Hugo_Symbol	Entrez_Gene_Id	Center	NCBI_Build	Chromosome	Start_position	End_position	Strand	Variant_Classification	Variant_Type	Reference_Allele	Tumor_Seq_Allele1	Tumor_Seq_Allele2	dbSNP_RS	dbSNP_Val_Status	Tumor_Sample_Barcode	Matched_Norm_Sample_Barcode	Match_Norm_Seq_Allele1	Match_Norm_Seq_Allele2	Tumor_Validation_Allele1	Tumor_Validation_Allele2	Match_Norm_Validation_Allele1	Match_Norm_Validation_Allele2	Verification_Status	Validation_Status	Mutation_Status	Sequencing_Phase	Sequence_Source	Validation_Method	Score	BAM_file	Sequencer	Tumor_Sample_UUID	Matched_Norm_Sample_UUID	Genome_Change	Annotation_Transcript	Transcript_Strand	Transcript_Exon	Transcript_Position	cDNA_Change	Codon_Change	Protein_Change	Other_Transcripts	Refseq_mRNA_Id	Refseq_prot_Id	SwissProt_acc_Id	SwissProt_entry_Id	Description	UniProt_AApos	UniProt_Region	UniProt_Site	UniProt_Natural_Variations	UniProt_Experimental_Info	GO_Biological_Process	GO_Cellular_Component	GO_Molecular_Function	COSMIC_overlapping_mutations	COSMIC_fusion_genes	COSMIC_tissue_types_affected	COSMIC_total_alterations_in_gene	Tumorscape_Amplification_Peaks	Tumorscape_Deletion_Peaks	TCGAscape_Amplification_Peaks	TCGAscape_Deletion_Peaks	DrugBank	ref_context	gc_content	CCLE_ONCOMAP_overlapping_mutations	CCLE_ONCOMAP_total_mutations_in_gene	CGC_Mutation_Type	CGC_Translocation_Partner	CGC_Tumor_Types_Somatic	CGC_Tumor_Types_Germline	CGC_Other_Diseases	DNARepairGenes_Role	FamilialCancerDatabase_Syndromes	MUTSIG_Published_Results	OREGANNO_ID	OREGANNO_Values	t_alt_count	t_ref_count	validation_status	validation_method	validation_tumor_sample	validation_alt_allele	pox	qox	pox_cutoff	isArtifactMode	oxoGCut
LOC149620	149620	broad.mit.edu	37	1	111824255	111824255	+	RNA	SNP	C	T	T	rs6537691	by1000genomes	TCGA-EL-A3CV-01A-11D-A19J-08	TCGA-EL-A3CV-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1753e9c-29d0-4955-89d2-949cdabd1211	48b6e8f8-3784-4f66-892f-5c294e06c306	g.chr1:111824255C>T	uc009wgb.2	+	2		c.113C>T				NR_003928				Homo sapiens CHIA-like pseudogene, mRNA (cDNA clone IMAGE:5176731).												0						CTGATGACATCGACCCCTGCC	0.532000													4	42	---	---	---	---	0	0	1	0	0
LOC646813	646813	broad.mit.edu	37	11	50379403	50379403	+	RNA	SNP	T	C	C	rs692607	by1000genomes	TCGA-EL-A3CV-01A-11D-A19J-08	TCGA-EL-A3CV-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1753e9c-29d0-4955-89d2-949cdabd1211	48b6e8f8-3784-4f66-892f-5c294e06c306	g.chr11:50379403T>C	uc001nhe.2	+	6		c.886T>C			LOC646813_uc001nhf.1_RNA|LOC646813_uc001nhg.1_RNA|LOC646813_uc001nhh.1_RNA|LOC646813_uc010rib.1_RNA	NR_024504				Homo sapiens mRNA for hypothetical protein, partial sequence, clone:Hsa11-digit09-11-09-R.												0						TCCCTTTTAATTCATCAAAGC	0.318000													3	32	---	---	---	---	0	0	1	0	0
TRANK1	9881	broad.mit.edu	37	3	36872912	36872912	+	Missense_Mutation	SNP	C	T	T			TCGA-EL-A3CV-01A-11D-A19J-08	TCGA-EL-A3CV-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1753e9c-29d0-4955-89d2-949cdabd1211	48b6e8f8-3784-4f66-892f-5c294e06c306	g.chr3:36872912C>T	uc003cgj.2	-	12	6682	c.6380G>A	c.(6379-6381)CGG>CAG	p.R2127Q		NM_014831	NP_055646	O15050	TRNK1_HUMAN	lupus brain antigen 1	2677					DNA repair		ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|central_nervous_system(1)	2						CCTCAACTTCCGCTGTATGGA	0.577000													6	13	---	---	---	---	0	0	1	0	0
Unknown	0	broad.mit.edu	37	4	88814176	88814176	+	Missense_Mutation	SNP	C	T	T			TCGA-EL-A3CV-01A-11D-A19J-08	TCGA-EL-A3CV-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1753e9c-29d0-4955-89d2-949cdabd1211	48b6e8f8-3784-4f66-892f-5c294e06c306	g.chr4:88814176C>T	uc010iko.1	+	3	1009	c.1009C>T	c.(1009-1011)CTC>TTC	p.L337F						SubName: Full=Heat shock protein 90kDa alpha (Cytosolic), class B member 1, isoform CRA_a; SubName: Full=cDNA, FLJ92550, Homo sapiens heat shock 90kDa protein 1, beta (HSPCB), mRNA;																		CCGAGAAATGCTCCAGCAGAG	0.433000													4	45	---	---	---	---	0	0	1	0	0
PTCD2	79810	broad.mit.edu	37	5	71638813	71638813	+	Missense_Mutation	SNP	A	G	G			TCGA-EL-A3CV-01A-11D-A19J-08	TCGA-EL-A3CV-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1753e9c-29d0-4955-89d2-949cdabd1211	48b6e8f8-3784-4f66-892f-5c294e06c306	g.chr5:71638813A>G	uc003kcb.2	+	8	788	c.778A>G	c.(778-780)ATT>GTT	p.I260V	PTCD2_uc011csf.1_Missense_Mutation_p.I70V|PTCD2_uc003kcc.2_Missense_Mutation_p.I108V|PTCD2_uc011csg.1_Missense_Mutation_p.I88V|PTCD2_uc011csh.1_Missense_Mutation_p.I151V|PTCD2_uc003kcd.2_RNA	NM_024754	NP_079030	Q8WV60	PTCD2_HUMAN	pentatricopeptide repeat domain 2	260											0		Lung NSC(167;0.00237)|Ovarian(174;0.0175)|Prostate(461;0.141)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;1.73e-53)		AGCTGTGTCCATTTTTTCTCA	0.313000													11	50	---	---	---	---	0	0	1	0	0
ZKSCAN3	80317	broad.mit.edu	37	6	28333660	28333660	+	Missense_Mutation	SNP	G	T	T			TCGA-EL-A3CV-01A-11D-A19J-08	TCGA-EL-A3CV-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1753e9c-29d0-4955-89d2-949cdabd1211	48b6e8f8-3784-4f66-892f-5c294e06c306	g.chr6:28333660G>T	uc003nle.3	+	6	1431	c.1215G>T	c.(1213-1215)AAG>AAT	p.K405N	ZKSCAN3_uc010jrc.2_Missense_Mutation_p.K405N|ZKSCAN3_uc003nlf.3_Missense_Mutation_p.K257N|uc010jrd.2_5'Flank	NM_024493	NP_077819	Q9BRR0	ZKSC3_HUMAN	zinc finger with KRAB and SCAN domains 3	405	C2H2-type 4.				positive regulation of transcription, DNA-dependent|viral reproduction	nucleus	chromatin binding|DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)	2						ACTGTGGGAAGACCTTCAGCC	0.507000													21	67	---	---	---	---	3.51602e-12	4.0183e-12	1	1	0
CNR1	1268	broad.mit.edu	37	6	88854344	88854344	+	Missense_Mutation	SNP	G	T	T			TCGA-EL-A3CV-01A-11D-A19J-08	TCGA-EL-A3CV-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1753e9c-29d0-4955-89d2-949cdabd1211	48b6e8f8-3784-4f66-892f-5c294e06c306	g.chr6:88854344G>T	uc011dzq.1	-	2	4213	c.650C>A	c.(649-651)TCC>TAC	p.S217Y	CNR1_uc010kbz.2_Missense_Mutation_p.S217Y|CNR1_uc011dzr.1_Missense_Mutation_p.S217Y|CNR1_uc011dzs.1_Missense_Mutation_p.S217Y|CNR1_uc003pmq.3_Missense_Mutation_p.S217Y|CNR1_uc011dzt.1_Missense_Mutation_p.S217Y|CNR1_uc010kca.2_Missense_Mutation_p.S184Y	NM_001160260	NP_001153732	P21554	CNR1_HUMAN	cannabinoid receptor 1 isoform a	217	Cytoplasmic (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger	integral to plasma membrane	cannabinoid receptor activity|protein binding			skin(2)	2		all_cancers(76;8.24e-09)|Acute lymphoblastic leukemia(125;2.15e-10)|Prostate(29;4.11e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;0.00011)		BRCA - Breast invasive adenocarcinoma(108;0.15)	Marinol(DB00470)|Nabilone(DB00486)|Rimonabant(DB06155)	CCTGTGAATGGATATGTACCT	0.577000													12	36	---	---	---	---	1.5842e-08	1.68981e-08	1	1	0
ZBTB24	9841	broad.mit.edu	37	6	109787075	109787075	+	Silent	SNP	T	A	A			TCGA-EL-A3CV-01A-11D-A19J-08	TCGA-EL-A3CV-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1753e9c-29d0-4955-89d2-949cdabd1211	48b6e8f8-3784-4f66-892f-5c294e06c306	g.chr6:109787075T>A	uc003ptl.1	-	7	2241	c.2073A>T	c.(2071-2073)CCA>CCT	p.P691P	MICAL1_uc011eaq.1_5'UTR|ZBTB24_uc011ear.1_RNA|ZBTB24_uc010kds.1_Silent_p.P635P|ZBTB24_uc010kdt.1_RNA	NM_014797	NP_055612	O43167	ZBT24_HUMAN	zinc finger and BTB domain containing 24 isoform	691					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		all_cancers(87;0.000189)|Acute lymphoblastic leukemia(125;3.07e-08)|all_hematologic(75;3.33e-06)|all_epithelial(87;0.00686)|Lung SC(18;0.0743)|Colorectal(196;0.101)|all_lung(197;0.149)		Epithelial(106;0.0154)|all cancers(137;0.0216)|OV - Ovarian serous cystadenocarcinoma(136;0.0242)|BRCA - Breast invasive adenocarcinoma(108;0.059)		CCTGGCCAAGTGGCGTTGGCT	0.537000													20	64	---	---	---	---	0	0	1	0	0
RARRES2	5919	broad.mit.edu	37	7	150037537	150037537	+	Silent	SNP	G	A	A			TCGA-EL-A3CV-01A-11D-A19J-08	TCGA-EL-A3CV-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1753e9c-29d0-4955-89d2-949cdabd1211	48b6e8f8-3784-4f66-892f-5c294e06c306	g.chr7:150037537G>A	uc003wha.2	-	2	279	c.162C>T	c.(160-162)AGC>AGT	p.S54S	RARRES2_uc010lpp.1_Silent_p.S54S	NM_002889	NP_002880	Q99969	RARR2_HUMAN	chemerin preproprotein	54					embryonic digestive tract development|in utero embryonic development|positive regulation of macrophage chemotaxis|retinoid metabolic process	extracellular matrix	receptor binding			pancreas(1)	1			OV - Ovarian serous cystadenocarcinoma(82;0.011)			TGTCCACGGCGCTCTCCACAC	0.677000													3	13	---	---	---	---	0	0	1	0	0
NOTCH2	4853	broad.mit.edu	37	1	120612003	120612004	+	Frame_Shift_Del	DEL	GG	-	-			TCGA-EL-A3CV-01A-11D-A19J-08	TCGA-EL-A3CV-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1753e9c-29d0-4955-89d2-949cdabd1211	48b6e8f8-3784-4f66-892f-5c294e06c306	g.chr1:120612003_120612004delGG	uc001eik.2	-	1	273_274	c.17_18delCC	c.(16-18)CCCfs	p.P6fs	NOTCH2_uc001eil.2_Frame_Shift_Del_p.P6fs|NOTCH2_uc001eim.3_5'UTR	NM_024408	NP_077719	Q04721	NOTC2_HUMAN	notch 2 preproprotein	6					anti-apoptosis|bone remodeling|cell cycle arrest|cell fate determination|cell growth|hemopoiesis|induction of apoptosis|negative regulation of cell proliferation|nervous system development|Notch receptor processing|Notch signaling pathway|organ morphogenesis|positive regulation of Ras protein signal transduction|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|ligand-regulated transcription factor activity|protein binding|receptor activity			lung(8)|haematopoietic_and_lymphoid_tissue(7)|ovary(4)|central_nervous_system(2)|skin(2)|kidney(2)|breast(1)|prostate(1)	27	all_neural(166;0.153)	all_lung(203;1.96e-06)|Lung NSC(69;1.47e-05)|all_epithelial(167;0.000809)		Lung(183;0.0242)|LUSC - Lung squamous cell carcinoma(189;0.133)		ACAGCAGAGCGGGGCGCAGGGC	0.663			N|F|Mis		marginal zone lymphoma|DLBCL				Alagille_Syndrome				7	19	---	---	---	---					
DIDO1	11083	broad.mit.edu	37	20	61537401	61537402	+	Frame_Shift_Ins	INS	-	T	T	rs140153728		TCGA-EL-A3CV-01A-11D-A19J-08	TCGA-EL-A3CV-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1753e9c-29d0-4955-89d2-949cdabd1211	48b6e8f8-3784-4f66-892f-5c294e06c306	g.chr20:61537401_61537402insT	uc002ydr.1	-	6	1689_1690	c.1425_1426insA	c.(1423-1428)AAAGAGfs	p.K475fs	DIDO1_uc002yds.1_Frame_Shift_Ins_p.K475fs|DIDO1_uc002ydt.1_Frame_Shift_Ins_p.K475fs|DIDO1_uc002ydu.1_Frame_Shift_Ins_p.K475fs|DIDO1_uc002ydv.1_Frame_Shift_Ins_p.K475fs|DIDO1_uc002ydw.1_Frame_Shift_Ins_p.K475fs|DIDO1_uc002ydx.1_Frame_Shift_Ins_p.K475fs|DIDO1_uc011aao.1_Frame_Shift_Ins_p.K475fs	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	475_476					apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					ACTGTGGTCTCTTTTTTTTCTG	0.490													7	135	---	---	---	---					
ADAD1	132612	broad.mit.edu	37	4	123302211	123302211	+	Frame_Shift_Del	DEL	A	-	-			TCGA-EL-A3CV-01A-11D-A19J-08	TCGA-EL-A3CV-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1753e9c-29d0-4955-89d2-949cdabd1211	48b6e8f8-3784-4f66-892f-5c294e06c306	g.chr4:123302211delA	uc003ieo.2	+	4	469	c.237delA	c.(235-237)CCAfs	p.P79fs	ADAD1_uc003iep.2_Frame_Shift_Del_p.P79fs|ADAD1_uc003ieq.2_Frame_Shift_Del_p.P61fs	NM_139243	NP_640336	Q96M93	ADAD1_HUMAN	adenosine deaminase domain containing 1	79					multicellular organismal development|RNA processing	nucleus	adenosine deaminase activity|double-stranded RNA binding				0						TCCTTCCTCCAAAAAAAATAC	0.358													7	77	---	---	---	---					
HCG4	54435	broad.mit.edu	37	6	29760353	29760373	+	RNA	DEL	GCGGGCGCCGTGGATGGAGCA	-	-	rs146714150		TCGA-EL-A3CV-01A-11D-A19J-08	TCGA-EL-A3CV-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1753e9c-29d0-4955-89d2-949cdabd1211	48b6e8f8-3784-4f66-892f-5c294e06c306	g.chr6:29760353_29760373delGCGGGCGCCGTGGATGGAGCA	uc003nns.2	-	1		c.478_498delTGCTCCATCCACGGCGCCCGC			uc010jrm.1_In_Frame_Del_p.AGAVDGA111del|uc003nnt.2_In_Frame_Del_p.RAPWMEQ147del|uc011dma.1_5'Flank	NR_002139				Homo sapiens clone HCG IV.9 unknown mRNA.												0						GGATGGAGCCGCGGGCGCCGTGGATGGAGCAGGAGGGGCCG	0.674													5	10	---	---	---	---					
PODXL	5420	broad.mit.edu	37	7	131241029	131241030	+	In_Frame_Ins	INS	-	GGCGAC	GGCGAC	rs148320201	by1000genomes	TCGA-EL-A3CV-01A-11D-A19J-08	TCGA-EL-A3CV-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1753e9c-29d0-4955-89d2-949cdabd1211	48b6e8f8-3784-4f66-892f-5c294e06c306	g.chr7:131241029_131241030insGGCGAC	uc003vqw.3	-	1	347_348	c.89_90insGTCGCC	c.(88-90)CCC>CCGTCGCCC	p.30_30P>PSP	PODXL_uc003vqx.3_In_Frame_Ins_p.30_30P>PSP	NM_001018111	NP_001018121	O00592	PODXL_HUMAN	podocalyxin-like isoform 1 precursor	30	Extracellular (Potential).				cell adhesion|epithelial tube formation|negative regulation of cell-cell adhesion|positive regulation of cell migration|positive regulation of cell-cell adhesion mediated by integrin|regulation of microvillus assembly	actin cytoskeleton|apical plasma membrane|centrosome|filopodium|integral to plasma membrane|lamellipodium|membrane raft|microvillus membrane|nucleolus|ruffle				breast(2)|pancreas(1)	3	Melanoma(18;0.162)					CATTCTGGGAGggcgacggcga	0.574													4	6	---	---	---	---					
Unknown	0	broad.mit.edu	37	9	18927886	18927887	+	IGR	DEL	CT	-	-	rs3839881		TCGA-EL-A3CV-01A-11D-A19J-08	TCGA-EL-A3CV-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	b1753e9c-29d0-4955-89d2-949cdabd1211	48b6e8f8-3784-4f66-892f-5c294e06c306	g.chr9:18927886_18927887delCT								ADAMTSL1 (16941 upstream) : FAM154A (6 downstream)																							GTCATTTTCCCTGAGTCAAGTG	0.381													4	3	---	---	---	---					
