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
TRIM46	80128	broad.mit.edu	37	1	155156425	155156425	+	Missense_Mutation	SNP	C	T	T			TCGA-EM-A22N-01A-11D-A17V-08	TCGA-EM-A22N-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc054c7d-24bf-41f8-a070-7efc83a268dd	34edeffa-fb00-404d-ae19-6e7bf8de9fa2	g.chr1:155156425C>T	uc001fhs.1	+	10	2122	c.2039C>T	c.(2038-2040)ACA>ATA	p.T680I	RAG1AP1_uc010pey.1_Intron|TRIM46_uc001fht.1_RNA|TRIM46_uc010pfa.1_Missense_Mutation_p.T554I|TRIM46_uc001fhu.1_Missense_Mutation_p.T657I|TRIM46_uc001fhw.1_RNA	NM_025058	NP_079334	Q7Z4K8	TRI46_HUMAN	tripartite motif-containing 46	680	B30.2/SPRY.					intracellular	zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3	all_epithelial(22;5.72e-28)|all_lung(78;2.07e-24)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		Epithelial(20;6.62e-10)|all cancers(21;2.68e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)			GATGGCCCCACAGCCGGCTGC	0.657000													14	41	---	---	---		0	0	0.016723	0	0
OR5AK2	390181	broad.mit.edu	37	11	56756448	56756449	+	Missense_Mutation	DNP	GC	TT	TT			TCGA-EM-A22N-01A-11D-A17V-08	TCGA-EM-A22N-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc054c7d-24bf-41f8-a070-7efc83a268dd	34edeffa-fb00-404d-ae19-6e7bf8de9fa2	g.chr11:56756448_56756449GC>TT	uc010rjp.1	+	1	60_61	c.60_61GC>TT	c.(58-63)CAGCAT>CATTAT	p.20_21QH>HY		NM_001005323	NP_001005323	Q8NH90	O5AK2_HUMAN	olfactory receptor, family 5, subfamily AK,	20_21	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)	3						TTGGTGCCCAGCATGAGTTTTG	0.411000													12	77	---	---	---		0	0	0.004672	0	0
FAM60A	58516	broad.mit.edu	37	12	31440669	31440669	+	Silent	SNP	A	C	C			TCGA-EM-A22N-01A-11D-A17V-08	TCGA-EM-A22N-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc054c7d-24bf-41f8-a070-7efc83a268dd	34edeffa-fb00-404d-ae19-6e7bf8de9fa2	g.chr12:31440669A>C	uc010sjz.1	-	5	644	c.405T>G	c.(403-405)CCT>CCG	p.P135P	FAM60A_uc001rkd.2_Silent_p.P135P|FAM60A_uc010ska.1_Silent_p.P135P|FAM60A_uc001rke.2_Silent_p.P135P|FAM60A_uc010skb.1_RNA|FAM60A_uc001rkc.2_Silent_p.P160P	NM_021238	NP_067061	Q9NP50	FA60A_HUMAN	family with sequence similarity 60, member A	135											0	all_cancers(9;5.22e-13)|all_epithelial(9;4e-13)|all_lung(12;1.2e-11)|Lung NSC(12;2.17e-09)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0207)|Lung SC(12;0.0592)|Esophageal squamous(101;0.162)					TACTGTAACAAGGAGATTGAG	0.378000													6	37	---	---	---		0	0	0.001984	0	0
SH2B3	10019	broad.mit.edu	37	12	111885971	111885971	+	Silent	SNP	G	T	T	rs143956445		TCGA-EM-A22N-01A-11D-A17V-08	TCGA-EM-A22N-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc054c7d-24bf-41f8-a070-7efc83a268dd	34edeffa-fb00-404d-ae19-6e7bf8de9fa2	g.chr12:111885971G>T	uc001tse.2	+	8	1950	c.1593G>T	c.(1591-1593)TCG>TCT	p.S531S	SH2B3_uc010syf.1_Silent_p.S531S|SH2B3_uc001tsf.2_Silent_p.S532S|SH2B3_uc010syg.1_Silent_p.S329S	NM_005475	NP_005466	Q9UQQ2	SH2B3_HUMAN	SH2B adaptor protein 3	531					blood coagulation	cytosol	signal transducer activity			ovary(1)	1						TGGTGCCTTCGCCCGAAGAAC	0.637000													4	70	---	---	---		1.23904e-05	2.83209e-05	0.014758	1	0
WASH3P	374666	broad.mit.edu	37	15	102515299	102515299	+	Missense_Mutation	SNP	G	A	A			TCGA-EM-A22N-01A-11D-A17V-08	TCGA-EM-A22N-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc054c7d-24bf-41f8-a070-7efc83a268dd	34edeffa-fb00-404d-ae19-6e7bf8de9fa2	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	0.652000													3	15	---	---	---		0	0	0.004672	0	0
SLC38A7	55238	broad.mit.edu	37	16	58701385	58701385	+	Missense_Mutation	SNP	C	A	A			TCGA-EM-A22N-01A-11D-A17V-08	TCGA-EM-A22N-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc054c7d-24bf-41f8-a070-7efc83a268dd	34edeffa-fb00-404d-ae19-6e7bf8de9fa2	g.chr16:58701385C>A	uc002eod.1	-	12	1686	c.1293G>T	c.(1291-1293)TGG>TGT	p.W431C	SLC38A7_uc002eob.1_RNA|SLC38A7_uc002eoc.1_Missense_Mutation_p.G297V|SLC38A7_uc010vil.1_Missense_Mutation_p.W342C	NM_018231	NP_060701	Q9NVC3	S38A7_HUMAN	solute carrier family 38, member 7	431	Helical; (Potential).				amino acid transport|sodium ion transport	integral to membrane				ovary(1)	1						TGACCAGCACCCACCAGCTGT	0.498000													10	39	---	---	---		2.17888e-05	4.64827e-05	0.006214	1	0
FLII	2314	broad.mit.edu	37	17	18149649	18149649	+	Missense_Mutation	SNP	C	T	T			TCGA-EM-A22N-01A-11D-A17V-08	TCGA-EM-A22N-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc054c7d-24bf-41f8-a070-7efc83a268dd	34edeffa-fb00-404d-ae19-6e7bf8de9fa2	g.chr17:18149649C>T	uc002gsr.1	-	24	3230	c.3179G>A	c.(3178-3180)CGC>CAC	p.R1060H	FLII_uc002gsq.1_Missense_Mutation_p.R931H|FLII_uc010cpy.1_Missense_Mutation_p.R1049H|FLII_uc010vxn.1_Missense_Mutation_p.R1029H|FLII_uc010vxo.1_Missense_Mutation_p.R1005H	NM_002018	NP_002009	Q13045	FLII_HUMAN	flightless I homolog	1060					multicellular organismal development|muscle contraction|regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|nucleus	actin binding			central_nervous_system(1)|skin(1)	2	all_neural(463;0.228)					GCCGTTGGTGCGGATCTGGTA	0.642000													4	66	---	---	---		0	0	0.009096	0	0
CACNA1A	773	broad.mit.edu	37	19	13476148	13476148	+	Missense_Mutation	SNP	C	T	T			TCGA-EM-A22N-01A-11D-A17V-08	TCGA-EM-A22N-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc054c7d-24bf-41f8-a070-7efc83a268dd	34edeffa-fb00-404d-ae19-6e7bf8de9fa2	g.chr19:13476148C>T	uc010dze.2	-	5	1003	c.767G>A	c.(766-768)TGC>TAC	p.C256Y	CACNA1A_uc002mwy.3_Missense_Mutation_p.C256Y	NM_001127221	NP_001120693	O00555	CAC1A_HUMAN	calcium channel, alpha 1A subunit isoform 3	256	I.|Extracellular (Potential).				cell death|elevation of cytosolic calcium ion concentration|energy reserve metabolic process|membrane depolarization|regulation of insulin secretion	cytoplasm|nucleus	syntaxin binding			large_intestine(2)	2			OV - Ovarian serous cystadenocarcinoma(19;5.07e-21)		Bepridil(DB01244)|Cinnarizine(DB00568)|Loperamide(DB00836)|Nisoldipine(DB00401)|Pregabalin(DB00230)	CTCTTCAAAGCAGGTGGTATG	0.453000													19	75	---	---	---		0	0	0.010504	0	0
C20orf191	149934	broad.mit.edu	37	20	26084295	26084295	+	Missense_Mutation	SNP	C	T	T	rs76611503	by1000genomes	TCGA-EM-A22N-01A-11D-A17V-08	TCGA-EM-A22N-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc054c7d-24bf-41f8-a070-7efc83a268dd	34edeffa-fb00-404d-ae19-6e7bf8de9fa2	g.chr20:26084295C>T	uc002wvj.3	-	2	176	c.121G>A	c.(121-123)GGA>AGA	p.G41R		NR_003678				SubName: Full=Putative uncharacterized protein ENSP00000323172;												0						TGTTTGCCTCCAAATGCTGGA	0.373000													3	41	---	---	---		0	0	0.009096	0	0
KIF2A	3796	broad.mit.edu	37	5	61643970	61643970	+	Silent	SNP	A	T	T			TCGA-EM-A22N-01A-11D-A17V-08	TCGA-EM-A22N-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc054c7d-24bf-41f8-a070-7efc83a268dd	34edeffa-fb00-404d-ae19-6e7bf8de9fa2	g.chr5:61643970A>T	uc003jsy.3	+	3	566	c.255A>T	c.(253-255)TCA>TCT	p.S85S	KIF2A_uc003jsz.3_Silent_p.S85S|KIF2A_uc010iwp.2_Silent_p.S85S|KIF2A_uc003jsx.3_Silent_p.S65S|KIF2A_uc010iwq.2_5'UTR	NM_004520	NP_004511	O00139	KIF2A_HUMAN	kinesin heavy chain member 2 isoform 1	85	Globular (Potential).				blood coagulation|cell differentiation|cell division|microtubule-based movement|mitotic prometaphase|mitotic spindle organization|nervous system development	centrosome|cytosol|microtubule|spindle pole	ATP binding|microtubule motor activity|protein binding				0		Lung NSC(810;8.94e-06)|Prostate(74;0.0132)|Ovarian(174;0.051)|Breast(144;0.077)		Lung(70;0.14)		CAGCATCCTCAGCCAAAGTAA	0.438000													7	106	---	---	---		0	0	0.001984	0	0
LOC442421	442421	broad.mit.edu	37	9	66499795	66499795	+	Missense_Mutation	SNP	G	A	A			TCGA-EM-A22N-01A-11D-A17V-08	TCGA-EM-A22N-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc054c7d-24bf-41f8-a070-7efc83a268dd	34edeffa-fb00-404d-ae19-6e7bf8de9fa2	g.chr9:66499795G>A	uc004aee.1	+	1	605	c.605G>A	c.(604-606)CGC>CAC	p.R202H	LOC442421_uc004aed.1_RNA					Homo sapiens hypothetical LOC442421, mRNA (cDNA clone IMAGE:40031134).												0						TGCAAGTCGCGCAAGGAGCAG	0.592000													4	44	---	---	---		0	0	0.021553	0	0
LOC442421	442421	broad.mit.edu	37	9	66500810	66500810	+	RNA	SNP	G	A	A	rs142815546	by1000genomes	TCGA-EM-A22N-01A-11D-A17V-08	TCGA-EM-A22N-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc054c7d-24bf-41f8-a070-7efc83a268dd	34edeffa-fb00-404d-ae19-6e7bf8de9fa2	g.chr9:66500810G>A	uc004aed.1	+	3		c.903G>A								Homo sapiens similar to prostaglandin E receptor 4, subtype EP4; PGE receptor, EP4 subtype; prostaglandin E2 receptor, mRNA (cDNA clone IMAGE:5288780).												0						ACCTACGGTCGGTTGTGTGCA	0.637000													5	21	---	---	---		0	0	0.014758	0	0
C9orf95	54981	broad.mit.edu	37	9	77692099	77692099	+	Missense_Mutation	SNP	T	C	C			TCGA-EM-A22N-01A-11D-A17V-08	TCGA-EM-A22N-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc054c7d-24bf-41f8-a070-7efc83a268dd	34edeffa-fb00-404d-ae19-6e7bf8de9fa2	g.chr9:77692099T>C	uc004aju.2	-	4	743	c.145A>G	c.(145-147)AAA>GAA	p.K49E	C9orf95_uc004ajs.3_Missense_Mutation_p.K53E|C9orf95_uc004ajr.3_Missense_Mutation_p.K49E|C9orf95_uc004ajt.3_Missense_Mutation_p.K49E	NM_017881	NP_060351	Q9NWW6	NRK1_HUMAN	nicotinamide riboside kinase 1 isoform 1	49					pyridine nucleotide biosynthetic process		ATP binding|metal ion binding|ribosylnicotinamide kinase activity				0						AATCCATTTTTATCTGTCTCT	0.303000													6	112	---	---	---		0	0	0.001984	0	0
Unknown	0	broad.mit.edu	37	1	143391923	143391924	+	IGR	DEL	AT	-	-			TCGA-EM-A22N-01A-11D-A17V-08	TCGA-EM-A22N-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc054c7d-24bf-41f8-a070-7efc83a268dd	34edeffa-fb00-404d-ae19-6e7bf8de9fa2	g.chr1:143391923_143391924delAT								None (None upstream) : LOC100286793 (255715 downstream)																							TATTTTGGAGATATATATATAT	0.262													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	10	135455131	135455131	+	IGR	DEL	C	-	-			TCGA-EM-A22N-01A-11D-A17V-08	TCGA-EM-A22N-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc054c7d-24bf-41f8-a070-7efc83a268dd	34edeffa-fb00-404d-ae19-6e7bf8de9fa2	g.chr10:135455131delC								FRG2B (14832 upstream) : LOC653544 (35148 downstream)																							TACAAAAAAACGATGAGGAAA	0.343													3	6	---	---	---	---					
EMG1	10436	broad.mit.edu	37	12	7080212	7080213	+	Splice_Site	INS	-	C	C	rs17857448		TCGA-EM-A22N-01A-11D-A17V-08	TCGA-EM-A22N-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc054c7d-24bf-41f8-a070-7efc83a268dd	34edeffa-fb00-404d-ae19-6e7bf8de9fa2	g.chr12:7080212_7080213insC	uc001qsh.3	+	2	272	c.129_splice	c.e2+1	p.L43_splice	PHB2_uc001qsd.2_5'Flank|PHB2_uc010sft.1_5'Flank|PHB2_uc010sfu.1_5'Flank|EMG1_uc009zfo.2_RNA|EMG1_uc010sfv.1_RNA	NM_006331	NP_006322	Q92979	NEP1_HUMAN	ribosome biogenesis protein NEP1						ribosomal small subunit biogenesis	cytoplasm|nucleolus	rRNA (pseudouridine) methyltransferase activity|rRNA binding				0						GAGGCCGTAGTTTATTGTGGTG	0.569													5	10	---	---	---	---					
Unknown	0	broad.mit.edu	37	14	90832990	90832997	+	IGR	DEL	TTTTTTTG	-	-	rs57072639		TCGA-EM-A22N-01A-11D-A17V-08	TCGA-EM-A22N-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc054c7d-24bf-41f8-a070-7efc83a268dd	34edeffa-fb00-404d-ae19-6e7bf8de9fa2	g.chr14:90832990_90832997delTTTTTTTG								C14orf102 (34711 upstream) : CALM1 (30376 downstream)																							tttttttttttttttttGTAGCCCAGAG	0.337													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	18	15198505	15198508	+	IGR	DEL	TTTG	-	-			TCGA-EM-A22N-01A-11D-A17V-08	TCGA-EM-A22N-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc054c7d-24bf-41f8-a070-7efc83a268dd	34edeffa-fb00-404d-ae19-6e7bf8de9fa2	g.chr18:15198505_15198508delTTTG								ANKRD30B (345768 upstream) : LOC644669 (115047 downstream)																							CACATTCTGATTTGTTTTTTGTAT	0.358													3	6	---	---	---	---					
Unknown	0	broad.mit.edu	37	19	21749277	21749278	+	IGR	DEL	TC	-	-			TCGA-EM-A22N-01A-11D-A17V-08	TCGA-EM-A22N-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc054c7d-24bf-41f8-a070-7efc83a268dd	34edeffa-fb00-404d-ae19-6e7bf8de9fa2	g.chr19:21749277_21749278delTC								ZNF429 (10209 upstream) : ZNF100 (157566 downstream)																							AGAAATTATTTCTGTTTTCCCC	0.401													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	21	34213736	34213737	+	IGR	INS	-	T	T			TCGA-EM-A22N-01A-11D-A17V-08	TCGA-EM-A22N-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc054c7d-24bf-41f8-a070-7efc83a268dd	34edeffa-fb00-404d-ae19-6e7bf8de9fa2	g.chr21:34213736_34213737insT								C21orf62 (27683 upstream) : OLIG2 (184502 downstream)																							atttcttCCTCTTTTTTTTTTG	0.257													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	6	10366059	10366059	+	IGR	DEL	T	-	-			TCGA-EM-A22N-01A-11D-A17V-08	TCGA-EM-A22N-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	cc054c7d-24bf-41f8-a070-7efc83a268dd	34edeffa-fb00-404d-ae19-6e7bf8de9fa2	g.chr6:10366059delT								None (None upstream) : TFAP2A (30858 downstream)																							AAACTTCACATTTGGAAATCC	0.433													2	4	---	---	---	---					
