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
USP48	84196	broad.mit.edu	37	1	22033083	22033083	+	Splice_Site	SNP	C	G	G			TCGA-EM-A22P-01A-11D-A19J-08	TCGA-EM-A22P-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	22a4f3dc-258f-4c03-965a-c82d3eb24a1d	10806bd5-17f1-4c9d-88c5-b9be87731c0a	g.chr1:22033083C>G	uc001bfb.2	-	17	2327	c.2089_splice	c.e17-1	p.I697_splice	USP48_uc001bfa.2_Splice_Site_p.I235_splice|USP48_uc010odq.1_Splice_Site_p.I709_splice|USP48_uc009vqc.2_Splice_Site_p.I631_splice|USP48_uc001bfc.2_Splice_Site_p.I697_splice|USP48_uc001bfd.1_5'Flank	NM_032236	NP_115612	Q86UV5	UBP48_HUMAN	ubiquitin specific protease 48 isoform a						ubiquitin-dependent protein catabolic process	mitochondrion|nucleus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(1)|lung(1)	2		Colorectal(325;3.46e-05)|all_lung(284;4.29e-05)|Lung NSC(340;4.66e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|OV - Ovarian serous cystadenocarcinoma(117;4.74e-26)|COAD - Colon adenocarcinoma(152;1.3e-05)|GBM - Glioblastoma multiforme(114;1.86e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000614)|STAD - Stomach adenocarcinoma(196;0.00644)|KIRC - Kidney renal clear cell carcinoma(1967;0.00711)|Lung(427;0.0327)|READ - Rectum adenocarcinoma(331;0.0657)|LUSC - Lung squamous cell carcinoma(448;0.0753)		TTTCTAAAATCTGAAAGAGAA	0.438000													31	76	---	---	---	---	0	0	1	0	0
TIE1	7075	broad.mit.edu	37	1	43770796	43770796	+	Silent	SNP	G	A	A			TCGA-EM-A22P-01A-11D-A19J-08	TCGA-EM-A22P-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	22a4f3dc-258f-4c03-965a-c82d3eb24a1d	10806bd5-17f1-4c9d-88c5-b9be87731c0a	g.chr1:43770796G>A	uc001ciu.2	+	2	412	c.333G>A	c.(331-333)GCG>GCA	p.A111A	TIE1_uc010okd.1_Silent_p.A111A|TIE1_uc010oke.1_Silent_p.A66A|TIE1_uc009vwq.2_Silent_p.A111A|TIE1_uc010okf.1_5'UTR|TIE1_uc010okg.1_5'Flank|TIE1_uc010oka.1_Silent_p.A111A|TIE1_uc010okb.1_Silent_p.A111A|TIE1_uc010okc.1_Silent_p.A111A	NM_005424	NP_005415	P35590	TIE1_HUMAN	tyrosine kinase with immunoglobulin-like and	111	Extracellular (Potential).				mesoderm development	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|stomach(1)|salivary_gland(1)|ovary(1)|skin(1)	7	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				GTGCTGGGGCGCGGCGCACGC	0.697000													8	24	---	---	---	---	0	0	1	0	0
C1orf141	400757	broad.mit.edu	37	1	67592860	67592860	+	Missense_Mutation	SNP	T	C	C			TCGA-EM-A22P-01A-11D-A19J-08	TCGA-EM-A22P-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	22a4f3dc-258f-4c03-965a-c82d3eb24a1d	10806bd5-17f1-4c9d-88c5-b9be87731c0a	g.chr1:67592860T>C	uc001ddl.1	-	2	175	c.64A>G	c.(64-66)AGA>GGA	p.R22G	C1orf141_uc001ddm.1_Missense_Mutation_p.R22G|C1orf141_uc001ddn.1_RNA	NM_001013674	NP_001013696	Q5JVX7	CA141_HUMAN	hypothetical protein LOC400757	22										ovary(1)	1						TTTGTTCTTCTGGCCAAGATT	0.313000													21	84	---	---	---	---	0	0	1	0	0
ABCA4	24	broad.mit.edu	37	1	94512588	94512588	+	Silent	SNP	T	C	C			TCGA-EM-A22P-01A-11D-A19J-08	TCGA-EM-A22P-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	22a4f3dc-258f-4c03-965a-c82d3eb24a1d	10806bd5-17f1-4c9d-88c5-b9be87731c0a	g.chr1:94512588T>C	uc001dqh.2	-	19	2909	c.2805A>G	c.(2803-2805)GTA>GTG	p.V935V	ABCA4_uc010otn.1_Silent_p.V861V	NM_000350	NP_000341	P78363	ABCA4_HUMAN	ATP-binding cassette, sub-family A member 4	935	Cytoplasmic.|ABC transporter 1.		V -> A (in STGD1).		phototransduction, visible light|visual perception	integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)|skin(4)|central_nervous_system(2)|upper_aerodigestive_tract(1)|breast(1)	12		all_lung(203;0.000757)|Lung NSC(277;0.00335)		all cancers(265;0.00432)|GBM - Glioblastoma multiforme(16;0.00715)|Epithelial(280;0.171)		CAAAAATCTTTACCAGATTCT	0.498000													49	175	---	---	---	---	0	0	1	0	0
Unknown	0	broad.mit.edu	37	1	143403554	143403554	+	5'Flank	SNP	T	G	G			TCGA-EM-A22P-01A-11D-A19J-08	TCGA-EM-A22P-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	22a4f3dc-258f-4c03-965a-c82d3eb24a1d	10806bd5-17f1-4c9d-88c5-b9be87731c0a	g.chr1:143403554T>G	uc001ejl.1	-						uc002zkn.1_RNA					DQ587539																		GGAACAGGATTTCTTTGGCCA	0.468000													3	17	---	---	---	---	0	0	1	0	0
LOC728989	728989	broad.mit.edu	37	1	146494537	146494537	+	Silent	SNP	C	T	T			TCGA-EM-A22P-01A-11D-A19J-08	TCGA-EM-A22P-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	22a4f3dc-258f-4c03-965a-c82d3eb24a1d	10806bd5-17f1-4c9d-88c5-b9be87731c0a	g.chr1:146494537C>T	uc001epd.2	-	4	536	c.462G>A	c.(460-462)GCG>GCA	p.A154A		NR_024442				SubName: Full=cDNA FLJ59595, highly similar to Homo sapiens phosphodiesterase 4D interacting protein, transcript variant 1, mRNA;												0						TTGGCAGGGCCGCTCTCCAGA	0.567000													3	32	---	---	---	---	0	0	1	0	0
RALGPS2	55103	broad.mit.edu	37	1	178846740	178846740	+	Missense_Mutation	SNP	A	G	G			TCGA-EM-A22P-01A-11D-A19J-08	TCGA-EM-A22P-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	22a4f3dc-258f-4c03-965a-c82d3eb24a1d	10806bd5-17f1-4c9d-88c5-b9be87731c0a	g.chr1:178846740A>G	uc001glz.2	+	9	1053	c.715A>G	c.(715-717)ATT>GTT	p.I239V	RALGPS2_uc001gly.1_Missense_Mutation_p.I239V|RALGPS2_uc010pnb.1_Missense_Mutation_p.I239V	NM_152663	NP_689876	Q86X27	RGPS2_HUMAN	Ral GEF with PH domain and SH3 binding motif 2	239	Ras-GEF.				small GTPase mediated signal transduction	cytoplasm|plasma membrane	guanyl-nucleotide exchange factor activity|protein binding				0						CCTTCGAATAATTTCTGATTT	0.338000													9	35	---	---	---	---	0	0	1	0	0
ATG2A	23130	broad.mit.edu	37	11	64679415	64679415	+	Missense_Mutation	SNP	G	A	A			TCGA-EM-A22P-01A-11D-A19J-08	TCGA-EM-A22P-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	22a4f3dc-258f-4c03-965a-c82d3eb24a1d	10806bd5-17f1-4c9d-88c5-b9be87731c0a	g.chr11:64679415G>A	uc001obx.2	-	9	1242	c.1127C>T	c.(1126-1128)GCC>GTC	p.A376V		NM_015104	NP_055919	Q2TAZ0	ATG2A_HUMAN	autophagy related 2A	376							protein binding			ovary(1)|central_nervous_system(1)	2						GAGGGCTGAGGCCACACTGCT	0.652000													7	24	---	---	---	---	0	0	1	0	0
Unknown	0	broad.mit.edu	37	12	92000	92000	+	Missense_Mutation	SNP	A	T	T			TCGA-EM-A22P-01A-11D-A19J-08	TCGA-EM-A22P-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	22a4f3dc-258f-4c03-965a-c82d3eb24a1d	10806bd5-17f1-4c9d-88c5-b9be87731c0a	g.chr12:92000A>T	uc010sdi.1	-	2	338	c.310T>A	c.(310-312)TTG>ATG	p.L104M	uc010sdj.1_RNA					SubName: Full=DEAD/H box polypeptide 11 like 11;																		GGTCCTGGCAACACTCTGGAC	0.572000													3	8	---	---	---	---	0	0	1	0	0
TBK1	29110	broad.mit.edu	37	12	64891007	64891007	+	Missense_Mutation	SNP	G	A	A			TCGA-EM-A22P-01A-11D-A19J-08	TCGA-EM-A22P-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	22a4f3dc-258f-4c03-965a-c82d3eb24a1d	10806bd5-17f1-4c9d-88c5-b9be87731c0a	g.chr12:64891007G>A	uc001ssc.1	+	18	1989	c.1927G>A	c.(1927-1929)GAA>AAA	p.E643K		NM_013254	NP_037386	Q9UHD2	TBK1_HUMAN	TANK-binding kinase 1	643	Potential.				I-kappaB kinase/NF-kappaB cascade|innate immune response|interspecies interaction between organisms|MyD88-independent toll-like receptor signaling pathway|negative regulation of type I interferon production|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of transcription from RNA polymerase II promoter|response to virus|Toll signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(2)|ovary(1)|large_intestine(1)|breast(1)	5				GBM - Glioblastoma multiforme(28;0.0386)		TATTGAAGAAGAAGTATCAAA	0.308000													7	113	---	---	---	---	0	0	1	0	0
IL17D	53342	broad.mit.edu	37	13	21296003	21296003	+	Silent	SNP	G	A	A			TCGA-EM-A22P-01A-11D-A19J-08	TCGA-EM-A22P-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	22a4f3dc-258f-4c03-965a-c82d3eb24a1d	10806bd5-17f1-4c9d-88c5-b9be87731c0a	g.chr13:21296003G>A	uc001unm.2	+	3	627	c.519G>A	c.(517-519)CCG>CCA	p.P173P		NM_138284	NP_612141	Q8TAD2	IL17D_HUMAN	interleukin 17D precursor	173					inflammatory response	extracellular space	cytokine activity				0		all_cancers(29;9.63e-24)|all_epithelial(30;1.09e-19)|all_lung(29;2.38e-16)|Lung SC(185;0.0262)|Hepatocellular(188;0.244)		all cancers(112;0.000301)|Epithelial(112;0.000633)|OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Lung(94;0.0154)|LUSC - Lung squamous cell carcinoma(192;0.0414)		TCCCCGAGCCGGAGAAGGACG	0.716000													4	79	---	---	---	---	0	0	1	0	0
RRN3P1	730092	broad.mit.edu	37	16	21817457	21817457	+	Silent	SNP	G	A	A	rs150520281	by1000genomes	TCGA-EM-A22P-01A-11D-A19J-08	TCGA-EM-A22P-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	22a4f3dc-258f-4c03-965a-c82d3eb24a1d	10806bd5-17f1-4c9d-88c5-b9be87731c0a	g.chr16:21817457G>A	uc010vbl.1	-	7	603	c.106C>T	c.(106-108)CTG>TTG	p.L36L	uc002diq.3_Intron	NR_003370				SubName: Full=Putative uncharacterized protein ENSP00000219758;												0						CTTACATCCAGCTTGAGTAGT	0.254000													3	15	---	---	---	---	0	0	1	0	0
AQP4	361	broad.mit.edu	37	18	24445624	24445624	+	Nonsense_Mutation	SNP	C	T	T			TCGA-EM-A22P-01A-11D-A19J-08	TCGA-EM-A22P-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	22a4f3dc-258f-4c03-965a-c82d3eb24a1d	10806bd5-17f1-4c9d-88c5-b9be87731c0a	g.chr18:24445624C>T	uc002kwa.2	-	1	93	c.30G>A	c.(28-30)TGG>TGA	p.W10*	C18orf16_uc002kwb.2_Intron|C18orf16_uc010xbm.1_Intron	NM_001650	NP_001641	P55087	AQP4_HUMAN	aquaporin 4 isoform a	10	Cytoplasmic (Potential).				cellular response to interferon-gamma|excretion|nervous system development	cytoplasm|external side of plasma membrane|integral to plasma membrane	water channel activity				0	all_cancers(21;0.0172)|Lung NSC(5;0.00299)|all_lung(6;0.00747)|Ovarian(20;0.124)					GGACTTACCCCCACCGCCTTG	0.522000													35	115	---	---	---	---	0	0	1	0	0
MUC16	94025	broad.mit.edu	37	19	9090520	9090520	+	Missense_Mutation	SNP	G	T	T			TCGA-EM-A22P-01A-11D-A19J-08	TCGA-EM-A22P-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	22a4f3dc-258f-4c03-965a-c82d3eb24a1d	10806bd5-17f1-4c9d-88c5-b9be87731c0a	g.chr19:9090520G>T	uc002mkp.2	-	1	1499	c.1295C>A	c.(1294-1296)ACT>AAT	p.T432N		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	432	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TGTATTCAAAGTTCCTTCTGT	0.488000													20	67	---	---	---	---	3.51602e-12	3.71135e-12	1	1	0
CCDC88A	55704	broad.mit.edu	37	2	55522862	55522862	+	Missense_Mutation	SNP	C	T	T	rs138449414		TCGA-EM-A22P-01A-11D-A19J-08	TCGA-EM-A22P-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	22a4f3dc-258f-4c03-965a-c82d3eb24a1d	10806bd5-17f1-4c9d-88c5-b9be87731c0a	g.chr2:55522862C>T	uc002ryv.2	-	31	6261	c.5419G>A	c.(5419-5421)GTG>ATG	p.V1807M	CCDC88A_uc010yoz.1_Missense_Mutation_p.V1780M|CCDC88A_uc010ypa.1_Missense_Mutation_p.V1733M|CCDC88A_uc002ryt.2_Missense_Mutation_p.V98M|CCDC88A_uc010fbw.2_Missense_Mutation_p.V309M|CCDC88A_uc002ryu.2_Missense_Mutation_p.V1062M|CCDC88A_uc002rys.2_Missense_Mutation_p.V765M|CCDC88A_uc002ryw.2_Missense_Mutation_p.V1091M|CCDC88A_uc010fby.1_Missense_Mutation_p.V659M	NM_001135597	NP_001129069	Q3V6T2	GRDN_HUMAN	coiled-coil domain containing 88A isoform 1	1808					activation of protein kinase B activity|cell migration|cellular membrane organization|DNA replication|lamellipodium assembly|microtubule cytoskeleton organization|regulation of actin cytoskeleton organization|regulation of cell proliferation|regulation of DNA replication|regulation of neuron projection development|TOR signaling cascade	cytoplasmic membrane-bounded vesicle|cytosol|endoplasmic reticulum|Golgi apparatus|lamellipodium|plasma membrane	actin binding|microtubule binding|phosphatidylinositol binding|protein homodimerization activity|protein kinase B binding			ovary(2)|skin(2)	4						GTTGAGATCACGCTGCTTGCA	0.423000													26	90	---	---	---	---	0	0	1	0	0
FRG1B	284802	broad.mit.edu	37	20	29628236	29628236	+	Missense_Mutation	SNP	G	C	C	rs145412486	by1000genomes	TCGA-EM-A22P-01A-11D-A19J-08	TCGA-EM-A22P-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	22a4f3dc-258f-4c03-965a-c82d3eb24a1d	10806bd5-17f1-4c9d-88c5-b9be87731c0a	g.chr20:29628236G>C	uc010ztl.1	+	3	180	c.148G>C	c.(148-150)GCT>CCT	p.A50P	FRG1B_uc002wvm.1_RNA|FRG1B_uc010ztj.1_RNA|FRG1B_uc010gdr.1_RNA|FRG1B_uc010ztk.1_Missense_Mutation_p.A2P					Homo sapiens cDNA FLJ32537 fis, clone SMINT2000400, highly similar to Homo sapiens FRG1 mRNA.												0						GGGGAAAATGGCTTTGTTGGC	0.333000													12	249	---	---	---	---	0	0	1	0	0
Unknown	0	broad.mit.edu	37	5	79655242	79655242	+	Missense_Mutation	SNP	C	T	T			TCGA-EM-A22P-01A-11D-A19J-08	TCGA-EM-A22P-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	22a4f3dc-258f-4c03-965a-c82d3eb24a1d	10806bd5-17f1-4c9d-88c5-b9be87731c0a	g.chr5:79655242C>T	uc003kgo.2	-	1	666	c.503G>A	c.(502-504)CGT>CAT	p.R168H						SubName: Full=Putative uncharacterized protein; Flags: Fragment;																		accacctccacgaccaccacc	0.214000													4	60	---	---	---	---	0	0	1	0	0
HIST1H2BF	8343	broad.mit.edu	37	6	26199951	26199951	+	Silent	SNP	C	T	T			TCGA-EM-A22P-01A-11D-A19J-08	TCGA-EM-A22P-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	22a4f3dc-258f-4c03-965a-c82d3eb24a1d	10806bd5-17f1-4c9d-88c5-b9be87731c0a	g.chr6:26199951C>T	uc003ngx.2	+	1	165	c.165C>T	c.(163-165)ATC>ATT	p.I55I	HIST1H3D_uc003ngv.2_5'Flank|HIST1H2AD_uc003ngw.2_5'Flank	NM_003522	NP_003513	P62807	H2B1C_HUMAN	histone cluster 1, H2bf	55					defense response to bacterium|nucleosome assembly	nucleosome|nucleus	DNA binding|protein binding				0		all_hematologic(11;0.196)				ACACCGGCATCTCATCCAAGG	0.567000													57	225	---	---	---	---	0	0	1	0	0
DDX56	54606	broad.mit.edu	37	7	44607781	44607781	+	Silent	SNP	C	T	T			TCGA-EM-A22P-01A-11D-A19J-08	TCGA-EM-A22P-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	22a4f3dc-258f-4c03-965a-c82d3eb24a1d	10806bd5-17f1-4c9d-88c5-b9be87731c0a	g.chr7:44607781C>T	uc003tlg.2	-	12	2068	c.1425G>A	c.(1423-1425)CGG>CGA	p.R475R	DDX56_uc003tle.2_RNA|DDX56_uc003tlf.2_Silent_p.R411R|DDX56_uc003tlh.2_RNA|DDX56_uc010kyg.2_Silent_p.R435R	NM_019082	NP_061955	Q9NY93	DDX56_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 56	475					rRNA processing	nucleolus	ATP binding|ATP-dependent RNA helicase activity|identical protein binding|RNA binding			upper_aerodigestive_tract(1)	1						GTAGGTCATGCCGCAGCAGCT	0.592000													3	39	---	---	---	---	0	0	1	0	0
SPDYE7P	441251	broad.mit.edu	37	7	72339497	72339497	+	RNA	SNP	T	C	C	rs390732	by1000genomes	TCGA-EM-A22P-01A-11D-A19J-08	TCGA-EM-A22P-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	22a4f3dc-258f-4c03-965a-c82d3eb24a1d	10806bd5-17f1-4c9d-88c5-b9be87731c0a	g.chr7:72339497T>C	uc010lal.1	-	1		c.159A>G				NR_003666				Homo sapiens speedy homolog E7 (Xenopus laevis), pseudogene (SPDYE7P), non-coding RNA.												0						TCCTCAGATTTGTCCCACCAC	0.582000													3	49	---	---	---	---	0	0	1	0	0
BRAF	673	broad.mit.edu	37	7	140453136	140453136	+	Missense_Mutation	SNP	A	T	T			TCGA-EM-A22P-01A-11D-A19J-08	TCGA-EM-A22P-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	22a4f3dc-258f-4c03-965a-c82d3eb24a1d	10806bd5-17f1-4c9d-88c5-b9be87731c0a	g.chr7:140453136A>T	uc003vwc.3	-	15	1860	c.1799T>A	c.(1798-1800)GTG>GAG	p.V600E		NM_004333	NP_004324	P15056	BRAF_HUMAN	B-Raf	600	Protein kinase.		V -> D (in a melanoma cell line; requires 2 nucleotide substitutions).|V -> E (in sarcoma, colorectal adenocarcinoma, metastatic melanoma, ovarian serous carcinoma, pilocytic astrocytoma; somatic mutation; most common mutation; constitutive and elevated kinase activity; efficiently induces cell transformation; suppression of mutation in melanoma causes growth arrest and promotes apoptosis).		activation of MAPKK activity|anti-apoptosis|nerve growth factor receptor signaling pathway|organ morphogenesis|positive regulation of peptidyl-serine phosphorylation|small GTPase mediated signal transduction|synaptic transmission	cytosol|nucleus|plasma membrane	ATP binding|metal ion binding	p.V600E(16892)|p.V600?(325)|p.V600K(176)|p.V600R(36)|p.V600M(25)|p.V600A(23)|p.V600D(21)|p.V600G(11)|p.V600_K601>E(8)|p.T599_V600insTT(3)|p.T599_R603>I(2)|p.T599_V600>IAL(2)|p.V600L(2)|p.T599_V600insT(2)|p.V600_W604del(1)|p.V600_S605>DV(1)|p.V600_S605>D(1)|p.T599_V600insV(1)|p.T599_V600insDFGLAT(1)	KIAA1549/BRAF(229)|AKAP9_ENST00000356239/BRAF(10)|AGTRAP/BRAF(2)|FCHSD1/BRAF(2)|SLC45A3/BRAF(2)	thyroid(8166)|large_intestine(5052)|skin(3798)|NS(368)|central_nervous_system(284)|ovary(236)|lung(78)|eye(53)|prostate(44)|endometrium(30)|biliary_tract(28)|soft_tissue(27)|haematopoietic_and_lymphoid_tissue(22)|breast(18)|upper_aerodigestive_tract(13)|stomach(13)|pancreas(10)|small_intestine(10)|testis(7)|bone(6)|cervix(5)|genital_tract(4)|oesophagus(3)|urinary_tract(3)|adrenal_gland(3)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|meninges(1)|kidney(1)|autonomic_ganglia(1)|pituitary(1)|salivary_gland(1)	18290	Melanoma(164;0.00956)				Sorafenib(DB00398)	TCGAGATTTCACTGTAGCTAG	0.368000	V600E(UACC257_SKIN)|V600D(K029AX_SKIN)|V600E(HS695T_SKIN)|V600E(COLO679_SKIN)|V600E(BT474_BREAST)|V600E(IGR39_SKIN)|V600E(A101D_SKIN)|V600E(COLO783_SKIN)|V600E(IGR37_SKIN)|V600E(A375_SKIN)|V600E(WM793_SKIN)|V600E(COLO818_SKIN)|V600E(HS294T_SKIN)|V600E(SKMEL28_SKIN)|V600E(DU4475_BREAST)|V600E(SIGM5_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|V600E(IGR1_SKIN)|V600E(SKHEP1_LIVER)|V600E(WM983B_SKIN)|V600E(GCT_SOFT_TISSUE)|V600E(RVH421_SKIN)|V600D(WM2664_SKIN)|V600E(CL34_LARGE_INTESTINE)|V600E(SKMEL24_SKIN)|V600D(WM115_SKIN)|V600E(MALME3M_SKIN)|V600E(A673_BONE)|V600E(C32_SKIN)|V600E(DBTRG05MG_CENTRAL_NERVOUS_SYSTEM)|V600E(COLO800_SKIN)|V600E(COLO741_SKIN)|V600E(HS939T_SKIN)|V600E(COLO205_LARGE_INTESTINE)|V600E(K029AX_SKIN)|V600E(AM38_CENTRAL_NERVOUS_SYSTEM)|V600E(SH4_SKIN)|V600E(WM88_SKIN)|V600E(KG1C_CENTRAL_NERVOUS_SYSTEM)|V600E(COLO849_SKIN)|V600E(MELHO_SKIN)|V600E(BHT101_THYROID)|V600E(G361_SKIN)|V600E(UACC62_SKIN)|V600E(BCPAP_THYROID)|V600E(8505C_THYROID)|V600E(SW1417_LARGE_INTESTINE)|V600E(COLO829_SKIN)|V600E(RKO_LARGE_INTESTINE)|V600E(A2058_SKIN)|V600E(RPMI7951_SKIN)|V600E(OUMS23_LARGE_INTESTINE)|V600E(SKMEL5_SKIN)|V600E(ES2_OVARY)|V600E(LOXIMVI_SKIN)	61	Mis|T|O	AKAP9|KIAA1549	melanoma|colorectal|papillary thyroid|borderline ov|Non small-cell lung cancer (NSCLC)|cholangiocarcinoma|pilocytic astrocytoma		Cardio-facio-cutaneous syndrome		Cardiofaciocutaneous_syndrome				18	64	---	---	---	---	0	0	1	0	0
LOC442421	442421	broad.mit.edu	37	9	66500973	66500973	+	RNA	SNP	C	T	T			TCGA-EM-A22P-01A-11D-A19J-08	TCGA-EM-A22P-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	22a4f3dc-258f-4c03-965a-c82d3eb24a1d	10806bd5-17f1-4c9d-88c5-b9be87731c0a	g.chr9:66500973C>T	uc004aed.1	+	3		c.1066C>T								Homo sapiens similar to prostaglandin E receptor 4, subtype EP4; PGE receptor, EP4 subtype; prostaglandin E2 receptor, mRNA (cDNA clone IMAGE:5288780).												0						CATCCCTAGTCAGAGTGCCTG	0.592000													4	11	---	---	---	---	0	0	1	0	0
PRRG1	5638	broad.mit.edu	37	X	37312552	37312552	+	Missense_Mutation	SNP	G	A	A			TCGA-EM-A22P-01A-11D-A19J-08	TCGA-EM-A22P-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	22a4f3dc-258f-4c03-965a-c82d3eb24a1d	10806bd5-17f1-4c9d-88c5-b9be87731c0a	g.chrX:37312552G>A	uc004ddn.2	+	5	588	c.335G>A	c.(334-336)AGA>AAA	p.R112K	PRRG1_uc004ddo.2_Missense_Mutation_p.R112K	NM_000950	NP_000941	O14668	TMG1_HUMAN	proline rich Gla (G-carboxyglutamic acid) 1	112	Cytoplasmic (Potential).					extracellular region|integral to plasma membrane	calcium ion binding			ovary(1)|breast(1)	2						AAAACTCGTAGACAGACAGTG	0.438000													23	41	---	---	---	---	0	0	1	0	0
ZNF185	7739	broad.mit.edu	37	X	152139069	152139069	+	Missense_Mutation	SNP	A	T	T			TCGA-EM-A22P-01A-11D-A19J-08	TCGA-EM-A22P-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	22a4f3dc-258f-4c03-965a-c82d3eb24a1d	10806bd5-17f1-4c9d-88c5-b9be87731c0a	g.chrX:152139069A>T	uc010ntv.1	+	22	2091	c.2054A>T	c.(2053-2055)TAT>TTT	p.Y685F	ZNF185_uc011myg.1_Missense_Mutation_p.Y717F|ZNF185_uc011myh.1_Missense_Mutation_p.Y688F|ZNF185_uc011myi.1_Missense_Mutation_p.Y656F|ZNF185_uc011myj.1_Missense_Mutation_p.Y626F|ZNF185_uc011myk.1_Missense_Mutation_p.Y686F|ZNF185_uc004fgw.3_Missense_Mutation_p.Y464F|ZNF185_uc004fgu.2_Missense_Mutation_p.Y314F|ZNF185_uc004fgv.2_Missense_Mutation_p.Y382F|ZNF185_uc004fgx.2_Missense_Mutation_p.Y323F	NM_007150	NP_009081	O15231	ZN185_HUMAN	zinc finger protein 185	685	LIM zinc-binding.					cytoplasm|cytoskeleton|focal adhesion	zinc ion binding			ovary(3)	3	Acute lymphoblastic leukemia(192;6.56e-05)					GGGAAATGCTATGAGAAGCTC	0.498000													4	41	---	---	---	---	0	0	1	0	0
Unknown	0	broad.mit.edu	37	13	19985459	19985461	+	IGR	DEL	TGG	-	-			TCGA-EM-A22P-01A-11D-A19J-08	TCGA-EM-A22P-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	22a4f3dc-258f-4c03-965a-c82d3eb24a1d	10806bd5-17f1-4c9d-88c5-b9be87731c0a	g.chr13:19985459_19985461delTGG								LOC100101938 (66346 upstream) : TPTE2 (11560 downstream)																							atgtttctgttggtgatggatgg	0.192													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	16	32224972	32224974	+	IGR	DEL	ATA	-	-			TCGA-EM-A22P-01A-11D-A19J-08	TCGA-EM-A22P-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	22a4f3dc-258f-4c03-965a-c82d3eb24a1d	10806bd5-17f1-4c9d-88c5-b9be87731c0a	g.chr16:32224972_32224974delATA								HERC2P4 (61098 upstream) : TP53TG3B (459867 downstream)																							TGGCACAGCTATAATGTTTTTCC	0.330													3	3	---	---	---	---					
Unknown	0	broad.mit.edu	37	17	25289395	25289395	+	IGR	DEL	T	-	-	rs113949263		TCGA-EM-A22P-01A-11D-A19J-08	TCGA-EM-A22P-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	22a4f3dc-258f-4c03-965a-c82d3eb24a1d	10806bd5-17f1-4c9d-88c5-b9be87731c0a	g.chr17:25289395delT								None (None upstream) : WSB1 (331711 downstream)																							TATTTACATCTTTTTTTGTCT	0.433													7	64	---	---	---	---					
Unknown	0	broad.mit.edu	37	2	44293372	44293373	+	IGR	INS	-	T	T	rs112109764	by1000genomes	TCGA-EM-A22P-01A-11D-A19J-08	TCGA-EM-A22P-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	22a4f3dc-258f-4c03-965a-c82d3eb24a1d	10806bd5-17f1-4c9d-88c5-b9be87731c0a	g.chr2:44293372_44293373insT								LRPPRC (70228 upstream) : PPM1B (102627 downstream)																							TTTTGTTTTTGTTTTGTTTTTT	0.332													3	6	---	---	---	---					
Unknown	0	broad.mit.edu	37	2	133019900	133019901	+	IGR	INS	-	TT	TT	rs145896521		TCGA-EM-A22P-01A-11D-A19J-08	TCGA-EM-A22P-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	22a4f3dc-258f-4c03-965a-c82d3eb24a1d	10806bd5-17f1-4c9d-88c5-b9be87731c0a	g.chr2:133019900_133019901insTT								NCRNA00164 (4358 upstream) : GPR39 (154246 downstream)																							GTTCACGACTCTACTAGTGACA	0.381													7	62	---	---	---	---					
Unknown	0	broad.mit.edu	37	3	190433401	190433402	+	IGR	INS	-	AG	AG	rs146341792	by1000genomes	TCGA-EM-A22P-01A-11D-A19J-08	TCGA-EM-A22P-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	22a4f3dc-258f-4c03-965a-c82d3eb24a1d	10806bd5-17f1-4c9d-88c5-b9be87731c0a	g.chr3:190433401_190433402insAG								IL1RAP (57558 upstream) : LOC647309 (137124 downstream)																							TAAAATCAGAAAAAGTTCATTG	0.297													3	5	---	---	---	---					
Unknown	0	broad.mit.edu	37	4	37822924	37822924	+	IGR	DEL	A	-	-			TCGA-EM-A22P-01A-11D-A19J-08	TCGA-EM-A22P-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	22a4f3dc-258f-4c03-965a-c82d3eb24a1d	10806bd5-17f1-4c9d-88c5-b9be87731c0a	g.chr4:37822924delA								RELL1 (134925 upstream) : PGM2 (5358 downstream)																							aaaaaaaaagaaaaaaaaAAA	0.204													3	5	---	---	---	---					
Unknown	0	broad.mit.edu	37	7	64498714	64498715	+	5'Flank	INS	-	A	A	rs139476739	by1000genomes	TCGA-EM-A22P-01A-11D-A19J-08	TCGA-EM-A22P-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	22a4f3dc-258f-4c03-965a-c82d3eb24a1d	10806bd5-17f1-4c9d-88c5-b9be87731c0a	g.chr7:64498714_64498715insA	uc003ttt.1	+						uc010kzt.1_5'Flank					Homo sapiens cDNA clone IMAGE:4215179, partial cds.																		gagggaggcggtggaggcggag	0.351													3	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	X	74387594	74387595	+	IGR	INS	-	T	T			TCGA-EM-A22P-01A-11D-A19J-08	TCGA-EM-A22P-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	22a4f3dc-258f-4c03-965a-c82d3eb24a1d	10806bd5-17f1-4c9d-88c5-b9be87731c0a	g.chrX:74387594_74387595insT								ABCB7 (11462 upstream) : UPRT (106366 downstream)																							cttgttttttgtttTTTTTTTT	0.173													7	30	---	---	---	---					
Unknown	0	broad.mit.edu	37	Y	3720516	3720517	+	IGR	INS	-	T	T	rs35895769		TCGA-EM-A22P-01A-11D-A19J-08	TCGA-EM-A22P-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	22a4f3dc-258f-4c03-965a-c82d3eb24a1d	10806bd5-17f1-4c9d-88c5-b9be87731c0a	g.chrY:3720516_3720517insT								TGIF2LY (272436 upstream) : None (None downstream)																							TTTTTTTCCCATTTTTTCTCTT	0.347													5	2	---	---	---	---					
