTC	0.413													14	84	---	---	---	---	PASS
LCE1F	353137	broad.mit.edu	37	1	152748963	152748963	+	Missense_Mutation	SNP	C	T	T			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr1:152748963C>T	uc010pdv.1	+	1	116	c.116C>T	c.(115-117)CCT>CTT	p.P39L		NM_178354	NP_848131	Q5T754	LCE1F_HUMAN	late cornified envelope 1F	39	Pro-rich.				keratinization						0	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			aagtgccctccTGTCTCTTCC	0.408													13	84	---	---	---	---	PASS
ASPM	259266	broad.mit.edu	37	1	197073334	197073334	+	Missense_Mutation	SNP	T	C	C			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr1:197073334T>C	uc001gtu.2	-	18	5304	c.5047A>G	c.(5047-5049)ATA>GTA	p.I1683V	ASPM_uc001gtv.2_Intron|ASPM_uc001gtw.3_Intron	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	1683	IQ 5.				mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						TGCAATTTTATTGTAGCATTT	0.303													4	125	---	---	---	---	PASS
FMN2	56776	broad.mit.edu	37	1	240371469	240371469	+	Silent	SNP	C	T	T			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr1:240371469C>T	uc010pyd.1	+	5	3582	c.3357C>T	c.(3355-3357)CCC>CCT	p.P1119P	FMN2_uc010pye.1_Silent_p.P1123P	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	1119	Pro-rich.|FH1.				actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			CGGGCATACCCCCTCCTCCCC	0.716													2	5	---	---	---	---	PASS
ZNF695	57116	broad.mit.edu	37	1	247151557	247151557	+	Missense_Mutation	SNP	A	G	G	rs2642992	by1000genomes	TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr1:247151557A>G	uc009xgu.2	-	4	405	c.260T>C	c.(259-261)GTT>GCT	p.V87A	ZNF695_uc001ica.2_RNA|ZNF695_uc001icb.1_RNA|ZNF695_uc009xgt.1_RNA|ZNF695_uc001ibx.2_Missense_Mutation_p.V87A|ZNF695_uc001iby.2_Intron|ZNF695_uc001icc.2_Missense_Mutation_p.V75A	NM_020394	NP_065127	Q8IW36	ZN695_HUMAN	zinc finger protein SBZF3	87	KRAB.				regulation of transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding				0	all_cancers(71;4.01e-05)|all_epithelial(71;6.72e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0458)|Lung NSC(105;0.0518)	all_cancers(173;0.0266)	OV - Ovarian serous cystadenocarcinoma(106;0.00271)			AGAAGACAAAACTGGAAAAAA	0.328													4	96	---	---	---	---	PASS
CCDC142	84865	broad.mit.edu	37	2	74708964	74708964	+	Missense_Mutation	SNP	A	T	T			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr2:74708964A>T	uc002slr.2	-	1	1394	c.1001T>A	c.(1000-1002)CTG>CAG	p.L334Q	TTC31_uc002sls.2_5'Flank|TTC31_uc010yrv.1_5'Flank|TTC31_uc002slt.2_5'Flank|TTC31_uc002slu.2_5'Flank|CCDC142_uc002slo.2_RNA|CCDC142_uc002slq.2_Missense_Mutation_p.L334Q|CCDC142_uc002slp.2_Missense_Mutation_p.L334Q	NM_032779	NP_116168	Q17RM4	CC142_HUMAN	coiled-coil domain containing 142	334										central_nervous_system(1)	1						TGCCTGACTCAGCTGTTGCGC	0.612													8	111	---	---	---	---	PASS
AFF3	3899	broad.mit.edu	37	2	100199303	100199303	+	Missense_Mutation	SNP	G	C	C			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr2:100199303G>C	uc002tag.2	-	16	2986	c.2750C>G	c.(2749-2751)CCT>CGT	p.P917R	AFF3_uc002taf.2_Missense_Mutation_p.P942R|AFF3_uc010fiq.1_Missense_Mutation_p.P917R|AFF3_uc010yvr.1_Missense_Mutation_p.P1070R|AFF3_uc002tah.1_Missense_Mutation_p.P942R	NM_002285	NP_002276	P51826	AFF3_HUMAN	AF4/FMR2 family, member 3 isoform 1	917					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)|pancreas(1)|lung(1)|kidney(1)|skin(1)	6						GTCGGCCTTAGGCTTTTTGCT	0.478													8	158	---	---	---	---	PASS
CPS1	1373	broad.mit.edu	37	2	211454904	211454904	+	Silent	SNP	G	A	A			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr2:211454904G>A	uc002vee.3	+	8	918	c.786G>A	c.(784-786)GCG>GCA	p.A262A	CPS1_uc010fur.2_Silent_p.A268A	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	262	Glutamine amidotransferase type-1.				carbamoyl phosphate biosynthetic process|citrulline biosynthetic process|glutamine metabolic process|glycogen catabolic process|nitric oxide metabolic process|positive regulation of vasodilation|response to lipopolysaccharide|triglyceride catabolic process|urea cycle	mitochondrial nucleoid	ATP binding|carbamoyl-phosphate synthase (ammonia) activity			ovary(8)|central_nervous_system(3)|breast(1)|skin(1)	13				Epithelial(149;0.00697)|Lung(261;0.0521)|LUSC - Lung squamous cell carcinoma(261;0.0544)|all cancers(144;0.0843)		TTTTGATCGCGGGAGGACCGG	0.483													24	534	---	---	---	---	PASS
SLC9A10	285335	broad.mit.edu	37	3	112005630	112005630	+	Silent	SNP	T	C	C			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr3:112005630T>C	uc003dyu.2	-	2	231	c.9A>G	c.(7-9)GGA>GGG	p.G3G	SLC9A10_uc011bhu.1_5'UTR|SLC9A10_uc010hqc.2_Silent_p.G3G	NM_183061	NP_898884	Q4G0N8	S9A10_HUMAN	sperm-specific sodium proton exchanger	3					cell differentiation|multicellular organismal development|sodium ion transport|spermatogenesis	cilium|flagellar membrane|integral to membrane	solute:hydrogen antiporter activity			ovary(3)|breast(2)	5						CCTTAAATATTCCAGCCATGT	0.353													8	38	---	---	---	---	PASS
SH3BP2	6452	broad.mit.edu	37	4	2831383	2831383	+	Silent	SNP	T	G	G	rs231399	byFrequency	TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr4:2831383T>G	uc003gfi.3	+	8	870	c.750T>G	c.(748-750)GCT>GCG	p.A250A	SH3BP2_uc011bvp.1_Silent_p.A278A|SH3BP2_uc003gfj.3_Silent_p.A307A|SH3BP2_uc003gfk.3_Silent_p.A250A|SH3BP2_uc003gfl.3_Silent_p.A183A|SH3BP2_uc003gfm.3_Silent_p.A225A	NM_001122681	NP_001116153	P78314	3BP2_HUMAN	SH3-domain binding protein 2 isoform a	250					signal transduction		SH3 domain binding|SH3/SH2 adaptor activity			central_nervous_system(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.164)		TTGGCCTGGCTGCTGAGGACT	0.677									Cherubism				3	66	---	---	---	---	PASS
RAPGEF2	9693	broad.mit.edu	37	4	160260299	160260299	+	Missense_Mutation	SNP	C	T	T			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr4:160260299C>T	uc003iqg.3	+	13	2154	c.1844C>T	c.(1843-1845)GCT>GTT	p.A615V		NM_014247	NP_055062	Q9Y4G8	RPGF2_HUMAN	Rap guanine nucleotide exchange factor 2	615	Ras-associating.				cAMP-mediated signaling|MAPKKK cascade|small GTPase mediated signal transduction	integral to plasma membrane|intracellular	calcium ion binding|diacylglycerol binding|Rap GTPase activator activity|Rap guanyl-nucleotide exchange factor activity|signal transducer activity			lung(2)|upper_aerodigestive_tract(1)|skin(1)	4	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.0817)		GTTTTTAAGGCTGATCAGCAA	0.423													6	355	---	---	---	---	PASS
FRG1	2483	broad.mit.edu	37	4	190878569	190878569	+	Missense_Mutation	SNP	T	C	C			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr4:190878569T>C	uc003izs.2	+	6	640	c.449T>C	c.(448-450)TTG>TCG	p.L150S		NM_004477	NP_004468	Q14331	FRG1_HUMAN	FSHD region gene 1	150					rRNA processing	Cajal body|catalytic step 2 spliceosome|nuclear speck|nucleolus					0		all_cancers(14;1.44e-58)|all_epithelial(14;6.32e-41)|all_lung(41;8.13e-17)|Lung NSC(41;2.13e-16)|Breast(6;2.54e-06)|Melanoma(20;0.000263)|Hepatocellular(41;0.00213)|Renal(120;0.0183)|all_hematologic(60;0.0358)|Prostate(90;0.0421)|all_neural(102;0.147)		all cancers(3;1.73e-30)|Epithelial(3;5.85e-30)|OV - Ovarian serous cystadenocarcinoma(60;5.56e-15)|BRCA - Breast invasive adenocarcinoma(30;9.14e-06)|Lung(3;3.54e-05)|STAD - Stomach adenocarcinoma(60;8.83e-05)|LUSC - Lung squamous cell carcinoma(40;0.000198)|GBM - Glioblastoma multiforme(59;0.00892)|READ - Rectum adenocarcinoma(43;0.161)		ATGGCTTTGTTGGCCTCAAAT	0.358													3	55	---	---	---	---	PASS
PSD2	84249	broad.mit.edu	37	5	139201586	139201586	+	Silent	SNP	G	A	A			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr5:139201586G>A	uc003leu.1	+	6	1411	c.1206G>A	c.(1204-1206)TCG>TCA	p.S402S		NM_032289	NP_115665	Q9BQI7	PSD2_HUMAN	pleckstrin and Sec7 domain containing 2	402	SEC7.				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)			ACAGCACTTCGGAAGGTATGG	0.637													9	82	---	---	---	---	PASS
PCDHA2	56146	broad.mit.edu	37	5	140176553	140176553	+	Silent	SNP	G	A	A			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr5:140176553G>A	uc003lhd.2	+	1	2110	c.2004G>A	c.(2002-2004)TCG>TCA	p.S668S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhc.1_Silent_p.S668S|PCDHA2_uc011czy.1_Silent_p.S668S	NM_018905	NP_061728	Q9Y5H9	PCDA2_HUMAN	protocadherin alpha 2 isoform 1 precursor	668	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGTTAGTGTCGTTGGTGGAAA	0.652													11	126	---	---	---	---	PASS
BAT2	7916	broad.mit.edu	37	6	31595605	31595605	+	Silent	SNP	C	A	A			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr6:31595605C>A	uc003nvb.3	+	12	1603	c.1354C>A	c.(1354-1356)CGA>AGA	p.R452R	BAT2_uc011dnv.1_RNA|BAT2_uc003nvc.3_Silent_p.R452R	NM_080686	NP_542417	P48634	PRC2A_HUMAN	HLA-B associated transcript-2	452	4 X 57 AA type A repeats.|2 X type B repeats.					cytoplasm|nucleus	protein binding				0						ATGGCGGCAGCGACGAAAGCA	0.642													3	64	---	---	---	---	PASS
PBX2	5089	broad.mit.edu	37	6	32157563	32157563	+	Missense_Mutation	SNP	C	A	A			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr6:32157563C>A	uc003oav.1	-	1	401	c.130G>T	c.(130-132)GTC>TTC	p.V44F	PBX2_uc003oaw.2_Missense_Mutation_p.V44F	NM_002586	NP_002577	P40425	PBX2_HUMAN	pre-B-cell leukemia homeobox 2	44							transcription factor binding			ovary(1)	1						CCTCCCGGGACCCCCCCGCTA	0.607													3	38	---	---	---	---	PASS
RSPH4A	345895	broad.mit.edu	37	6	116948990	116948990	+	Missense_Mutation	SNP	C	T	T			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr6:116948990C>T	uc003pxe.2	+	3	1265	c.1120C>T	c.(1120-1122)CGT>TGT	p.R374C	RSPH4A_uc010kee.2_Missense_Mutation_p.R374C	NM_001010892	NP_001010892	Q5TD94	RSH4A_HUMAN	radial spoke head 4 homolog A isoform 1	374	Glu-rich.				cilium axoneme assembly|cilium movement	cytoplasm|cytoskeleton|radial spoke					0						AGTGGAATTTCGTgaggggga	0.239									Kartagener_syndrome				18	100	---	---	---	---	PASS
SYNE1	23345	broad.mit.edu	37	6	152639275	152639275	+	Missense_Mutation	SNP	T	C	C			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr6:152639275T>C	uc010kiw.2	-	86	17115	c.16513A>G	c.(16513-16515)ACT>GCT	p.T5505A	SYNE1_uc010kiv.2_Missense_Mutation_p.T29A|SYNE1_uc003qos.3_Missense_Mutation_p.T29A|SYNE1_uc003qot.3_Missense_Mutation_p.T5434A|SYNE1_uc003qou.3_Missense_Mutation_p.T5505A|SYNE1_uc010kiz.2_Missense_Mutation_p.T1260A	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	5505	Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		TGAAGTTCAGTCAGTTTTCCT	0.448										HNSCC(10;0.0054)			9	188	---	---	---	---	PASS
CARD11	84433	broad.mit.edu	37	7	2946346	2946346	+	Missense_Mutation	SNP	G	T	T			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr7:2946346G>T	uc003smv.2	-	25	3795	c.3391C>A	c.(3391-3393)CTG>ATG	p.L1131M		NM_032415	NP_115791	Q9BXL7	CAR11_HUMAN	caspase recruitment domain family, member 11	1131	Guanylate kinase-like.				positive regulation of cytokine production|positive regulation of NF-kappaB transcription factor activity|regulation of apoptosis|T cell costimulation|T cell receptor signaling pathway	cytosol|membrane raft|plasma membrane	CARD domain binding|guanylate kinase activity			haematopoietic_and_lymphoid_tissue(43)|ovary(2)|kidney(2)|skin(2)|central_nervous_system(1)	50		Ovarian(82;0.0115)		OV - Ovarian serous cystadenocarcinoma(56;8.44e-14)		ACGCGGAGCAGCTCCTCTACG	0.657			Mis		DLBCL								7	102	---	---	---	---	PASS
POM121	9883	broad.mit.edu	37	7	72413243	72413243	+	Missense_Mutation	SNP	A	C	C			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr7:72413243A>C	uc003twk.2	+	11	2711	c.2711A>C	c.(2710-2712)CAC>CCC	p.H904P	POM121_uc003twj.2_Missense_Mutation_p.H639P|POM121_uc010lam.1_Missense_Mutation_p.H639P	NM_172020	NP_742017	Q96HA1	P121A_HUMAN	nuclear pore membrane protein 121	904	Thr-rich.|Pore side (Potential).			H -> P (in Ref. 3; BAB14097).	carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	endoplasmic reticulum membrane|nuclear membrane|nuclear pore					0		Lung NSC(55;0.163)				CAGTCCCTGCACACTGCCGTG	0.647													4	127	---	---	---	---	PASS
KRBA1	84626	broad.mit.edu	37	7	149431015	149431015	+	Missense_Mutation	SNP	C	G	G			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr7:149431015C>G	uc003wfz.2	+	18	3371	c.2972C>G	c.(2971-2973)GCA>GGA	p.A991G	KRBA1_uc010lpj.2_RNA|KRBA1_uc003wga.2_RNA|KRBA1_uc003wgb.2_Missense_Mutation_p.A598G	NM_032534	NP_115923	A5PL33	KRBA1_HUMAN	KRAB A domain containing 1	991	Pro-rich.									ovary(1)|central_nervous_system(1)	2	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			TCAGGAGTGGCACCAGACGGG	0.667													2	10	---	---	---	---	PASS
RIPK2	8767	broad.mit.edu	37	8	90801576	90801576	+	Missense_Mutation	SNP	A	G	G			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr8:90801576A>G	uc003yee.2	+	10	1465	c.1151A>G	c.(1150-1152)AAG>AGG	p.K384R	RIPK2_uc003yef.2_Missense_Mutation_p.K247R	NM_003821	NP_003812	O43353	RIPK2_HUMAN	receptor-interacting serine-threonine kinase 2	384					activation of MAPK activity|anti-apoptosis|apoptosis|inflammatory response|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of protein ubiquitination|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	ATP binding|CARD domain binding|LIM domain binding|protein homodimerization activity|protein serine/threonine kinase activity|signal transducer activity			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(11;0.0474)			TATTTTATGAAGCTGCATCAC	0.398													6	259	---	---	---	---	PASS
HSF1	3297	broad.mit.edu	37	8	145534873	145534873	+	Silent	SNP	C	T	T			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr8:145534873C>T	uc003zbt.3	+	5	672	c.502C>T	c.(502-504)CTG>TTG	p.L168L	HSF1_uc003zbu.3_RNA	NM_005526	NP_005517	Q00613	HSF1_HUMAN	heat shock transcription factor 1	168	Hydrophobic repeat HR-A/B.					cytoplasm	protein binding|sequence-specific DNA binding transcription factor activity				0	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.94e-40)|Epithelial(56;1.12e-39)|all cancers(56;9.11e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0547)|Colorectal(110;0.055)			GAATGAGGCTCTGTGGCGGGA	0.667													3	3	---	---	---	---	PASS
FAM75A3	727830	broad.mit.edu	37	9	40702847	40702847	+	Silent	SNP	C	A	A			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr9:40702847C>A	uc010mmj.2	+	4	533	c.504C>A	c.(502-504)ACC>ACA	p.T168T		NM_001083124	NP_001076593	Q5VYP0	F75A3_HUMAN	hypothetical protein LOC727830	168	Pro-rich.					integral to membrane				ovary(2)|skin(1)	3				GBM - Glioblastoma multiforme(29;0.02)|Lung(182;0.0681)		TGGCCTCCACCCCATCACCAG	0.597													17	374	---	---	---	---	PASS
SVEP1	79987	broad.mit.edu	37	9	113208250	113208250	+	Missense_Mutation	SNP	T	G	G	rs7863519	by1000genomes	TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr9:113208250T>G	uc010mtz.2	-	26	4667	c.4330A>C	c.(4330-4332)ATG>CTG	p.M1444L	SVEP1_uc010mua.1_Missense_Mutation_p.M1444L	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	1444	Pentaxin.				cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7						GATGGGAGCATGCCATCTAGC	0.438													3	115	---	---	---	---	PASS
LPAR1	1902	broad.mit.edu	37	9	113703743	113703743	+	Missense_Mutation	SNP	C	T	T			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr9:113703743C>T	uc004bfa.2	-	4	1006	c.751G>A	c.(751-753)GAT>AAT	p.D251N	LPAR1_uc011lwm.1_Missense_Mutation_p.D252N|LPAR1_uc004bfb.2_Missense_Mutation_p.D251N|LPAR1_uc004bfc.2_Missense_Mutation_p.D251N|LPAR1_uc011lwn.1_Missense_Mutation_p.D233N|LPAR1_uc011lwo.1_Missense_Mutation_p.D252N|LPAR1_uc010mub.2_Missense_Mutation_p.D251N	NM_057159	NP_476500	Q92633	LPAR1_HUMAN	lysophosphatidic acid receptor 1	251	Cytoplasmic (Potential).				positive regulation of I-kappaB kinase/NF-kappaB cascade	cell surface|integral to plasma membrane				ovary(2)	2						ATCATGGTATCCCGATTCCGC	0.443													24	98	---	---	---	---	PASS
UNC5B	219699	broad.mit.edu	37	10	73050857	73050857	+	Missense_Mutation	SNP	G	A	A			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr10:73050857G>A	uc001jro.2	+	9	1730	c.1285G>A	c.(1285-1287)GCA>ACA	p.A429T	UNC5B_uc001jrp.2_Missense_Mutation_p.A418T	NM_170744	NP_734465	Q8IZJ1	UNC5B_HUMAN	unc-5 homolog B precursor	429	Cytoplasmic (Potential).				apoptosis|axon guidance|regulation of apoptosis	integral to membrane				ovary(2)|lung(1)	3						CTTTAAGACGGCAAGGCCCAG	0.597													7	330	---	---	---	---	PASS
MBL1P	8512	broad.mit.edu	37	10	81666473	81666473	+	RNA	SNP	A	G	G			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr10:81666473A>G	uc001kbf.2	+	2		c.298A>G								Homo sapiens mannose-binding protein-A pseudogene (MBL1P1) mRNA sequence.												0						GAAGATGCCCAGAAGAGAAAT	0.438													5	94	---	---	---	---	PASS
OR9G4	283189	broad.mit.edu	37	11	56511197	56511197	+	Missense_Mutation	SNP	C	T	T			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr11:56511197C>T	uc010rjo.1	-	1	91	c.91G>A	c.(91-93)GGT>AGT	p.G31S		NM_001005284	NP_001005284	Q8NGQ1	OR9G4_HUMAN	olfactory receptor, family 9, subfamily G,	31	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3						GCTGAGAAACCCAACAAGATG	0.428													4	107	---	---	---	---	PASS
NCAPD3	23310	broad.mit.edu	37	11	134054637	134054637	+	Silent	SNP	C	T	T			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr11:134054637C>T	uc001qhd.1	-	19	2952	c.2346G>A	c.(2344-2346)AAG>AAA	p.K782K	NCAPD3_uc010scm.1_RNA|NCAPD3_uc009zda.1_RNA	NM_015261	NP_056076	P42695	CNDD3_HUMAN	non-SMC condensin II complex, subunit D3	782					cell division|mitotic chromosome condensation	nuclear centromeric heterochromatin|nuclear condensin complex	methylated histone residue binding			ovary(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	5	all_hematologic(175;0.127)	all_cancers(12;1.68e-21)|all_epithelial(12;5.86e-16)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000182)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;8.74e-10)|BRCA - Breast invasive adenocarcinoma(10;1e-08)|all cancers(11;1.46e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00345)|Lung(977;0.227)		TCAGCTTACACTTGACAGCAT	0.368													19	96	---	---	---	---	PASS
RPL13AP20	387841	broad.mit.edu	37	12	13028952	13028952	+	Missense_Mutation	SNP	T	C	C			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr12:13028952T>C	uc010sho.1	+	1	542	c.520T>C	c.(520-522)TTC>CTC	p.F174L		NR_003932				SubName: Full=Ribosomal protein L13a variant; Flags: Fragment;												0						GAAGAAACAGTTCATGAGGCT	0.512													2	12	---	---	---	---	PASS
ANKRD52	283373	broad.mit.edu	37	12	56639366	56639366	+	Missense_Mutation	SNP	A	C	C			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr12:56639366A>C	uc001skm.3	-	21	2289	c.2199T>G	c.(2197-2199)TGT>TGG	p.C733W		NM_173595	NP_775866	Q8NB46	ANR52_HUMAN	ankyrin repeat domain 52	733	ANK 21.						protein binding			ovary(2)	2						GGCAGTCCTCACAGCCAGTCA	0.592													8	35	---	---	---	---	PASS
LOC284232	284232	broad.mit.edu	37	13	19415778	19415778	+	RNA	SNP	C	A	A	rs2801692		TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr13:19415778C>A	uc010tcj.1	-	1		c.30332G>T				NR_027995				Homo sapiens ankyrin repeat domain 20 family, member A2 pseudogene (LOC284232), non-coding RNA.												0						TCAGCAGCAGCAGAAGATGTA	0.308													4	80	---	---	---	---	PASS
SIPA1L1	26037	broad.mit.edu	37	14	72054698	72054698	+	Missense_Mutation	SNP	C	T	T			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr14:72054698C>T	uc001xms.2	+	2	457	c.109C>T	c.(109-111)CGG>TGG	p.R37W	SIPA1L1_uc001xmt.2_Missense_Mutation_p.R37W|SIPA1L1_uc001xmu.2_Missense_Mutation_p.R37W|SIPA1L1_uc001xmv.2_Missense_Mutation_p.R37W	NM_015556	NP_056371	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like	37					actin cytoskeleton reorganization|activation of Rap GTPase activity|regulation of dendritic spine morphogenesis	cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane|synaptosome	GTPase activator activity			ovary(3)|breast(1)	4				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)		TTTCTACATGCGGCGCTTCCG	0.547													7	190	---	---	---	---	PASS
ADAM6	8755	broad.mit.edu	37	14	106866661	106866661	+	RNA	SNP	T	G	G			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr14:106866661T>G	uc010tyt.1	-	281		c.11570A>C								Parts of antibodies, mostly variable regions.												0						CCCTAGGCTGTACCAAGCCTC	0.582													4	169	---	---	---	---	PASS
VPS13C	54832	broad.mit.edu	37	15	62146723	62146723	+	Missense_Mutation	SNP	G	A	A			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr15:62146723G>A	uc002agz.2	-	85	11269	c.11195C>T	c.(11194-11196)ACG>ATG	p.T3732M	VPS13C_uc002aha.2_Missense_Mutation_p.T3689M	NM_020821	NP_065872	Q709C8	VP13C_HUMAN	vacuolar protein sorting 13C protein isoform 2A	3732					protein localization					ovary(2)	2						CTGCTGTCTCGTTGACTGTGC	0.408													10	453	---	---	---	---	PASS
ADAMTS7	11173	broad.mit.edu	37	15	79067063	79067063	+	Silent	SNP	A	G	G	rs117662146	byFrequency	TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr15:79067063A>G	uc002bej.3	-	12	1990	c.1779T>C	c.(1777-1779)CCT>CCC	p.P593P	ADAMTS7_uc010und.1_Intron|ADAMTS7_uc002bek.1_Silent_p.P593P	NM_014272	NP_055087	Q9UKP4	ATS7_HUMAN	ADAM metallopeptidase with thrombospondin type 1	593	TSP type-1 1.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0						GGCGGCCAGCAGGGCAGGCCT	0.642													9	57	---	---	---	---	PASS
ADAMTS7	11173	broad.mit.edu	37	15	79067065	79067065	+	Missense_Mutation	SNP	G	A	A			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr15:79067065G>A	uc002bej.3	-	12	1988	c.1777C>T	c.(1777-1779)CCT>TCT	p.P593S	ADAMTS7_uc010und.1_Intron|ADAMTS7_uc002bek.1_Missense_Mutation_p.P593S	NM_014272	NP_055087	Q9UKP4	ATS7_HUMAN	ADAM metallopeptidase with thrombospondin type 1	593	TSP type-1 1.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0						CGGCCAGCAGGGCAGGCCTGC	0.642													8	62	---	---	---	---	PASS
LASS3	204219	broad.mit.edu	37	15	101013167	101013167	+	Missense_Mutation	SNP	C	A	A			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr15:101013167C>A	uc002bvz.2	-	10	1202	c.700G>T	c.(700-702)GTG>TTG	p.V234L	LASS3_uc002bwa.2_Missense_Mutation_p.V245L|LASS3_uc002bwb.2_Missense_Mutation_p.V234L	NM_178842	NP_849164	Q8IU89	CERS3_HUMAN	LAG1 longevity assurance homolog 3	234	TLC.					endoplasmic reticulum membrane|integral to membrane|nuclear membrane	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sphingosine N-acyltransferase activity			ovary(2)|pancreas(1)|skin(1)	4	Lung NSC(78;0.0018)|all_lung(78;0.00278)|Melanoma(26;0.00852)		OV - Ovarian serous cystadenocarcinoma(32;0.000867)|LUSC - Lung squamous cell carcinoma(107;0.132)|Lung(145;0.161)			ACAATCATCACGAGGGTCCCA	0.438													18	149	---	---	---	---	PASS
C17orf97	400566	broad.mit.edu	37	17	263705	263705	+	Silent	SNP	C	T	T	rs149163238	byFrequency	TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr17:263705C>T	uc002frh.2	+	3	1117	c.1101C>T	c.(1099-1101)CCC>CCT	p.P367P	C17orf97_uc010vpz.1_RNA	NM_001013672	NP_001013694	Q6ZQX7	CQ097_HUMAN	hypothetical protein LOC400566	387	20 X 10 AA approximative tandem repeat of A-L-K-G-F-H-P-D-P-E.|19.									ovary(1)	1						GCTTCCACCCCGACCCCGAGG	0.672													3	58	---	---	---	---	PASS
ZBTB4	57659	broad.mit.edu	37	17	7366921	7366921	+	Silent	SNP	T	G	G			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr17:7366921T>G	uc002ghc.3	-	4	1630	c.1380A>C	c.(1378-1380)CCA>CCC	p.P460P	ZBTB4_uc002ghd.3_Silent_p.P460P	NM_001128833	NP_001122305	Q9P1Z0	ZBTB4_HUMAN	zinc finger and BTB domain containing 4	460	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)|central_nervous_system(1)	4		Colorectal(1115;3.46e-05)|Myeloproliferative disorder(207;0.0255)		COAD - Colon adenocarcinoma(228;4.1e-06)|READ - Rectum adenocarcinoma(115;0.0642)		CTGGGGCAGGTGGAGGCCCAG	0.667													7	26	---	---	---	---	PASS
ALDOC	230	broad.mit.edu	37	17	26901519	26901519	+	Missense_Mutation	SNP	G	T	T			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr17:26901519G>T	uc002hbp.2	-	6	762	c.617C>A	c.(616-618)ACA>AAA	p.T206K	PIGS_uc002hbo.2_5'Flank|PIGS_uc010wap.1_5'Flank|ALDOC_uc010cro.2_Intron	NM_005165	NP_005156	P09972	ALDOC_HUMAN	fructose-bisphosphate aldolase C	206					fructose 1,6-bisphosphate metabolic process|gluconeogenesis|glycolysis	cytosol	cytoskeletal protein binding|fructose-bisphosphate aldolase activity			ovary(1)	1	Lung NSC(42;0.00431)					CACCTTCTCTGTAACATACTG	0.517													12	314	---	---	---	---	PASS
BAHCC1	57597	broad.mit.edu	37	17	79409621	79409621	+	Missense_Mutation	SNP	G	A	A			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr17:79409621G>A	uc002kaf.2	+	3	1246	c.1246G>A	c.(1246-1248)GTG>ATG	p.V416M	BAHCC1_uc002kae.2_5'Flank	NM_001080519	NP_001073988	Q9P281	BAHC1_HUMAN	BAH domain and coiled-coil containing 1	416							DNA binding			ovary(1)	1	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0224)|OV - Ovarian serous cystadenocarcinoma(97;0.116)			GGCCTGTGCCGTGGCAGGGGA	0.701													6	11	---	---	---	---	PASS
FAM108A1	81926	broad.mit.edu	37	19	1881418	1881418	+	Missense_Mutation	SNP	C	T	T			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr19:1881418C>T	uc002lug.2	-	2	554	c.148G>A	c.(148-150)GCC>ACC	p.A50T	FAM108A1_uc002lud.2_Missense_Mutation_p.A50T|FAM108A1_uc002lue.2_Missense_Mutation_p.A50T|FAM108A1_uc002luf.2_Missense_Mutation_p.A50T	NM_001130111	NP_001123583	Q96GS6	F18A1_HUMAN	hypothetical protein LOC81926 isoform 2	50						extracellular region	hydrolase activity				0		Ovarian(11;0.000137)		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)		AAGGGGGCGGCCCCGGCCCCA	0.751													4	35	---	---	---	---	PASS
ZNF333	84449	broad.mit.edu	37	19	14829747	14829747	+	Silent	SNP	C	T	T			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr19:14829747C>T	uc002mzn.2	+	12	1742	c.1608C>T	c.(1606-1608)TGC>TGT	p.C536C	ZNF333_uc002mzk.3_Silent_p.C427C	NM_032433	NP_115809	Q96JL9	ZN333_HUMAN	zinc finger protein 333	536	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						TGTATGAGTGCGCGACTTGCG	0.527													13	76	---	---	---	---	PASS
ZNF181	339318	broad.mit.edu	37	19	35232875	35232875	+	Nonsense_Mutation	SNP	C	G	G			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr19:35232875C>G	uc002nvu.3	+	4	2052	c.1589C>G	c.(1588-1590)TCA>TGA	p.S530*	ZNF181_uc010xsa.1_Nonsense_Mutation_p.S529*|ZNF181_uc010xsb.1_Nonsense_Mutation_p.S529*|ZNF181_uc010xsc.1_Nonsense_Mutation_p.S465*	NM_001029997	NP_001025168	Q2M3W8	ZN181_HUMAN	zinc finger protein 181 isoform 1	530	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	all_lung(56;1.13e-07)|Lung NSC(56;1.81e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.138)			AGCAAAGGCTCAAATCTTACT	0.388													5	201	---	---	---	---	PASS
PRODH2	58510	broad.mit.edu	37	19	36297714	36297714	+	Missense_Mutation	SNP	C	T	T			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr19:36297714C>T	uc002obx.1	-	7	943	c.925G>A	c.(925-927)GTG>ATG	p.V309M		NM_021232	NP_067055	Q9UF12	PROD2_HUMAN	kidney and liver proline oxidase 1	309					glutamate biosynthetic process|proline catabolic process		proline dehydrogenase activity			ovary(2)	2	all_lung(56;2.87e-07)|Lung NSC(56;4.32e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			AGGAGCCGCACGTGCTGGGCC	0.682													4	17	---	---	---	---	PASS
ASXL1	171023	broad.mit.edu	37	20	31021261	31021261	+	Silent	SNP	C	T	T			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr20:31021261C>T	uc002wxs.2	+	11	1686	c.1260C>T	c.(1258-1260)GCC>GCT	p.A420A	ASXL1_uc010geb.2_Silent_p.A311A	NM_015338	NP_056153	Q8IXJ9	ASXL1_HUMAN	additional sex combs like 1 isoform 1	420					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	PR-DUB complex	metal ion binding|protein binding			haematopoietic_and_lymphoid_tissue(239)|large_intestine(6)|central_nervous_system(2)|ovary(1)	248						GAACCAGAGCCAGAAGGAATC	0.527			F|N|Mis		MDS|CMML								5	169	---	---	---	---	PASS
PHF20	51230	broad.mit.edu	37	20	34458923	34458923	+	Silent	SNP	A	G	G			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr20:34458923A>G	uc002xek.1	+	8	1080	c.969A>G	c.(967-969)TTA>TTG	p.L323L	PHF20_uc002xei.1_Silent_p.L323L|PHF20_uc010gfo.1_Silent_p.L323L|PHF20_uc002xej.1_Silent_p.L207L	NM_016436	NP_057520	Q9BVI0	PHF20_HUMAN	PHD finger protein 20	323					regulation of transcription, DNA-dependent|transcription, DNA-dependent	MLL1 complex	DNA binding|zinc ion binding			ovary(1)	1	Breast(12;0.00631)|all_lung(11;0.0145)					ACAAAGACTTATCGAGGAGAC	0.423													7	149	---	---	---	---	PASS
EYA2	2139	broad.mit.edu	37	20	45797830	45797830	+	Missense_Mutation	SNP	A	C	C	rs143610627		TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr20:45797830A>C	uc002xsm.2	+	11	1396	c.1022A>C	c.(1021-1023)AAT>ACT	p.N341T	EYA2_uc010ghp.2_Missense_Mutation_p.N341T|EYA2_uc002xsn.2_Missense_Mutation_p.N346T|EYA2_uc002xso.2_Missense_Mutation_p.N341T|EYA2_uc002xsp.2_Missense_Mutation_p.N341T|EYA2_uc002xsq.2_Missense_Mutation_p.N311T	NM_005244	NP_005235	O00167	EYA2_HUMAN	eyes absent 2 isoform a	341					DNA repair|histone dephosphorylation|mesodermal cell fate specification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	magnesium ion binding|protein binding|protein tyrosine phosphatase activity			ovary(1)	1		Myeloproliferative disorder(115;0.0241)				TCAGATGACAATGGCCAAGAT	0.378													43	196	---	---	---	---	PASS
SMARCB1	6598	broad.mit.edu	37	22	24143165	24143165	+	Missense_Mutation	SNP	C	A	A			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr22:24143165C>A	uc002zyb.2	+	4	604	c.397C>A	c.(397-399)CCC>ACC	p.P133T	SMARCB1_uc002zyg.2_Missense_Mutation_p.P133T|SMARCB1_uc011ajb.1_Missense_Mutation_p.P124T|SMARCB1_uc002zya.2_Missense_Mutation_p.P133T|SMARCB1_uc002zyc.2_Missense_Mutation_p.P124T|SMARCB1_uc002zyd.2_Missense_Mutation_p.P124T|SMARCB1_uc002zye.1_Intron|SMARCB1_uc002zyf.1_Intron|SMARCB1_uc010gue.1_Intron	NM_003073	NP_003064	Q12824	SNF5_HUMAN	SWI/SNF related, matrix associated, actin	133	DNA-binding (Potential).				cell cycle|chromatin remodeling|DNA integration|interspecies interaction between organisms|nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|retroviral genome replication|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleolus|nucleoplasm|SWI/SNF complex	p53 binding	p.?(5)|p.S129fs*36(1)		soft_tissue(193)|central_nervous_system(172)|haematopoietic_and_lymphoid_tissue(23)|meninges(5)|skin(5)|bone(4)|ovary(2)|endometrium(1)|lung(1)|pancreas(1)	407		Medulloblastoma(6;2.2e-09)|all_neural(6;2.73e-05)				CCAGTGGGTACCCACCCTGCC	0.557			D|N|F|S		malignant rhabdoid 	malignant rhabdoid			Rhabdoid_Predisposition_syndrome|Schwannomatosis				6	79	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	M	13326	13326	+	RNA	SNP	T	C	C			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chrM:13326T>C	uc004cox.3	+	1		c.990T>C			uc004coy.2_5'Flank|uc004coz.1_5'Flank					Homo sapiens NADH dehydrogenase subunit 5 (MTND5) mRNA, RNA 5, complete cds; mitochondrial gene for mitochondrial product.																		CTGCACATCTGTACCCACGCC	0.423													2	8	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	M	13680	13680	+	RNA	SNP	C	T	T			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chrM:13680C>T	uc004cox.3	+	1		c.1344C>T			uc004coy.2_5'Flank|uc004coz.1_5'Flank					Homo sapiens NADH dehydrogenase subunit 5 (MTND5) mRNA, RNA 5, complete cds; mitochondrial gene for mitochondrial product.																		GAAAATAACCCCACCCTACTA	0.488													5	6	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	M	14872	14872	+	Missense_Mutation	SNP	C	T	T			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chrM:14872C>T	uc004coy.2	+	1	112	c.37C>T	c.(37-39)CCT>TCT	p.P13S	uc004coz.1_5'Flank					Homo sapiens clone 35w unknown mRNA; mitochondrial.																		GCCTGCCTGATCCTCCAAATC	0.488													3	13	---	---	---	---	PASS
FASTKD2	22868	broad.mit.edu	37	2	207636634	207636634	+	Frame_Shift_Del	DEL	A	-	-			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr2:207636634delA	uc002vbu.2	+	5	1417	c.1007delA	c.(1006-1008)GAAfs	p.E336fs	FASTKD2_uc002vbv.2_Frame_Shift_Del_p.E336fs|FASTKD2_uc002vbx.2_Frame_Shift_Del_p.E336fs|FASTKD2_uc002vbw.1_Frame_Shift_Del_p.E336fs	NM_001136193	NP_001129665	Q9NYY8	FAKD2_HUMAN	FAST kinase domains 2	336					apoptosis|cellular respiration	mitochondrion	ATP binding|protein kinase activity			ovary(2)|skin(1)	3				LUSC - Lung squamous cell carcinoma(261;0.0718)|Epithelial(149;0.119)|Lung(261;0.138)		GCCTTGAGGGAATTAGACAGA	0.279													164	38	---	---	---	---	
FRG1	2483	broad.mit.edu	37	4	190873437	190873439	+	In_Frame_Del	DEL	AAG	-	-			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr4:190873437_190873439delAAG	uc003izs.2	+	3	445_447	c.254_256delAAG	c.(253-258)AAAGAA>AAA	p.E86del		NM_004477	NP_004468	Q14331	FRG1_HUMAN	FSHD region gene 1	86					rRNA processing	Cajal body|catalytic step 2 spliceosome|nuclear speck|nucleolus					0		all_cancers(14;1.44e-58)|all_epithelial(14;6.32e-41)|all_lung(41;8.13e-17)|Lung NSC(41;2.13e-16)|Breast(6;2.54e-06)|Melanoma(20;0.000263)|Hepatocellular(41;0.00213)|Renal(120;0.0183)|all_hematologic(60;0.0358)|Prostate(90;0.0421)|all_neural(102;0.147)		all cancers(3;1.73e-30)|Epithelial(3;5.85e-30)|OV - Ovarian serous cystadenocarcinoma(60;5.56e-15)|BRCA - Breast invasive adenocarcinoma(30;9.14e-06)|Lung(3;3.54e-05)|STAD - Stomach adenocarcinoma(60;8.83e-05)|LUSC - Lung squamous cell carcinoma(40;0.000198)|GBM - Glioblastoma multiforme(59;0.00892)|READ - Rectum adenocarcinoma(43;0.161)		GCTCCACACAAAGAAGGTTTGTG	0.414													236	7	---	---	---	---	
CSMD3	114788	broad.mit.edu	37	8	113275870	113275870	+	Frame_Shift_Del	DEL	A	-	-			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr8:113275870delA	uc003ynu.2	-	61	10019	c.9860delT	c.(9859-9861)TTAfs	p.L3287fs	CSMD3_uc003yns.2_Frame_Shift_Del_p.L2489fs|CSMD3_uc003ynt.2_Frame_Shift_Del_p.L3247fs|CSMD3_uc011lhx.1_Frame_Shift_Del_p.L3118fs	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3287	Sushi 25.|Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						ATACTTACGTAAGCACTGCGG	0.388										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			58	20	---	---	---	---	
MED17	9440	broad.mit.edu	37	11	93529637	93529637	+	Frame_Shift_Del	DEL	T	-	-			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr11:93529637delT	uc001pem.3	+	7	1349	c.1074delT	c.(1072-1074)GCTfs	p.A358fs		NM_004268	NP_004259	Q9NVC6	MED17_HUMAN	mediator complex subunit 17	358					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex|transcription factor complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(1)	1		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				AAAAATTTGCTACTGAGAAGC	0.358													214	45	---	---	---	---	
CUL5	8065	broad.mit.edu	37	11	107965657	107965658	+	Frame_Shift_Ins	INS	-	A	A			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr11:107965657_107965658insA	uc001pjv.2	+	15	2353_2354	c.1686_1687insA	c.(1684-1689)TACAAAfs	p.Y562fs	CUL5_uc001pju.2_RNA	NM_003478	NP_003469	Q93034	CUL5_HUMAN	Vasopressin-activated calcium-mobilizing	562_563					cell cycle arrest|cell proliferation|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|ubiquitin-dependent protein catabolic process|viral reproduction	cullin-RING ubiquitin ligase complex|cytosol	calcium channel activity|receptor activity|ubiquitin protein ligase binding			ovary(1)	1		all_cancers(61;7.09e-10)|all_epithelial(67;2.97e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|Melanoma(852;4.48e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;3.58e-05)|Epithelial(105;4.68e-05)|all cancers(92;0.00122)|OV - Ovarian serous cystadenocarcinoma(223;0.217)		AAGAATTCTACAAAAAAAATCA	0.351													133	9	---	---	---	---	
NEDD4L	23327	broad.mit.edu	37	18	55992284	55992286	+	In_Frame_Del	DEL	TCC	-	-			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr18:55992284_55992286delTCC	uc002lgy.2	+	9	844_846	c.570_572delTCC	c.(568-573)CTTCCT>CTT	p.P194del	NEDD4L_uc002lgz.2_In_Frame_Del_p.P194del|NEDD4L_uc002lgx.2_In_Frame_Del_p.P194del|NEDD4L_uc010xee.1_In_Frame_Del_p.P73del|NEDD4L_uc002lhc.2_In_Frame_Del_p.P186del|NEDD4L_uc002lhd.2_In_Frame_Del_p.P73del|NEDD4L_uc002lhb.2_In_Frame_Del_p.P73del|NEDD4L_uc002lhe.2_In_Frame_Del_p.P186del|NEDD4L_uc002lhf.2_In_Frame_Del_p.P73del|NEDD4L_uc002lhg.2_In_Frame_Del_p.P73del|NEDD4L_uc002lhh.2_In_Frame_Del_p.P73del|NEDD4L_uc010dpm.1_In_Frame_Del_p.P45del	NM_001144967	NP_001138439	Q96PU5	NED4L_HUMAN	neural precursor cell expressed, developmentally	194	WW 1.				cellular sodium ion homeostasis|excretion|interspecies interaction between organisms|positive regulation of endocytosis|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of protein catabolic process|response to metal ion|sodium ion transport|water homeostasis	cytoplasm	protein binding|sodium channel regulator activity|ubiquitin-protein ligase activity			lung(4)	4						AAGAGGAACTTCCTCCTCCTCCT	0.498													327	8	---	---	---	---	
NINL	22981	broad.mit.edu	37	20	25436392	25436392	+	Frame_Shift_Del	DEL	C	-	-			TCGA-EJ-5497-01A-02D-1576-08	TCGA-EJ-5497-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	924c20dd-38c1-48a7-83c6-fd1bdffda680	f6c01a65-6505-4d90-a07f-9c7285b4cf58	g.chr20:25436392delC	uc002wux.1	-	23	3948	c.3874delG	c.(3874-3876)GAAfs	p.E1292fs	NINL_uc010gdn.1_Frame_Shift_Del_p.E943fs|NINL_uc002wuw.1_Frame_Shift_Del_p.E83fs	NM_025176	NP_079452	Q9Y2I6	NINL_HUMAN	ninein-like	1292	Potential.				G2/M transition of mitotic cell cycle	cytosol|microtubule|microtubule organizing center	calcium ion binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5						ACCCGCTCTTCTGTGGCTTTC	0.378													428	11	---	---	---	---	
