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	isArtifactMode	oxoGCut
ATAD3C	219293	broad.mit.edu	37	1	1390875	1390875	+	Silent	SNP	C	T	T	rs1781147	by1000genomes	TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr1:1390875C>T	uc001aft.2	+	5	1409	c.414C>T	c.(412-414)GAC>GAT	p.D138D		NM_001039211	NP_001034300	Q5T2N8	ATD3C_HUMAN	ATPase family, AAA domain containing 3C	138							ATP binding|nucleoside-triphosphatase activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;1.79e-36)|OV - Ovarian serous cystadenocarcinoma(86;3.94e-22)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.00461)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.145)		GACCCCAGGACGTGCTGGAGG	0.677000													11	47					0	0	0	0
MIB2	142678	broad.mit.edu	37	1	1565047	1565047	+	Silent	SNP	C	T	T	rs146481628	by1000genomes	TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr1:1565047C>T	uc001agg.2	+	19	2893	c.2766C>T	c.(2764-2766)ATC>ATT	p.I922I	MIB2_uc001agh.2_Silent_p.I908I|MIB2_uc001agi.2_Silent_p.I918I|MIB2_uc001agj.2_Silent_p.I763I|MIB2_uc001agk.2_Silent_p.I857I|MIB2_uc001agm.2_Nonsense_Mutation_p.Q739*|MIB2_uc010nyq.1_Silent_p.I878I|MIB2_uc009vkh.2_Silent_p.I728I|MIB2_uc001agn.2_Silent_p.I554I|MIB2_uc001ago.2_Silent_p.I5I|MMP23B_uc001agp.2_5'Flank|MMP23B_uc001agq.2_5'Flank	NM_080875	NP_543151	Q96AX9	MIB2_HUMAN	mindbomb homolog 2	922	RING-type 1.				Notch signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade	endosome	actin binding|signal transducer activity|ubiquitin-protein ligase activity|zinc ion binding				0	all_cancers(77;0.000708)|all_epithelial(69;0.000943)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;6.04e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;5.26e-37)|OV - Ovarian serous cystadenocarcinoma(86;2.54e-23)|GBM - Glioblastoma multiforme(42;9e-08)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|STAD - Stomach adenocarcinoma(132;0.00644)|BRCA - Breast invasive adenocarcinoma(365;0.00786)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.199)		AGAAGTGCATCAGGTGCCAGG	0.701000													9	28					0	0	0	0
MEGF6	1953	broad.mit.edu	37	1	3418445	3418445	+	Silent	SNP	G	A	A			TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr1:3418445G>A	uc001akl.2	-	18	2456	c.2229C>T	c.(2227-2229)TCC>TCT	p.S743S	MEGF6_uc001akk.2_Silent_p.S638S	NM_001409	NP_001400	O75095	MEGF6_HUMAN	EGF-like-domain, multiple 3 precursor	743	EGF-like 12.					extracellular region	calcium ion binding			large_intestine(1)	1	all_cancers(77;0.00681)|all_epithelial(69;0.00301)|Ovarian(185;0.0634)|Lung NSC(156;0.0969)|all_lung(157;0.105)	all_epithelial(116;7.41e-22)|all_lung(118;8.3e-09)|Lung NSC(185;3.55e-06)|Breast(487;0.000659)|Renal(390;0.00121)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Lung SC(97;0.0262)|Ovarian(437;0.0308)|Medulloblastoma(700;0.211)		Epithelial(90;3.78e-37)|OV - Ovarian serous cystadenocarcinoma(86;6.86e-22)|GBM - Glioblastoma multiforme(42;1.96e-12)|Colorectal(212;6.15e-05)|COAD - Colon adenocarcinoma(227;0.000241)|Kidney(185;0.000448)|BRCA - Breast invasive adenocarcinoma(365;0.000779)|KIRC - Kidney renal clear cell carcinoma(229;0.00645)|STAD - Stomach adenocarcinoma(132;0.00669)|Lung(427;0.213)		CACAGGAGCAGGAGCTCGAGC	0.687000													13	63					0	0	0	0
HIST2H2BF	440689	broad.mit.edu	37	1	149398885	149398885	+	RNA	SNP	C	A	A			TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr1:149398885C>A	uc010pbi.1	-	1		c.345G>T						Q5QNW6	H2B2F_HUMAN	Homo sapiens histone cluster 2, H3, pseudogene 2, mRNA (cDNA clone IMAGE:5190019).						nucleosome assembly	nucleosome|nucleus	DNA binding				0	Breast(34;0.0124)|all_hematologic(923;0.127)					AGCAGGCGCACGGCCGTCTGG	0.652000													12	50					5.50884e-06	5.88444e-06	1	0
LOC728190	728190	broad.mit.edu	37	10	88975783	88975783	+	RNA	SNP	C	T	T	rs28533204	by1000genomes	TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr10:88975783C>T	uc009xtc.2	-	5		c.666G>A			LOC728190_uc009xtd.2_Intron					Homo sapiens cDNA FLJ34397 fis, clone HCHON2001110.												0						CGCGGTCAGGCTGAGGCTAGC	0.597000													4	14					0	0	0	0
PGM2L1	283209	broad.mit.edu	37	11	74058232	74058232	+	Silent	SNP	G	A	A			TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr11:74058232G>A	uc001ovb.1	-	7	1196	c.900C>T	c.(898-900)ACC>ACT	p.T300T		NM_173582	NP_775853	Q6PCE3	PGM2L_HUMAN	phosphoglucomutase 2-like 1	300					glucose 1-phosphate metabolic process	cytosol	glucose-1,6-bisphosphate synthase activity|phosphoglucomutase activity			ovary(1)	1	Breast(11;3.32e-06)					GACATTTAACGGTAGAAAAGT	0.338000													16	68					0	0	0	0
BUB1B	701	broad.mit.edu	37	15	40501931	40501931	+	Missense_Mutation	SNP	G	A	A			TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr15:40501931G>A	uc001zkx.3	+	17	2451	c.2239G>A	c.(2239-2241)GAC>AAC	p.D747N		NM_001211	NP_001202	O60566	BUB1B_HUMAN	budding uninhibited by benzimidazoles 1 beta	747					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|cell division|cell proliferation|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|phosphatidylinositol-mediated signaling|protein localization to kinetochore|spindle organization	anaphase-promoting complex|condensed chromosome outer kinetochore|cytosol|microtubule organizing center|perinuclear region of cytoplasm|spindle midzone	ATP binding|protein binding|protein serine/threonine kinase activity			stomach(2)|ovary(1)|kidney(1)	4		all_cancers(109;1.12e-18)|all_epithelial(112;1.61e-15)|Lung NSC(122;5.63e-11)|all_lung(180;1.4e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;1.83e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0556)		GTGTATAGAAGACAGACCAAT	0.423000			Mis|N|F|S			rhabdomyosarcoma			Mosaic_Variegated_Aneuploidy_Syndrome				24	95					0	0	0	0
IQGAP1	8826	broad.mit.edu	37	15	90984759	90984759	+	Missense_Mutation	SNP	T	A	A			TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr15:90984759T>A	uc002bpl.1	+	8	772	c.671T>A	c.(670-672)ATT>AAT	p.I224N		NM_003870	NP_003861	P46940	IQGA1_HUMAN	IQ motif containing GTPase activating protein 1	224					energy reserve metabolic process|regulation of insulin secretion|small GTPase mediated signal transduction	actin filament|cytoplasm|midbody|nucleus|plasma membrane	calmodulin binding|GTPase inhibitor activity|protein phosphatase binding|Ras GTPase activator activity			ovary(2)|lung(2)|central_nervous_system(2)|pancreas(1)|skin(1)	8	Melanoma(11;0.00551)|Lung NSC(78;0.0237)|all_lung(78;0.0488)		BRCA - Breast invasive adenocarcinoma(143;0.0745)|KIRC - Kidney renal clear cell carcinoma(17;0.138)|Kidney(142;0.194)			GTTATTGCTATTAATGAAGCT	0.353000													22	59					0	0	0	0
Unknown	0	broad.mit.edu	37	15	102312978	102312978	+	RNA	SNP	A	T	T	rs352720	by1000genomes	TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr15:102312978A>T	uc002ccq.3	+	1		c.11A>T			uc010utn.1_5'Flank|uc002ccs.1_5'Flank|uc010uto.1_5'Flank|uc002cct.1_5'Flank|uc002ccu.2_5'Flank|uc002ccv.1_5'Flank|uc002ccw.2_5'Flank|uc010utp.1_5'Flank|uc002ccx.2_5'Flank					DQ599787																		GCGGAGTTGAAAAATGCAACC	0.577000													6	19					0	0	0	0
MBTPS1	8720	broad.mit.edu	37	16	84129399	84129399	+	Missense_Mutation	SNP	C	T	T	rs138737600	byFrequency	TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr16:84129399C>T	uc002fhi.2	-	4	935	c.433G>A	c.(433-435)GTA>ATA	p.V145I		NM_003791	NP_003782	Q14703	MBTP1_HUMAN	membrane-bound transcription factor site-1	145					cholesterol metabolic process|proteolysis	endoplasmic reticulum lumen|endoplasmic reticulum membrane|Golgi membrane|integral to membrane	serine-type endopeptidase activity			ovary(2)	2						TTGCAGGGTACTGTGGGGTCA	0.557000													22	107					0	0	0	0
PHF23	79142	broad.mit.edu	37	17	7139304	7139304	+	Silent	SNP	G	A	A			TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr17:7139304G>A	uc002gfa.2	-	4	1169	c.942C>T	c.(940-942)GCC>GCT	p.A314A	DVL2_uc002gez.1_5'Flank|DVL2_uc010vtr.1_5'Flank|DVL2_uc010clz.1_5'Flank|PHF23_uc010vtt.1_Silent_p.A247A|PHF23_uc010cma.2_Silent_p.A184A	NM_024297	NP_077273	Q9BUL5	PHF23_HUMAN	PHD finger protein 23	314							zinc ion binding				0						CACTGGAGCTGGCATCTCCAT	0.587000													124	520					0	0	0	0
MEIS3P1	4213	broad.mit.edu	37	17	15690748	15690748	+	Nonsense_Mutation	SNP	C	G	G	rs143985665	by1000genomes	TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr17:15690748C>G	uc002gpc.2	+	1	585	c.564C>G	c.(562-564)TAC>TAG	p.Y188*		NR_002211				RecName: Full=Homeobox protein Meis3; AltName: Full=Meis1-related protein 2;												0						CACACCCGTACCCCTCGGAGG	0.582000													28	131					0	0	0	0
Unknown	0	broad.mit.edu	37	17	18333915	18333915	+	RNA	SNP	C	T	T	rs148961204	by1000genomes	TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr17:18333915C>T	uc010vxz.1	+	6		c.1148C>T								Homo sapiens cDNA FLJ61294 complete cds, highly similar to Keratin, type I cytoskeletal 17.																		CAGAGAACCGCTACTGCATGC	0.612000													10	11					0	0	0	0
NFATC1	4772	broad.mit.edu	37	18	77171332	77171332	+	Missense_Mutation	SNP	G	A	A			TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr18:77171332G>A	uc010xfg.1	+	2	1510	c.1057G>A	c.(1057-1059)GTC>ATC	p.V353I	NFATC1_uc002lnc.1_Missense_Mutation_p.V353I|NFATC1_uc010xff.1_Missense_Mutation_p.V353I|NFATC1_uc002lnd.2_Missense_Mutation_p.V353I|NFATC1_uc002lne.2_Intron|NFATC1_uc010xfh.1_Missense_Mutation_p.V353I|NFATC1_uc010xfi.1_Missense_Mutation_p.V340I|NFATC1_uc010xfj.1_Intron|NFATC1_uc002lnf.2_Missense_Mutation_p.V340I|NFATC1_uc002lng.2_Missense_Mutation_p.V340I|NFATC1_uc010xfk.1_Missense_Mutation_p.V340I	NM_006162	NP_006153	O95644	NFAC1_HUMAN	nuclear factor of activated T-cells, cytosolic	353					intracellular signal transduction|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	FK506 binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			large_intestine(1)|ovary(1)	2		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;3.73e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0257)		GGTGGAGCCCGTCGGGGAGGA	0.682000													12	38					0	0	0	0
CLIP3	25999	broad.mit.edu	37	19	36517641	36517641	+	Missense_Mutation	SNP	C	T	T			TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr19:36517641C>T	uc010eeq.1	-	4	691	c.409G>A	c.(409-411)GCG>ACG	p.A137T	uc002ocy.2_Intron|CLIP3_uc002ocz.1_Missense_Mutation_p.A137T	NM_015526	NP_056341	Q96DZ5	CLIP3_HUMAN	CAP-GLY domain containing linker protein 3	137	ANK 1.				chaperone-mediated protein transport|fat cell differentiation|membrane biogenesis|negative regulation of microtubule polymerization|peptidyl-L-cysteine S-palmitoylation|positive regulation of apoptosis|positive regulation of endocytosis|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose transport|positive regulation of protein phosphorylation	early endosome membrane|Golgi stack|membrane raft|microsome|plasma membrane|recycling endosome membrane|trans-Golgi network membrane	ganglioside binding|microtubule binding			ovary(2)|pancreas(1)|skin(1)	4	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			ACGGCTGCCGCGGGGTCCCCT	0.672000													6	15					0	0	0	0
Unknown	0	broad.mit.edu	37	19	40148584	40148584	+	Missense_Mutation	SNP	T	C	C	rs10403702	by1000genomes	TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr19:40148584T>C	uc010xvd.1	+	2	145	c.77T>C	c.(76-78)CTG>CCG	p.L26P						SubName: Full=Galectin-16;																		AAAGGGACACTGATCGACTCT	0.478000													20	88					0	0	0	0
CYP2A7	1549	broad.mit.edu	37	19	41382568	41382568	+	Silent	SNP	G	A	A			TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr19:41382568G>A	uc002opm.2	-	8	1709	c.1167C>T	c.(1165-1167)ACC>ACT	p.T389T	CYP2A7_uc002opo.2_Silent_p.T389T|CYP2A7_uc002opn.2_Silent_p.T338T	NM_000764	NP_000755	P20853	CP2A7_HUMAN	cytochrome P450, family 2, subfamily A,	389						endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	3			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)			GGAACACTTCGGTGCCCTGGT	0.577000													27	83					0	0	0	0
PNMAL1	55228	broad.mit.edu	37	19	46973295	46973295	+	Missense_Mutation	SNP	G	A	A			TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr19:46973295G>A	uc002peq.3	-	2	1304	c.998C>T	c.(997-999)TCT>TTT	p.S333F	PNMAL1_uc002per.3_Missense_Mutation_p.S333F	NM_018215	NP_060685	Q86V59	PNML1_HUMAN	PNMA-like 1 isoform a	333											0		Ovarian(192;0.00965)|all_neural(266;0.0459)		OV - Ovarian serous cystadenocarcinoma(262;0.000166)|all cancers(93;0.0014)|GBM - Glioblastoma multiforme(486;0.0421)|Epithelial(262;0.0427)		GTCTGACTCAGAGGCGCCTCC	0.597000													74	233					0	0	0	0
LOC96610	96610	broad.mit.edu	37	22	22974940	22974940	+	RNA	SNP	T	C	C	rs57741889	by1000genomes	TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr22:22974940T>C	uc011aim.1	+	106		c.7428T>C			POM121L1P_uc011ait.1_RNA					Parts of antibodies, mostly variable regions.												0						TCAGTGAGTGTCGGCCTGCGC	0.612000													5	14					0	0	0	0
MYH9	4627	broad.mit.edu	37	22	36710335	36710335	+	Missense_Mutation	SNP	T	C	C			TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr22:36710335T>C	uc003apg.2	-	13	1640	c.1409A>G	c.(1408-1410)AAT>AGT	p.N470S	MYH9_uc003aph.1_Missense_Mutation_p.N334S	NM_002473	NP_002464	P35579	MYH9_HUMAN	myosin, heavy polypeptide 9, non-muscle	470	Myosin head-like.				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						ATTGGTGTAATTGATGCACAG	0.527000			T	ALK	ALCL		Deafness|autosomal dominant 17|Epstein syndrome|Fechtner syndrome|May-Hegglin anomaly|Sebastian syndrome		Hereditary_Macrothrombocytopenia_MYH9-associated				17	43					0	0	0	0
CYP21A2	1589	broad.mit.edu	37	6	31975129	31975129	+	Silent	SNP	T	C	C	rs113153064		TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr6:31975129T>C	uc010jtp.2	+	8	940	c.822T>C	c.(820-822)TCT>TCC	p.S274S	CYP21A2_uc011dpb.1_Silent_p.S244S			P08686	CP21A_HUMAN	SubName: Full=Cytochrome P450, family 21, subfamily A, polypeptide 2; SubName: Full=Cytochrome P450 21-hydroxylase; SubName: Full=Cytochrome P450, family 21, subfamily A, polypeptide 2, isoform CRA_b; SubName: Full=DJ34F7.3 (Cytochrome P450, subfamily XXIA (Steroid 21-hydroxylase, congenital adrenal hyperplasia), polypeptide 2 (CYP21, P450c21B)); SubName: Full=cDNA, FLJ95495, Homo sapiens cytochrome P450, family 21, subfamily A, polypeptide 2(CYP21A2), mRNA;	273					glucocorticoid biosynthetic process|mineralocorticoid biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	electron carrier activity|heme binding|steroid 21-monooxygenase activity|steroid binding				0						AAGAGGGCTCTGGACAGCTCC	0.607000													31	141					0	0	0	0
ATF6B	1388	broad.mit.edu	37	6	32087633	32087633	+	Missense_Mutation	SNP	T	C	C	rs148535194	byFrequency	TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr6:32087633T>C	uc003nzn.2	-	9	967	c.934A>G	c.(934-936)ATG>GTG	p.M312V	TNXB_uc010jts.1_5'Flank|ATF6B_uc003nzm.1_5'Flank|ATF6B_uc003nzo.2_Missense_Mutation_p.M309V|ATF6B_uc003nzp.1_Missense_Mutation_p.M1V	NM_004381	NP_004372	Q99941	ATF6B_HUMAN	activating transcription factor 6 beta isoform	312	Cytoplasmic (Potential).				response to unfolded protein|signal transduction	endoplasmic reticulum membrane|integral to membrane|nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						TTTCCAGGCATAGGAGCGGGA	0.582000													24	103					0	0	0	0
RPL23AP53	644128	broad.mit.edu	37	8	163549	163549	+	RNA	SNP	G	A	A			TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr8:163549G>A	uc010lra.2	-	4		c.584C>T			RPL23AP53_uc003woq.3_RNA|RPL23AP53_uc010lrb.2_RNA	NR_003572				Homo sapiens cDNA FLJ45055 fis, clone BRAWH3022900.												0						GGCTGCCTCCGAAGTCGCAGT	0.552000													7	27					0	0	0	0
FABP4	2167	broad.mit.edu	37	8	82391122	82391122	+	Missense_Mutation	SNP	G	A	A			TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr8:82391122G>A	uc003ycd.2	-	4	448	c.377C>T	c.(376-378)ACG>ATG	p.T126M		NM_001442	NP_001433	P15090	FABP4_HUMAN	fatty acid binding protein 4, adipocyte	126					triglyceride catabolic process	cytoplasm|nucleus|soluble fraction	fatty acid binding|protein binding|transporter activity			breast(1)	1			Epithelial(68;0.213)			ATAAACTCTCGTGGAAGTGAC	0.388000													35	93					0	0	0	0
TGIF2LX	90316	broad.mit.edu	37	X	89177312	89177312	+	Silent	SNP	C	G	G			TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chrX:89177312C>G	uc004efe.2	+	2	277	c.228C>G	c.(226-228)GCC>GCG	p.A76A		NM_138960	NP_620410	Q8IUE1	TF2LX_HUMAN	TGFB-induced factor homeobox 2-like, X-linked	76	Homeobox; TALE-type.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2						GGTTTAAGGCCTACCCTTCAG	0.468000													55	62					0	0	0	0
PLXNB3	5365	broad.mit.edu	37	X	153033806	153033806	+	Missense_Mutation	SNP	G	A	A	rs141165767		TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chrX:153033806G>A	uc004fii.2	+	4	1363	c.1189G>A	c.(1189-1191)GTC>ATC	p.V397I	PLXNB3_uc011mzb.1_Intron|PLXNB3_uc011mzc.1_Missense_Mutation_p.V79I|PLXNB3_uc010nuk.2_Missense_Mutation_p.V420I|PLXNB3_uc011mzd.1_Missense_Mutation_p.V36I	NM_005393	NP_005384	Q9ULL4	PLXB3_HUMAN	plexin B3 isoform 1	397	Extracellular (Potential).|Sema.				axon guidance	integral to membrane|intracellular|plasma membrane	protein binding|receptor activity			lung(1)	1	all_hematologic(71;4.25e-06)|all_lung(58;3.83e-05)|Lung NSC(58;5.54e-05)|Acute lymphoblastic leukemia(192;6.56e-05)					CGGGCAGCCGGTCAGCGCCGT	0.687000													10	46					0	0	0	0
LOC649330	649330	broad.mit.edu	37	1	12908065	12908065	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr1:12908065delA	uc009vno.2	-	1	173	c.78delT	c.(76-78)CTTfs	p.L26fs	HNRNPCL1_uc010obf.1_Frame_Shift_Del_p.L26fs	NM_001146181	NP_001139653	B7ZW38	B7ZW38_HUMAN	heterogeneous nuclear ribonucleoprotein C-like	26							nucleic acid binding|nucleotide binding				0						TCTTGACAACAAGAGTGTTGA	0.453													---	---	---							
BCL9	607	broad.mit.edu	37	1	147091663	147091665	+	In_Frame_Del	DEL	ATG	-	-			TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr1:147091663_147091665delATG	uc001epq.2	+	8	2442_2444	c.1702_1704delATG	c.(1702-1704)ATGdel	p.M568del	BCL9_uc010ozr.1_In_Frame_Del_p.M494del	NM_004326	NP_004317	O00512	BCL9_HUMAN	B-cell CLL/lymphoma 9	568	Pro-rich.				Wnt receptor signaling pathway	nucleus	protein binding			ovary(2)|large_intestine(2)|breast(1)|skin(1)	6	all_hematologic(923;0.115)					ATTTGCAGGCATGATAAACTCTG	0.547			T	IGH@|IGL@	B-ALL								---	---	---							
PM20D1	148811	broad.mit.edu	37	1	205819066	205819067	+	Frame_Shift_Del	DEL	TT	-	-			TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr1:205819066_205819067delTT	uc001hdj.2	-	1	179_180	c.134_135delAA	c.(133-135)AAAfs	p.K45fs	PM20D1_uc009xbr.2_RNA	NM_152491	NP_689704	Q6GTS8	P20D1_HUMAN	peptidase M20 domain containing 1 precursor	45						extracellular region	metal ion binding|peptidase activity			skin(1)	1	Breast(84;0.201)		BRCA - Breast invasive adenocarcinoma(75;0.0252)			CGCGTTCCTCTTTGCTGAACTG	0.599													---	---	---							
Unknown	0	broad.mit.edu	37	10	42383716	42383717	+	IGR	INS	-	G	G	rs145968937		TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr10:42383716_42383717insG								None (None upstream) : LOC441666 (443598 downstream)																							tggaatcaaaataaccatcatc	0.000													---	---	---							
ATN1	1822	broad.mit.edu	37	12	7045880	7045885	+	In_Frame_Del	DEL	CAGCAA	-	-			TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr12:7045880_7045885delCAGCAA	uc001qrw.1	+	5	1687_1692	c.1450_1455delCAGCAA	c.(1450-1455)CAGCAAdel	p.QQ500del	ATN1_uc001qrx.1_In_Frame_Del_p.QQ500del|ATN1_uc001qry.1_In_Frame_Del_p.QQ485del	NM_001007026	NP_001007027	P54259	ATN1_HUMAN	atrophin-1	500_501	Poly-Gln.				cell death|central nervous system development	cytoplasm|nucleus	protein domain specific binding			ovary(2)|breast(2)|pancreas(1)|skin(1)	6						CCATCACCACcagcaacagcaacagc	0.447													---	---	---							
RPL6	6128	broad.mit.edu	37	12	112844148	112844149	+	Splice_Site	DEL	TG	-	-			TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr12:112844148_112844149delTG	uc001ttu.2	-	5	710	c.481_splice	c.e5-1	p.R161_splice	RPL6_uc001ttv.2_Splice_Site_p.R161_splice	NM_001024662	NP_001019833	Q02878	RL6_HUMAN	ribosomal protein L6						endocrine pancreas development|regulation of transcription, DNA-dependent|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit	DNA binding|RNA binding|structural constituent of ribosome			large_intestine(1)	1						AACCACCCTCTGTAAGTTAAAA	0.327													---	---	---							
Unknown	0	broad.mit.edu	37	13	44544706	44544706	+	IGR	DEL	G	-	-			TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr13:44544706delG								C13orf31 (76639 upstream) : LOC121838 (51765 downstream)																							TCCCCCAAGTGGTGCTTCCTG	0.577													---	---	---							
C13orf39	196541	broad.mit.edu	37	13	103338404	103338405	+	Frame_Shift_Ins	INS	-	A	A			TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr13:103338404_103338405insA	uc001vpj.2	-	4	777_778	c.771_772insT	c.(769-774)TTTAAGfs	p.F257fs	C13orf39_uc001vpk.2_Frame_Shift_Ins_p.F257fs	NM_001010977	NP_001010977	Q5VZV1	MT21C_HUMAN	hypothetical protein LOC196541	257_258							methyltransferase activity				0						AGTATCCCCTTAAAAAGTTTGA	0.351													---	---	---							
Unknown	0	broad.mit.edu	37	14	20264855	20264856	+	IGR	DEL	TA	-	-			TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr14:20264855_20264856delTA								OR4M1 (15433 upstream) : OR4N2 (30752 downstream)																							CCTTGTGATGTAGCCTTTGACC	0.510													---	---	---							
Unknown	0	broad.mit.edu	37	15	78202278	78202278	+	IGR	DEL	C	-	-	rs71145877		TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr15:78202278delC								LINGO1 (213803 upstream) : LOC645752 (4281 downstream)																							TTGACAGTGGCTCCCCCAGCC	0.577													---	---	---							
ITGAL	3683	broad.mit.edu	37	16	30531249	30531251	+	In_Frame_Del	DEL	GCT	-	-			TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr16:30531249_30531251delGCT	uc002dyi.3	+	30	3476_3478	c.3300_3302delGCT	c.(3298-3303)GGGCTG>GGG	p.L1106del	ITGAL_uc002dyj.3_In_Frame_Del_p.L1022del|ITGAL_uc010vev.1_In_Frame_Del_p.L340del	NM_002209	NP_002200	P20701	ITAL_HUMAN	integrin alpha L isoform a precursor	1106	Helical; (Potential).				blood coagulation|heterophilic cell-cell adhesion|inflammatory response|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|leukocyte migration|regulation of immune response|T cell activation via T cell receptor contact with antigen bound to MHC molecule on antigen presenting cell	integrin complex	cell adhesion molecule binding|receptor activity			ovary(3)|lung(3)|central_nervous_system(3)|breast(1)	10					Efalizumab(DB00095)	GCATCGGGGGGCTGCTGCTGCTG	0.601													---	---	---							
OR1D4	8385	broad.mit.edu	37	17	2966544	2966544	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr17:2966544delA	uc010vra.1	-	1	412	c.412delT	c.(412-414)TATfs	p.Y138fs		NM_003552	NP_003543			olfactory receptor, family 1, subfamily D,												0						TAGCGATCATACGCCATCACG	0.577													---	---	---							
Unknown	0	broad.mit.edu	37	17	14898437	14898439	+	IGR	DEL	TCC	-	-	rs72162223		TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr17:14898437_14898439delTCC								HS3ST3B1 (648945 upstream) : PMP22 (234658 downstream)																							Ttcctcctcttcctcctcctcct	0.438													---	---	---							
Unknown	0	broad.mit.edu	37	17	20744542	20744546	+	RNA	DEL	CGCAC	-	-			TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr17:20744542_20744546delCGCAC	uc010crb.1	+	1		c.202_206delCGCAC								Homo sapiens cDNA clone IMAGE:6269068, partial cds.																		CCTCCTCGGGCGCACCGCACCCGGG	0.722													---	---	---							
Unknown	0	broad.mit.edu	37	17	21228979	21228981	+	IGR	DEL	TCC	-	-	rs36117559		TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr17:21228979_21228981delTCC								MAP2K3 (10430 upstream) : KCNJ12 (50718 downstream)																							Ctcttcctcttcctcttcttctt	0.177													---	---	---							
Unknown	0	broad.mit.edu	37	17	41026124	41026124	+	IGR	DEL	G	-	-			TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr17:41026124delG								LOC90586 (4761 upstream) : LOC388387 (567 downstream)																							TTGGTGGCCTGGGTGACAGCT	0.552													---	---	---							
Unknown	0	broad.mit.edu	37	18	14931993	14931999	+	IGR	DEL	CCCACCT	-	-			TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr18:14931993_14931999delCCCACCT								ANKRD30B (79256 upstream) : LOC644669 (381556 downstream)																							ggccccccaccccacctcccacctccc	0.155													---	---	---							
Unknown	0	broad.mit.edu	37	18	15198397	15198397	+	IGR	DEL	A	-	-	rs34382864		TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr18:15198397delA								ANKRD30B (345660 upstream) : LOC644669 (115158 downstream)																							AGCTGAAGACAAAAAAAAAAA	0.463													---	---	---							
POLI	11201	broad.mit.edu	37	18	51795958	51795960	+	In_Frame_Del	DEL	CGA	-	-	rs140689079		TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr18:51795958_51795960delCGA	uc002lfj.3	+	1	110_112	c.42_44delCGA	c.(40-45)GGCGAC>GGC	p.D17del	POLI_uc010xds.1_In_Frame_Del_p.D17del|POLI_uc002lfk.3_5'UTR|POLI_uc002lfl.1_5'Flank	NM_007195	NP_009126	Q9UNA4	POLI_HUMAN	DNA polymerase iota	17					DNA repair|DNA replication	nucleoplasm	damaged DNA binding|DNA-directed DNA polymerase activity|metal ion binding|protein binding			ovary(2)|kidney(1)	3				Colorectal(16;0.0234)|READ - Rectum adenocarcinoma(59;0.197)		AAGGCGGCGGCGACGACGACGAG	0.729								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					---	---	---							
ZFR2	23217	broad.mit.edu	37	19	3871980	3871980	+	5'Flank	DEL	A	-	-			TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr19:3871980delA	uc002lyw.2	-						ZFR2_uc010xhx.1_5'Flank|ZFR2_uc002lyx.3_5'Flank|ZFR2_uc010xhy.1_5'Flank	NM_015174	NP_055989	Q9UPR6	ZFR2_HUMAN	zinc finger RNA binding protein 2 isoform 1							intracellular	nucleic acid binding|zinc ion binding			central_nervous_system(1)|pancreas(1)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00514)|STAD - Stomach adenocarcinoma(1328;0.19)		gaggctctccaaaaaaaaaag	0.269													---	---	---							
Unknown	0	broad.mit.edu	37	2	209938026	209938026	+	IGR	DEL	G	-	-			TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr2:209938026delG								PTH2R (233208 upstream) : MAP2 (350745 downstream)																							GGGTCTGCTTGGTAAGAAAAG	0.423													---	---	---							
C20orf118	140711	broad.mit.edu	37	20	35509132	35509134	+	In_Frame_Del	DEL	CTC	-	-			TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr20:35509132_35509134delCTC	uc002xgg.1	+	4	425_427	c.417_419delCTC	c.(415-420)TTCTCC>TTC	p.S140del		NM_080628	NP_542195	A0PJX2	CT118_HUMAN	hypothetical protein LOC140711	140	TLD.										0		Myeloproliferative disorder(115;0.00874)				CATTCCTCTTCTCCTTCTCCCCA	0.567													---	---	---							
Unknown	0	broad.mit.edu	37	22	16920048	16920048	+	IGR	DEL	A	-	-			TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr22:16920048delA								OR11H1 (470244 upstream) : CCT8L2 (151600 downstream)																							AATATCGAACAAAAAAATCCC	0.333													---	---	---							
PARP9	83666	broad.mit.edu	37	3	122255866	122255868	+	In_Frame_Del	DEL	ATG	-	-			TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr3:122255866_122255868delATG	uc010hri.2	-	9	2068_2070	c.1923_1925delCAT	c.(1921-1926)ATCATA>ATA	p.641_642II>I	PARP9_uc003eff.3_In_Frame_Del_p.606_607II>I|PARP9_uc011bjs.1_In_Frame_Del_p.606_607II>I|PARP9_uc003efg.2_In_Frame_Del_p.186_187II>I|PARP9_uc003efi.2_In_Frame_Del_p.606_607II>I|PARP9_uc003efh.2_In_Frame_Del_p.641_642II>I|PARP9_uc003efj.2_In_Frame_Del_p.606_607II>I	NM_001146102	NP_001139574	Q8IXQ6	PARP9_HUMAN	poly (ADP-ribose) polymerase family, member 9	641_642	PARP catalytic.				cell migration	cytosol|nucleus	NAD+ ADP-ribosyltransferase activity|protein binding			ovary(1)|pancreas(1)|prostate(1)|skin(1)	4				GBM - Glioblastoma multiforme(114;0.0519)		TTTCAGAAATATGATATTTTCTT	0.355													---	---	---							
CCDC96	257236	broad.mit.edu	37	4	7044507	7044509	+	In_Frame_Del	DEL	CTC	-	-			TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr4:7044507_7044509delCTC	uc003gjv.2	-	1	220_222	c.157_159delGAG	c.(157-159)GAGdel	p.E53del	TADA2B_uc003gjw.3_5'Flank|TADA2B_uc010idi.2_5'Flank	NM_153376	NP_699207	Q2M329	CCD96_HUMAN	coiled-coil domain containing 96	53	Glu-rich.										0						AAGCCGCTTGCTCCTCCTCCTCC	0.729													---	---	---							
Unknown	0	broad.mit.edu	37	4	152180109	152180109	+	IGR	DEL	C	-	-	rs140649981		TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr4:152180109delC								SH3D19 (30927 upstream) : PRSS48 (18216 downstream)																							ATGGGGTAAGCCCTAGGTAGG	0.582													---	---	---							
Unknown	0	broad.mit.edu	37	4	179208072	179208072	+	IGR	DEL	A	-	-			TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr4:179208072delA								LOC285501 (296169 upstream) : None (None downstream)																							AAGGGCAGGCAACATGGGCAT	0.532													---	---	---							
Unknown	0	broad.mit.edu	37	5	110285304	110285305	+	IGR	INS	-	T	T			TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr5:110285304_110285305insT								SLC25A46 (186822 upstream) : TSLP (120473 downstream)																							AATCATTAAACTTTGTTTTCCA	0.436													---	---	---							
PCDHGA8	9708	broad.mit.edu	37	5	140772899	140772899	+	Frame_Shift_Del	DEL	C	-	-			TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr5:140772899delC	uc003lkd.1	+	1	1417	c.519delC	c.(517-519)AGCfs	p.S173fs	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkb.3_Frame_Shift_Del_p.S173fs	NM_032088	NP_114477	Q9Y5G5	PCDG8_HUMAN	protocadherin gamma subfamily A, 8 isoform 1	173	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACCAGCTCAGCCCCAATCACC	0.572													---	---	---							
DSP	1832	broad.mit.edu	37	6	7542148	7542149	+	Translation_Start_Site	INS	-	A	A	rs151331814	by1000genomes	TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr6:7542148_7542149insA	uc003mxp.1	+	1					DSP_uc003mxq.1_Translation_Start_Site	NM_004415	NP_004406	P15924	DESP_HUMAN	desmoplakin isoform I						cellular component disassembly involved in apoptosis|keratinocyte differentiation|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural constituent of cytoskeleton			central_nervous_system(6)|ovary(2)|skin(1)	9	Ovarian(93;0.0584)	all_hematologic(90;0.236)		OV - Ovarian serous cystadenocarcinoma(45;0.000508)		TGCCCGCCGACATGAGCTGCAA	0.718													---	---	---							
SMPD2	6610	broad.mit.edu	37	6	109764875	109764877	+	In_Frame_Del	DEL	GGA	-	-			TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr6:109764875_109764877delGGA	uc003pti.2	+	10	1433_1435	c.1039_1041delGGA	c.(1039-1041)GGAdel	p.G349del	PPIL6_uc003pth.1_5'Flank	NM_003080	NP_003071	O60906	NSMA_HUMAN	sphingomyelin phosphodiesterase 2, neutral	349	Helical; (Potential).				induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|sphingomyelin metabolic process	integral to plasma membrane	metal ion binding|sphingomyelin phosphodiesterase activity				0		all_cancers(87;1.1e-06)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.000144)|all_lung(197;0.0221)|Colorectal(196;0.0488)|Lung SC(18;0.0548)		Epithelial(106;0.0137)|all cancers(137;0.0188)|OV - Ovarian serous cystadenocarcinoma(136;0.0228)|BRCA - Breast invasive adenocarcinoma(108;0.0566)		CCTGGCGGCTGGAGGAGGGGCCG	0.635													---	---	---							
OR9A4	130075	broad.mit.edu	37	7	141619203	141619203	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr7:141619203delT	uc003vwu.1	+	1	528	c.528delT	c.(526-528)AATfs	p.N176fs		NM_001001656	NP_001001656	Q8NGU2	OR9A4_HUMAN	olfactory receptor, family 9, subfamily A,	176	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	Melanoma(164;0.0171)					TGGTGAACAATTTTTTTTGTG	0.383													---	---	---							
OR2A5	393046	broad.mit.edu	37	7	143747823	143747824	+	Frame_Shift_Del	DEL	CT	-	-			TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr7:143747823_143747824delCT	uc011ktw.1	+	1	329_330	c.329_330delCT	c.(328-330)ACTfs	p.T110fs		NM_012365	NP_036497	Q96R48	OR2A5_HUMAN	olfactory receptor, family 2, subfamily A,	110	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)	3	Melanoma(164;0.0783)					TTTGCTCACACTGAGTGTCTCA	0.460													---	---	---							
C7orf29	113763	broad.mit.edu	37	7	150028158	150028158	+	Frame_Shift_Del	DEL	C	-	-			TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr7:150028158delC	uc003wgy.2	+	1	1221	c.665delC	c.(664-666)GCCfs	p.A222fs	LRRC61_uc003wgv.2_Intron|LRRC61_uc003wgx.2_Intron|LRRC61_uc003wgw.2_Intron	NM_138434	NP_612443	Q96FA7	CG029_HUMAN	hypothetical protein LOC113763	222										ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(82;0.011)			AAGCGAGAAGCCTGGCCACCA	0.542													---	---	---							
ASPH	444	broad.mit.edu	37	8	62559410	62559410	+	Frame_Shift_Del	DEL	T	-	-	rs80163539		TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr8:62559410delT	uc003xuj.2	-	6	787	c.518delA	c.(517-519)GATfs	p.D173fs	ASPH_uc011leg.1_Frame_Shift_Del_p.D144fs|ASPH_uc003xuo.2_Frame_Shift_Del_p.D173fs|ASPH_uc011leh.1_Frame_Shift_Del_p.D159fs|ASPH_uc003xul.2_Frame_Shift_Del_p.D159fs|ASPH_uc011lei.1_Frame_Shift_Del_p.D159fs|ASPH_uc011lej.1_Intron|ASPH_uc003xun.2_Intron|ASPH_uc011lek.1_Frame_Shift_Del_p.D173fs|ASPH_uc003xum.2_Frame_Shift_Del_p.D173fs	NM_004318	NP_004309	Q12797	ASPH_HUMAN	aspartate beta-hydroxylase isoform a	173	Glu-rich.|Lumenal (Potential).				muscle contraction	integral to endoplasmic reticulum membrane	calcium ion binding|electron carrier activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peptide-aspartate beta-dioxygenase activity|structural constituent of muscle			ovary(3)	3	Lung SC(2;0.153)	Lung NSC(129;0.0358)|all_lung(136;0.0654)|all_epithelial(80;0.101)			L-Aspartic Acid(DB00128)|Succinic acid(DB00139)	TGTGGGTCCATCTTCTTGTTG	0.448													---	---	---							
Unknown	0	broad.mit.edu	37	8	134420816	134420816	+	IGR	DEL	A	-	-			TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr8:134420816delA								NDRG1 (111269 upstream) : ST3GAL1 (46275 downstream)																							GTGGCGGGGGAAAGCACACAG	0.468													---	---	---							
ADCK5	203054	broad.mit.edu	37	8	145617535	145617549	+	Splice_Site	DEL	GGGGGTGCAAGGTGA	-	-	rs11270020		TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr8:145617535_145617549delGGGGGTGCAAGGTGA	uc003zch.2	+	12	1321	c.1267_splice	c.e12+1	p.D423_splice	ADCK5_uc003zcg.2_Intron|ADCK5_uc003zci.2_Splice_Site_p.D12_splice	NM_174922	NP_777582	Q3MIX3	ADCK5_HUMAN	aarF domain containing kinase 5							integral to membrane	protein serine/threonine kinase activity			stomach(1)	1	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;8.96e-41)|Epithelial(56;4.08e-40)|all cancers(56;4.51e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0323)|Colorectal(110;0.055)			CAGCCGCACTGGGGGTGCAAGGTGAGGGGGTGCAA	0.660													---	---	---							
Unknown	0	broad.mit.edu	37	9	68433481	68433482	+	IGR	INS	-	CTC	CTC	rs144672547		TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr9:68433481_68433482insCTC								FAM27B (639292 upstream) : MIR1299 (568757 downstream)																							CATTTCTTCTTCTGCTGTTTTA	0.342													---	---	---							
NOTCH1	4851	broad.mit.edu	37	9	139390945	139390947	+	In_Frame_Del	DEL	GTG	-	-			TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chr9:139390945_139390947delGTG	uc004chz.2	-	34	7244_7246	c.7244_7246delCAC	c.(7243-7248)CCACAG>CAG	p.P2415del		NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	2415	Cytoplasmic (Potential).|Poly-Pro.				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity	p.Q2417*(1)		haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		AGGTGCGGCTGTGGTGGTGGTGG	0.650			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			---	---	---							
Unknown	0	broad.mit.edu	37	Y	13601466	13601467	+	IGR	INS	-	T	T	rs112972965		TCGA-BB-7861-01A-11D-2229-08	TCGA-BB-7861-10A-01D-2229-08									Somatic	Phase_I	Capture				Illumina GAIIx	77cb5c69-f15e-45de-a060-0e8b52648209	baa74281-5ff2-4100-a721-5698c8e648b5	g.chrY:13601466_13601467insT								None (None upstream) : None (None downstream)																							AGAGCAGGCTCTTGCCCACATC	0.490													---	---	---							
