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
OR56A1	120796	broad.mit.edu	37	11	6048549	6048549	+	Missense_Mutation	SNP	C	T	T			TCGA-ET-A3BN-01A-11D-A19J-08	TCGA-ET-A3BN-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	67c66136-9911-40da-a760-b6bc24de8e5e	d652b345-76f2-4f08-bc75-ced94e1c9491	g.chr11:6048549C>T	uc010qzw.1	-	1	386	c.386G>A	c.(385-387)CGT>CAT	p.R129H		NM_001001917	NP_001001917	Q8NGH5	O56A1_HUMAN	olfactory receptor, family 56, subfamily A,	129	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|breast(1)	3		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;7.01e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GGCCACATAACGGTCATAGGC	0.507													28	40	---	---	---	---	0	0	1	0	0
PITPNM2	57605	broad.mit.edu	37	12	123472877	123472877	+	Silent	SNP	G	A	A			TCGA-ET-A3BN-01A-11D-A19J-08	TCGA-ET-A3BN-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	67c66136-9911-40da-a760-b6bc24de8e5e	d652b345-76f2-4f08-bc75-ced94e1c9491	g.chr12:123472877G>A	uc001uej.1	-	19	3040	c.2901C>T	c.(2899-2901)TCC>TCT	p.S967S	PITPNM2_uc001uek.1_Silent_p.S961S	NM_020845	NP_065896	Q9BZ72	PITM2_HUMAN	phosphatidylinositol transfer protein,	967					metabolic process|transport	endomembrane system|integral to membrane|intracellular membrane-bounded organelle	calcium ion binding|lipid binding			ovary(1)|central_nervous_system(1)|skin(1)	3	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.55e-05)|Epithelial(86;8.43e-05)|BRCA - Breast invasive adenocarcinoma(302;0.123)		CCAAGATGCTGGAGTTGTCAT	0.632													10	146	---	---	---	---	0	0	1	0	0
NFATC4	4776	broad.mit.edu	37	14	24839190	24839190	+	Missense_Mutation	SNP	G	A	A			TCGA-ET-A3BN-01A-11D-A19J-08	TCGA-ET-A3BN-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	67c66136-9911-40da-a760-b6bc24de8e5e	d652b345-76f2-4f08-bc75-ced94e1c9491	g.chr14:24839190G>A	uc001wpc.2	+	2	907	c.586G>A	c.(586-588)GAC>AAC	p.D196N	NFATC4_uc010tok.1_Missense_Mutation_p.D259N|NFATC4_uc010tol.1_Missense_Mutation_p.D259N|NFATC4_uc010alr.2_Missense_Mutation_p.D259N|NFATC4_uc010als.2_Missense_Mutation_p.D209N|NFATC4_uc010tom.1_Missense_Mutation_p.D209N|NFATC4_uc010ton.1_Missense_Mutation_p.D209N|NFATC4_uc010too.1_Missense_Mutation_p.D209N|NFATC4_uc010alt.2_Missense_Mutation_p.D228N|NFATC4_uc010top.1_Missense_Mutation_p.D228N|NFATC4_uc010toq.1_Missense_Mutation_p.D228N|NFATC4_uc010alu.2_Intron|NFATC4_uc010tor.1_Missense_Mutation_p.D196N|NFATC4_uc010tos.1_Missense_Mutation_p.D126N|NFATC4_uc010tot.1_Missense_Mutation_p.D184N|NFATC4_uc010tou.1_Missense_Mutation_p.D126N|NFATC4_uc010tov.1_Missense_Mutation_p.D184N|NFATC4_uc010tow.1_Missense_Mutation_p.D126N|NFATC4_uc010alv.2_Missense_Mutation_p.D184N|NFATC4_uc010tox.1_Missense_Mutation_p.D126N|NFATC4_uc001wpd.2_5'Flank|NFATC4_uc010toy.1_5'Flank|NFATC4_uc010toz.1_5'Flank	NM_004554	NP_004545	Q14934	NFAC4_HUMAN	nuclear factor of activated T-cells,	196	Pro-rich.				cell differentiation|inflammatory response|transcription from RNA polymerase II promoter	cytoplasm|intermediate filament cytoskeleton|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(265;0.018)		TGCAGCCTGCGACGAGGTGGA	0.682													3	32	---	---	---	---	0	0	1	0	0
WASH3P	374666	broad.mit.edu	37	15	102515299	102515299	+	Missense_Mutation	SNP	G	A	A			TCGA-ET-A3BN-01A-11D-A19J-08	TCGA-ET-A3BN-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	67c66136-9911-40da-a760-b6bc24de8e5e	d652b345-76f2-4f08-bc75-ced94e1c9491	g.chr15:102515299G>A	uc002cdi.2	+	9	1943	c.523G>A	c.(523-525)GGC>AGC	p.G175S	WASH3P_uc002cdl.2_Missense_Mutation_p.G175S|WASH3P_uc002cdk.2_RNA|WASH3P_uc002cdp.2_Missense_Mutation_p.G175S|WASH3P_uc010bpo.2_RNA|WASH3P_uc002cdq.2_RNA|WASH3P_uc002cdr.2_RNA	NR_003659				RecName: Full=WAS protein family homolog 2; AltName: Full=Protein FAM39B; AltName: Full=CXYorf1-like protein on chromosome 2;												0						TGGGGGCATCGGCAAGGCCAA	0.652													4	24	---	---	---	---	0	0	1	0	0
BRCA1	672	broad.mit.edu	37	17	41246314	41246314	+	Missense_Mutation	SNP	C	T	T			TCGA-ET-A3BN-01A-11D-A19J-08	TCGA-ET-A3BN-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	67c66136-9911-40da-a760-b6bc24de8e5e	d652b345-76f2-4f08-bc75-ced94e1c9491	g.chr17:41246314C>T	uc002icq.2	-	10	1466	c.1234G>A	c.(1234-1236)GTA>ATA	p.V412I	BRCA1_uc010whp.1_Intron|BRCA1_uc010whl.1_Intron|BRCA1_uc010whm.1_Intron|BRCA1_uc002icp.3_Missense_Mutation_p.V341I|BRCA1_uc002icu.2_Intron|BRCA1_uc010cyx.2_Missense_Mutation_p.V365I|BRCA1_uc002ict.2_Missense_Mutation_p.V412I|BRCA1_uc010whn.1_Intron|BRCA1_uc010who.1_Intron|BRCA1_uc010whq.1_Intron|BRCA1_uc002idc.1_Intron|BRCA1_uc010whr.1_Intron|BRCA1_uc002idd.2_Missense_Mutation_p.V412I|BRCA1_uc002ide.1_Missense_Mutation_p.V243I|BRCA1_uc010cyy.1_Missense_Mutation_p.V412I|BRCA1_uc010whs.1_Missense_Mutation_p.V412I|BRCA1_uc010cyz.2_Missense_Mutation_p.V365I|BRCA1_uc010cza.2_Missense_Mutation_p.V386I|BRCA1_uc010wht.1_Missense_Mutation_p.V116I	NM_007294	NP_009225	P38398	BRCA1_HUMAN	breast cancer 1, early onset isoform 1	412					androgen receptor signaling pathway|apoptosis|cellular response to indole-3-methanol|chromosome segregation|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|DNA damage response, signal transduction resulting in induction of apoptosis|double-strand break repair via homologous recombination|fatty acid biosynthetic process|G2/M transition DNA damage checkpoint|negative regulation of centriole replication|negative regulation of fatty acid biosynthetic process|negative regulation of histone H3-K9 methylation|negative regulation of transcription, DNA-dependent|positive regulation of cell cycle arrest|positive regulation of DNA repair|positive regulation of histone acetylation|positive regulation of histone H3-K4 methylation|positive regulation of histone H4-K20 methylation|positive regulation of protein ubiquitination|positive regulation of transcription from RNA polymerase II promoter|postreplication repair|protein autoubiquitination|protein K6-linked ubiquitination|regulation of cell motility|regulation of cell proliferation|regulation of transcription from RNA polymerase III promoter|response to estrogen stimulus|response to ionizing radiation|substrate adhesion-dependent cell spreading	BRCA1-A complex|BRCA1-BARD1 complex|gamma-tubulin ring complex|nucleoplasm|plasma membrane|ribonucleoprotein complex|ruffle	androgen receptor binding|identical protein binding|protein binding|RNA binding|transcription coactivator activity|transcription regulatory region DNA binding|tubulin binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(24)|breast(21)|lung(4)|central_nervous_system(1)|endometrium(1)|urinary_tract(1)	52		Breast(137;0.000717)		BRCA - Breast invasive adenocarcinoma(366;0.126)		ACGTCCAATACATCAGCTACT	0.383			D|Mis|N|F|S		ovarian	breast|ovarian		Homologous_recombination	Hereditary_Breast-Ovarian_Cancer_BRCA1_type	TCGA Ovarian(2;0.000030)			9	114	---	---	---	---	0	0	1	0	0
NAPSA	9476	broad.mit.edu	37	19	50864374	50864374	+	Silent	SNP	T	G	G			TCGA-ET-A3BN-01A-11D-A19J-08	TCGA-ET-A3BN-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	67c66136-9911-40da-a760-b6bc24de8e5e	d652b345-76f2-4f08-bc75-ced94e1c9491	g.chr19:50864374T>G	uc002prx.2	-	5	545	c.492A>C	c.(490-492)TCA>TCC	p.S164S	NR1H2_uc002prv.3_Intron	NM_004851	NP_004842	O96009	NAPSA_HUMAN	napsin A preproprotein	164					proteolysis	extracellular region	aspartic-type endopeptidase activity				0		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00743)|GBM - Glioblastoma multiforme(134;0.0183)		CGAAAATCACTGATGCACCCT	0.507													5	90	---	---	---	---	0	0	1	0	0
GALNT14	79623	broad.mit.edu	37	2	31147110	31147110	+	Missense_Mutation	SNP	T	A	A			TCGA-ET-A3BN-01A-11D-A19J-08	TCGA-ET-A3BN-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	67c66136-9911-40da-a760-b6bc24de8e5e	d652b345-76f2-4f08-bc75-ced94e1c9491	g.chr2:31147110T>A	uc002rnr.2	-	13	1874	c.1255A>T	c.(1255-1257)ATC>TTC	p.I419F	GALNT14_uc002rnq.2_Missense_Mutation_p.I399F|GALNT14_uc002rns.2_Missense_Mutation_p.I424F|GALNT14_uc010ymr.1_Missense_Mutation_p.I384F|GALNT14_uc010ezo.1_Missense_Mutation_p.I386F	NM_024572	NP_078848	Q96FL9	GLT14_HUMAN	N-acetylgalactosaminyltransferase 14	419	Lumenal (Potential).|Ricin B-type lectin.					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			upper_aerodigestive_tract(2)|skin(1)	3	Acute lymphoblastic leukemia(172;0.155)					CCCTTCTGGATGGAGGACTCC	0.537													28	79	---	---	---	---	0	0	1	0	0
WASH2P	375260	broad.mit.edu	37	2	114356042	114356042	+	Missense_Mutation	SNP	G	C	C			TCGA-ET-A3BN-01A-11D-A19J-08	TCGA-ET-A3BN-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	67c66136-9911-40da-a760-b6bc24de8e5e	d652b345-76f2-4f08-bc75-ced94e1c9491	g.chr2:114356042G>C	uc002tkh.2	+	5	718	c.660G>C	c.(658-660)AAG>AAC	p.K220N	WASH2P_uc002tka.2_RNA|WASH2P_uc002tkb.2_RNA|WASH2P_uc002tkd.2_RNA	NM_182905	NP_878908			WAS protein family homolog 1												0						TGAGGCGCAAGGGTAGGAGGC	0.582													3	7	---	---	---	---	0	0	1	0	0
USP49	25862	broad.mit.edu	37	6	41773536	41773536	+	Missense_Mutation	SNP	C	T	T			TCGA-ET-A3BN-01A-11D-A19J-08	TCGA-ET-A3BN-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	67c66136-9911-40da-a760-b6bc24de8e5e	d652b345-76f2-4f08-bc75-ced94e1c9491	g.chr6:41773536C>T	uc003ori.2	-	4	1408	c.1186G>A	c.(1186-1188)GAC>AAC	p.D396N		NM_018561	NP_061031	Q70CQ1	UBP49_HUMAN	ubiquitin thioesterase 49	396					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Ovarian(28;0.0919)|Colorectal(47;0.121)		STAD - Stomach adenocarcinoma(11;0.000204)|Epithelial(12;0.000309)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			TCCTGTTGGTCGTAGCCGCGG	0.622													6	36	---	---	---	---	0	0	1	0	0
PIR	8544	broad.mit.edu	37	X	15509287	15509287	+	Missense_Mutation	SNP	C	T	T			TCGA-ET-A3BN-01A-11D-A19J-08	TCGA-ET-A3BN-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	67c66136-9911-40da-a760-b6bc24de8e5e	d652b345-76f2-4f08-bc75-ced94e1c9491	g.chrX:15509287C>T	uc004cwu.2	-	2	332	c.94G>A	c.(94-96)GAG>AAG	p.E32K	PIR_uc004cwv.2_Missense_Mutation_p.E32K|BMX_uc004cww.2_Intron	NM_003662	NP_003653	O00625	PIR_HUMAN	pirin	32					transcription from RNA polymerase II promoter	cytoplasm|nucleus	metal ion binding|protein binding|quercetin 2,3-dioxygenase activity|transcription cofactor activity			ovary(1)	1	Hepatocellular(33;0.183)					TAGCATACCTCGGGTCTGCCA	0.552													11	136	---	---	---	---	0	0	1	0	0
SF3A3	10946	broad.mit.edu	37	1	38444416	38444416	+	Frame_Shift_Del	DEL	T	-	-			TCGA-ET-A3BN-01A-11D-A19J-08	TCGA-ET-A3BN-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	67c66136-9911-40da-a760-b6bc24de8e5e	d652b345-76f2-4f08-bc75-ced94e1c9491	g.chr1:38444416delT	uc001cci.2	-	11	1035	c.911delA	c.(910-912)AATfs	p.N304fs	SF3A3_uc010oik.1_Frame_Shift_Del_p.N251fs	NM_006802	NP_006793	Q12874	SF3A3_HUMAN	splicing factor 3a, subunit 3	304					nuclear mRNA 3'-splice site recognition	catalytic step 2 spliceosome|nuclear speck	nucleic acid binding|protein binding|zinc ion binding				0	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				TGACTTGGGATTTTTGGCAAA	0.488													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	15	84946769	84946771	+	RNA	DEL	AGG	-	-			TCGA-ET-A3BN-01A-11D-A19J-08	TCGA-ET-A3BN-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	67c66136-9911-40da-a760-b6bc24de8e5e	d652b345-76f2-4f08-bc75-ced94e1c9491	g.chr15:84946769_84946771delAGG	uc002bke.1	-	1		c.447_449delCCT								Homo sapiens cDNA FLJ34196 fis, clone FCBBF3019437.																		AACAGGAGACAGGAGGAGAGGCT	0.571													4	3	---	---	---	---					
Unknown	0	broad.mit.edu	37	6	82053364	82053364	+	IGR	DEL	C	-	-			TCGA-ET-A3BN-01A-11D-A19J-08	TCGA-ET-A3BN-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	67c66136-9911-40da-a760-b6bc24de8e5e	d652b345-76f2-4f08-bc75-ced94e1c9491	g.chr6:82053364delC								BCKDHB (997377 upstream) : FAM46A (402084 downstream)																							tcaaatggagccccagatgca	0.000													2	4	---	---	---	---					
ATP6V1B2	526	broad.mit.edu	37	8	20077879	20077880	+	In_Frame_Ins	INS	-	CGAATTTTA	CGAATTTTA			TCGA-ET-A3BN-01A-11D-A19J-08	TCGA-ET-A3BN-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	67c66136-9911-40da-a760-b6bc24de8e5e	d652b345-76f2-4f08-bc75-ced94e1c9491	g.chr8:20077879_20077880insCGAATTTTA	uc003wzp.2	+	14	1716_1717	c.1502_1503insCGAATTTTA	c.(1501-1503)AGC>AGCGAATTTTAC	p.504_505insEFY	ATP6V1B2_uc003wzq.1_RNA	NM_001693	NP_001684	P21281	VATB2_HUMAN	vacuolar H+ATPase B2	504_505					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytosol|endomembrane system|Golgi apparatus|melanosome|plasma membrane|proton-transporting V-type ATPase, V1 domain	ATP binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism				0				Colorectal(74;0.0535)|COAD - Colon adenocarcinoma(73;0.211)		AGCACCCTCAGCGAATTTTACC	0.465													11	91	---	---	---	---					
Unknown	0	broad.mit.edu	37	X	152871884	152871904	+	IGR	DEL	GTAAAGGGATTTTGTTCACCA	-	-	rs139494223		TCGA-ET-A3BN-01A-11D-A19J-08	TCGA-ET-A3BN-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	67c66136-9911-40da-a760-b6bc24de8e5e	d652b345-76f2-4f08-bc75-ced94e1c9491	g.chrX:152871884_152871904delGTAAAGGGATTTTGTTCACCA								FAM58A (7252 upstream) : DUSP9 (35993 downstream)																							ttaaaattaggtaaagggatttTGTTCACCAGTAAAGGGAT	0.271													3	3	---	---	---	---					
