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
COL9A2	1298	broad.mit.edu	37	1	40767021	40767021	+	Missense_Mutation	SNP	C	T	T			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr1:40767021C>T	uc001cfh.1	-	32	1973	c.1903G>A	c.(1903-1905)GGC>AGC	p.G635S	COL9A2_uc001cfi.1_Missense_Mutation_p.G454S	NM_001852	NP_001843	Q14055	CO9A2_HUMAN	alpha 2 type IX collagen precursor	635	Triple-helical region 1 (COL1).				axon guidance|skeletal system development	collagen type IX				ovary(2)	2	Lung NSC(20;4.38e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;2.08e-17)			CCATCCTTGCCGTTGATTGCC	0.637000													7	27	---	---	---	---	0	0	0.004482	0	0
GSTM3	2947	broad.mit.edu	37	1	110280288	110280288	+	Missense_Mutation	SNP	G	A	A			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr1:110280288G>A	uc001dyo.2	-	7	768	c.458C>T	c.(457-459)GCC>GTC	p.A153V	GSTM3_uc001dyp.2_Missense_Mutation_p.A150V|GSTM3_uc010ovv.1_Missense_Mutation_p.A153V	NM_000849	NP_000840	P21266	GSTM3_HUMAN	glutathione S-transferase mu 3	153	GST C-terminal.				establishment of blood-nerve barrier|glutathione metabolic process|response to estrogen stimulus	cytoplasm	glutathione transferase activity|identical protein binding				0		all_epithelial(167;1.95e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)		Colorectal(144;0.0339)|Lung(183;0.0426)|all cancers(265;0.113)|Epithelial(280;0.125)|COAD - Colon adenocarcinoma(174;0.134)|LUSC - Lung squamous cell carcinoma(189;0.228)	Glutathione(DB00143)	CTTTTCCCCGGCAAACCATGA	0.433000													5	255	---	---	---	---	0	0	0.014758	0	0
IQGAP3	128239	broad.mit.edu	37	1	156513810	156513810	+	Silent	SNP	G	A	A			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr1:156513810G>A	uc001fpf.2	-	22	2568	c.2493C>T	c.(2491-2493)TTC>TTT	p.F831F		NM_178229	NP_839943	Q86VI3	IQGA3_HUMAN	IQ motif containing GTPase activating protein 3	831	IQ 4.				small GTPase mediated signal transduction	intracellular	calmodulin binding|Ras GTPase activator activity			ovary(5)|skin(1)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					TCCTGGCTCGGAAAAATGCCT	0.537000													8	147	---	---	---	---	0	0	0.004990	0	0
CLRN3	119467	broad.mit.edu	37	10	129676574	129676575	+	Missense_Mutation	DNP	TC	AA	AA			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr10:129676574_129676575TC>AA	uc001lka.1	-	3	682_683	c.519_520GA>TT	c.(517-522)ACGACC>ACTTCC	p.T174S	CLRN3_uc001ljz.1_Missense_Mutation_p.T106S	NM_152311	NP_689524	Q8NCR9	CLRN3_HUMAN	clarin 3	174						integral to membrane				skin(1)	1		all_epithelial(44;0.00168)|all_lung(145;0.0586)|Lung NSC(174;0.0765)|all_neural(114;0.201)|Glioma(114;0.222)|Colorectal(57;0.235)				TAACTGTGGGTCGTTCCTTTAC	0.450000													61	96	---	---	---	---	0	0	0.004672	0	0
LRP4	4038	broad.mit.edu	37	11	46920980	46920980	+	Missense_Mutation	SNP	C	T	T			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr11:46920980C>T	uc001ndn.3	-	5	651	c.505G>A	c.(505-507)GGT>AGT	p.G169S	LRP4_uc009ylh.1_Missense_Mutation_p.G120S	NM_002334	NP_002325	O75096	LRP4_HUMAN	low density lipoprotein receptor-related protein	169	Extracellular (Potential).|LDL-receptor class A 4.				endocytosis|negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to membrane	calcium ion binding|receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4				Lung(87;0.159)		TCGGTGTCACCGTCGCAGTAC	0.582000													5	166	---	---	---	---	0	0	0.001168	0	0
FGD4	121512	broad.mit.edu	37	12	32793220	32793220	+	Missense_Mutation	SNP	C	T	T			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr12:32793220C>T	uc001rkz.2	+	17	2531	c.2054C>T	c.(2053-2055)GCC>GTC	p.A685V	FGD4_uc001rlc.2_Missense_Mutation_p.A770V|FGD4_uc001rla.2_Missense_Mutation_p.A341V|FGD4_uc010ske.1_Missense_Mutation_p.A797V|FGD4_uc001rlb.1_RNA	NM_139241	NP_640334	Q96M96	FGD4_HUMAN	FYVE, RhoGEF and PH domain containing 4	685	PH 2.				actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|filopodium|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(2)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.204)					GACGTCAGAGCCCAGGCCACC	0.493000													60	111	---	---	---	---	0	0	0.014410	0	0
CCNT1	904	broad.mit.edu	37	12	49087252	49087252	+	Missense_Mutation	SNP	C	A	A			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr12:49087252C>A	uc001rse.1	-	9	2068	c.1745G>T	c.(1744-1746)GGG>GTG	p.G582V	LOC144438_uc001rsd.3_5'Flank|CCNT1_uc009zkz.1_Missense_Mutation_p.G297V	NM_001240	NP_001231	O60563	CCNT1_HUMAN	cyclin T1	582	Ser-rich.				cell cycle|cell division|interspecies interaction between organisms|positive regulation of viral transcription|protein phosphorylation|regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	DNA binding|protein kinase binding			ovary(3)|lung(1)|breast(1)|skin(1)	6						AAACACAGCCCCTCCAGTCTC	0.458000													41	46	---	---	---	---	1.07121e-22	1.66982e-22	0.006999	1	0
CEP152	22995	broad.mit.edu	37	15	49052457	49052457	+	Missense_Mutation	SNP	T	C	C			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr15:49052457T>C	uc001zwy.2	-	19	2603	c.2569A>G	c.(2569-2571)ATA>GTA	p.I857V	CEP152_uc001zwz.2_Missense_Mutation_p.I857V|CEP152_uc001zxa.1_Missense_Mutation_p.I764V	NM_014985	NP_055800	O94986	CE152_HUMAN	centrosomal protein 152kDa	857					centrosome duplication|G2/M transition of mitotic cell cycle	centrosome|cytosol	protein kinase binding			lung(2)	2		all_lung(180;0.0428)		all cancers(107;1.08e-07)|GBM - Glioblastoma multiforme(94;2.32e-06)		TGCACAGCTATTTCTACCTGT	0.378000													35	60	---	---	---	---	0	0	0.007835	0	0
WDR59	79726	broad.mit.edu	37	16	74919593	74919593	+	Missense_Mutation	SNP	A	C	C			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr16:74919593A>C	uc002fdh.1	-	25	2749	c.2647T>G	c.(2647-2649)TTG>GTG	p.L883V	WDR59_uc002fdf.1_Missense_Mutation_p.L328V|WDR59_uc002fdg.1_Missense_Mutation_p.L475V	NM_030581	NP_085058	Q6PJI9	WDR59_HUMAN	WD repeat domain 59	883										ovary(1)|breast(1)	2						ACAAACTTCAACACTTCAGCT	0.458000													27	60	---	---	---	---	0	0	0.007291	0	0
DNAH9	1770	broad.mit.edu	37	17	11607602	11607602	+	Missense_Mutation	SNP	C	T	T			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr17:11607602C>T	uc002gne.2	+	25	5302	c.5234C>T	c.(5233-5235)GCC>GTC	p.A1745V	DNAH9_uc010coo.2_Missense_Mutation_p.A1039V	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	1745	Stem (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		TATGAGAGTGCCATGAAGGAC	0.522000													7	105	---	---	---	---	0	0	0.001984	0	0
MCOLN1	57192	broad.mit.edu	37	19	7593787	7593787	+	Nonsense_Mutation	SNP	C	A	A			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr19:7593787C>A	uc002mgo.2	+	9	1190	c.1065C>A	c.(1063-1065)TAC>TAA	p.Y355*	MCOLN1_uc002mgp.2_Nonsense_Mutation_p.Y320*	NM_020533	NP_065394	Q9GZU1	MCLN1_HUMAN	mucolipin 1	355	Helical; (Potential).				calcium ion transport|cellular iron ion homeostasis|transferrin transport	integral to plasma membrane|late endosome membrane|lysosomal membrane	cation channel activity|iron ion transmembrane transporter activity			breast(1)	1						ATGGCTGGTACATCCTGCTCG	0.622000													7	55	---	---	---	---	6.5536e-12	9.92402e-12	0.003080	1	0
MLL4	9757	broad.mit.edu	37	19	36219029	36219029	+	Missense_Mutation	SNP	G	A	A			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr19:36219029G>A	uc010eei.2	+	20	4528	c.4528G>A	c.(4528-4530)GCC>ACC	p.A1510T		NM_014727	NP_055542	Q9UMN6	MLL4_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 4	1510					chromatin-mediated maintenance of transcription		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(6)|breast(2)|ovary(1)|kidney(1)|skin(1)	11	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CTGGTTCGACGCCCACGACCC	0.627000													7	10	---	---	---	---	0	0	0.004482	0	0
EPCAM	4072	broad.mit.edu	37	2	47596655	47596655	+	Missense_Mutation	SNP	C	T	T			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr2:47596655C>T	uc002rvx.2	+	1	369	c.11C>T	c.(10-12)CCG>CTG	p.P4L	EPCAM_uc002rvw.2_Intron	NM_002354	NP_002345	P16422	EPCAM_HUMAN	epithelial cell adhesion molecule precursor	4					positive regulation of cell proliferation	apical plasma membrane|basolateral plasma membrane|integral to membrane|lateral plasma membrane|tight junction	protein binding			skin(1)	1						ATGGCGCCCCCGCAGGTCCTC	0.453000									Lynch_syndrome				2	1	---	---	---	---	0	0	0.004672	0	0
Unknown	0	broad.mit.edu	37	2	95539132	95539132	+	Splice_Site	SNP	A	G	G	rs74376788	by1000genomes	TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr2:95539132A>G	uc002stv.1	-	9		c.1317_splice	c.e9+1		TEKT4_uc002stw.1_Intron|TEKT4_uc010fhr.1_RNA					Homo sapiens cDNA FLJ44118 fis, clone TESTI4047069.																		AGCAGAACTTACACAGTCAGA	0.567000													2	14	---	---	---	---	0	0	0.004672	0	0
ALG3	10195	broad.mit.edu	37	3	183963511	183963511	+	Missense_Mutation	SNP	C	T	T			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr3:183963511C>T	uc003fne.2	-	2	317	c.286G>A	c.(286-288)GGA>AGA	p.G96R	ALG3_uc011brc.1_Missense_Mutation_p.G61R|ALG3_uc011brd.1_Intron|ALG3_uc011bre.1_Missense_Mutation_p.G48R|ALG3_uc003fnf.1_Missense_Mutation_p.G56R|ALG3_uc011brf.1_Intron	NM_005787	NP_005778	Q92685	ALG3_HUMAN	alpha-1,3-mannosyltransferase ALG3 isoform a	96	Helical; (Potential).				dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane	alpha-1,3-mannosyltransferase activity				0	all_cancers(143;1.39e-10)|Ovarian(172;0.0339)		Epithelial(37;8.28e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			ACAAGTGGTCCGGTGTCACCC	0.522000													19	24	---	---	---	---	0	0	0.010504	0	0
SDHAP1	255812	broad.mit.edu	37	3	195692311	195692311	+	Missense_Mutation	SNP	T	C	C	rs62282793	by1000genomes	TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr3:195692311T>C	uc003fvy.2	-	3	346	c.232A>G	c.(232-234)AGC>GGC	p.S78G	SDHAP1_uc003fvx.3_RNA					Homo sapiens full length insert cDNA clone ZC24D06.												0						TTCCCAGTGCTGACGTCCACA	0.607000													5	24	---	---	---	---	0	0	0.001168	0	0
SPON2	10417	broad.mit.edu	37	4	1165191	1165191	+	Missense_Mutation	SNP	C	T	T			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr4:1165191C>T	uc003gcn.3	-	2	331	c.304G>A	c.(304-306)GAG>AAG	p.E102K	SPON2_uc003gco.3_Missense_Mutation_p.E102K|SPON2_uc010ibr.2_Missense_Mutation_p.E102K|SPON2_uc003gcm.1_Missense_Mutation_p.E20K	NM_012445	NP_036577	Q9BUD6	SPON2_HUMAN	spondin 2, extracellular matrix protein	102	Spondin.				axon guidance|cell adhesion|innate immune response	proteinaceous extracellular matrix	metal ion binding			central_nervous_system(1)	1			OV - Ovarian serous cystadenocarcinoma(23;0.00805)	UCEC - Uterine corpus endometrioid carcinoma (64;0.139)|Colorectal(103;0.19)		GCCCAGGCCTCGCCGCGCTCC	0.701000													16	74	---	---	---	---	0	0	0.004990	0	0
LNX1	84708	broad.mit.edu	37	4	54440038	54440038	+	Missense_Mutation	SNP	G	C	C			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr4:54440038G>C	uc003hag.3	-	2	388	c.132C>G	c.(130-132)TGC>TGG	p.C44W	PDGFRA_uc003haa.2_Intron|LNX1_uc003hah.3_RNA	NM_001126328	NP_001119800	Q8TBB1	LNX1_HUMAN	ligand of numb-protein X 1 isoform a	44	RING-type.					cytoplasm	zinc ion binding			ovary(2)|central_nervous_system(2)	4	all_neural(26;0.153)		GBM - Glioblastoma multiforme(3;8.2e-46)|LUSC - Lung squamous cell carcinoma(32;0.0134)			AAGCCTGCAGGCAGATGTGGC	0.567000													5	30	---	---	---	---	0	0	0.001168	0	0
TBCK	93627	broad.mit.edu	37	4	107216253	107216253	+	Silent	SNP	C	T	T			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr4:107216253C>T	uc010ilv.2	-	3	629	c.264G>A	c.(262-264)GTG>GTA	p.V88V	TBCK_uc003hye.2_Silent_p.V88V|TBCK_uc003hyc.2_Silent_p.V88V|TBCK_uc003hyd.2_5'UTR|TBCK_uc003hyf.2_Silent_p.V88V	NM_001163435	NP_001156907	Q8TEA7	TBCK_HUMAN	TBC domain-containing protein kinase-like	88	Protein kinase.					intracellular	Rab GTPase activator activity			large_intestine(2)|upper_aerodigestive_tract(1)|stomach(1)|ovary(1)	5						TACAGTACCTCACAGGTTTCC	0.383000													42	71	---	---	---	---	0	0	0.014410	0	0
F2RL2	2151	broad.mit.edu	37	5	75914398	75914398	+	Missense_Mutation	SNP	G	T	T	rs140813985		TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr5:75914398G>T	uc003kem.2	-	2	319	c.134C>A	c.(133-135)CCA>CAA	p.P45Q	IQGAP2_uc003kek.2_Intron|IQGAP2_uc010izv.2_Intron|IQGAP2_uc011csv.1_Intron|IQGAP2_uc003kel.2_Intron|F2RL2_uc011csw.1_Missense_Mutation_p.P23Q	NM_004101	NP_004092	O00254	PAR3_HUMAN	coagulation factor II (thrombin) receptor-like 2	45	Extracellular (Potential).				platelet activation	extracellular region|integral to plasma membrane	phosphatidylinositol phospholipase C activity|protein binding|thrombin receptor activity			skin(2)|ovary(1)	3		all_lung(232;0.000462)|Lung NSC(167;0.00124)|Prostate(461;0.00955)|Ovarian(174;0.0129)		all cancers(79;4.43e-43)		AAAAGAATTTGGGGGAGCTCC	0.413000													4	139	---	---	---	---	0.000602214	0.000886593	0.014758	1	0
REV3L	5980	broad.mit.edu	37	6	111652902	111652902	+	Missense_Mutation	SNP	G	A	A			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr6:111652902G>A	uc003puy.3	-	24	8334	c.8011C>T	c.(8011-8013)CCC>TCC	p.P2671S	REV3L_uc003pux.3_Missense_Mutation_p.P2593S|REV3L_uc003puz.3_Missense_Mutation_p.P2593S|REV3L_uc003pva.1_RNA	NM_002912	NP_002903	O60673	DPOLZ_HUMAN	DNA polymerase zeta	2671					DNA-dependent DNA replication|translesion synthesis	nucleus|zeta DNA polymerase complex	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding			large_intestine(2)|ovary(2)|skin(2)	6		all_cancers(87;7.57e-06)|Acute lymphoblastic leukemia(125;2.46e-08)|all_hematologic(75;1.08e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.0314)|Epithelial(106;0.057)|all cancers(137;0.0663)		ACTCCATTGGGGGACACTGTG	0.373000								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					7	129	---	---	---	---	0	0	0.004482	0	0
THEMIS	387357	broad.mit.edu	37	6	128135044	128135044	+	Missense_Mutation	SNP	G	T	T			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr6:128135044G>T	uc003qbi.2	-	5	1061	c.742C>A	c.(742-744)CTA>ATA	p.L248I	THEMIS_uc010kfa.2_Missense_Mutation_p.L151I|THEMIS_uc011ebt.1_Missense_Mutation_p.L248I|THEMIS_uc010kfb.2_Missense_Mutation_p.L213I	NM_001010923	NP_001010923	Q8N1K5	THMS1_HUMAN	thymocyte selection pathway associated isoform	248	CABIT 1.				negative T cell selection|positive T cell selection|T cell receptor signaling pathway	cytoplasm|nucleus				ovary(2)|skin(2)	4						TCGACATCTAGACTGGGGAGG	0.343000													42	48	---	---	---	---	1.15183e-24	1.84991e-24	0.009718	1	0
KIAA1549	57670	broad.mit.edu	37	7	138597183	138597183	+	Missense_Mutation	SNP	C	T	T			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr7:138597183C>T	uc011kql.1	-	3	2951	c.2902G>A	c.(2902-2904)GAG>AAG	p.E968K	KIAA1549_uc003vuk.3_Missense_Mutation_p.E918K|KIAA1549_uc011kqj.1_Missense_Mutation_p.E968K	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	968						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						ATGATGTACTCCTGCACAGCT	0.468000			O	BRAF	pilocytic astrocytoma								22	43	---	---	---	---	0	0	0.016522	0	0
MPDZ	8777	broad.mit.edu	37	9	13138104	13138104	+	Missense_Mutation	SNP	A	G	G			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr9:13138104A>G	uc010mia.1	-	28	4109	c.4052T>C	c.(4051-4053)ATT>ACT	p.I1351T	MPDZ_uc003zky.3_5'Flank|MPDZ_uc010mib.2_Missense_Mutation_p.I56T|MPDZ_uc010mhx.2_Missense_Mutation_p.I173T|MPDZ_uc011lmm.1_Missense_Mutation_p.I210T|MPDZ_uc003zkz.3_Missense_Mutation_p.I44T|MPDZ_uc010mhy.2_Missense_Mutation_p.I1351T|MPDZ_uc010mhz.2_Missense_Mutation_p.I1318T|MPDZ_uc011lmn.1_Missense_Mutation_p.I1318T|MPDZ_uc003zlb.3_Missense_Mutation_p.I1351T	NM_003829	NP_003820	O75970	MPDZ_HUMAN	multiple PDZ domain protein	1351	PDZ 8.				interspecies interaction between organisms	apical plasma membrane|dendrite|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	protein C-terminus binding			ovary(5)|central_nervous_system(1)	6				GBM - Glioblastoma multiforme(50;2.03e-06)		CTCCAGTTCAATCATATGCAG	0.403000													13	16	---	---	---	---	0	0	0.004007	0	0
Unknown	0	broad.mit.edu	37	9	68414259	68414259	+	RNA	SNP	C	T	T			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr9:68414259C>T	uc004aex.2	+	1		c.814C>T								Homo sapiens mRNA; cDNA DKFZp564N0763 (from clone DKFZp564N0763).																		ccacagtggcctcaaagaact	0.254000													4	9	---	---	---	---	0	0	0.009096	0	0
Unknown	0	broad.mit.edu	37	9	68414289	68414289	+	RNA	SNP	C	T	T			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr9:68414289C>T	uc004aex.2	+	1		c.844C>T								Homo sapiens mRNA; cDNA DKFZp564N0763 (from clone DKFZp564N0763).																		ggaagacttgcaagtctctca	0.149000													3	6	---	---	---	---	0	0	0.004672	0	0
COL27A1	85301	broad.mit.edu	37	9	117052336	117052336	+	Splice_Site	SNP	A	G	G			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr9:117052336A>G	uc011lxl.1	+	46	4207	c.4207_splice	c.e46-2	p.G1403_splice	COL27A1_uc004bii.2_Splice_Site	NM_032888	NP_116277	Q8IZC6	CORA1_HUMAN	collagen, type XXVII, alpha 1 precursor						cell adhesion		extracellular matrix structural constituent			ovary(3)|skin(1)	4						TTGATTTTTCAGGGACCAAAG	0.627000													3	67	---	---	---	---	0	0	0.009096	0	0
TNN	63923	broad.mit.edu	37	1	175048656	175048656	+	Frame_Shift_Del	DEL	C	-	-			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr1:175048656delC	uc001gkl.1	+	3	710	c.597delC	c.(595-597)TACfs	p.Y199fs	TNN_uc010pmx.1_Frame_Shift_Del_p.Y199fs	NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	199	EGF-like 2.				cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		ACTGCGGCTACCCGGCCTGCC	0.716													2	4	---	---	---	---					
COL4A2	1284	broad.mit.edu	37	13	111160356	111160356	+	Frame_Shift_Del	DEL	T	-	-			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr13:111160356delT	uc001vqx.2	+	47	4958	c.4669delT	c.(4669-4671)TATfs	p.Y1557fs		NM_001846	NP_001837	P08572	CO4A2_HUMAN	alpha 2 type IV collagen preproprotein	1557	Collagen IV NC1.				angiogenesis|axon guidance|extracellular matrix organization|negative regulation of angiogenesis	collagen type IV	extracellular matrix structural constituent|protein binding			skin(3)|central_nervous_system(2)|ovary(1)	6	all_cancers(4;2.21e-12)|all_epithelial(4;2.63e-07)|all_lung(23;5.81e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00323)|all_neural(89;0.0565)|Lung SC(71;0.0753)|Medulloblastoma(90;0.0922)	Breast(118;0.212)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.151)			TGTCTGCTACTATGCCAGCCG	0.622													57	103	---	---	---	---					
ADAM6	8755	broad.mit.edu	37	14	106919168	106919168	+	RNA	DEL	C	-	-			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr14:106919168delC	uc010tyt.1	-	245		c.10611delG			uc010tyu.1_Intron					Parts of antibodies, mostly variable regions.												0						ACGTTAACCTCCCCCTCACTG	0.557													3	3	---	---	---	---					
UBR1	197131	broad.mit.edu	37	15	43270075	43270076	+	Splice_Site	INS	-	A	A			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr15:43270075_43270076insA	uc001zqq.2	-	38	4284	c.4218_splice	c.e38+1	p.L1406_splice		NM_174916	NP_777576	Q8IWV7	UBR1_HUMAN	ubiquitin protein ligase E3 component n-recognin						cellular response to leucine|negative regulation of TOR signaling cascade	cytosol	leucine binding|zinc ion binding			lung(1)	1		all_cancers(109;4.32e-15)|all_epithelial(112;4.05e-13)|Lung NSC(122;1.75e-08)|all_lung(180;2e-07)|Melanoma(134;0.0179)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;4.08e-07)|COAD - Colon adenocarcinoma(120;0.185)|Colorectal(105;0.214)		ACTGAACACTTACCAAAACATG	0.287													42	53	---	---	---	---					
Unknown	0	broad.mit.edu	37	17	18988562	18988562	+	IGR	DEL	T	-	-			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr17:18988562delT								GRAP (38226 upstream) : GRAPL (42220 downstream)																							CTGATGTGTGTTTTTTTTTTT	0.279													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	3	142895155	142895155	+	IGR	DEL	C	-	-			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr3:142895155delC								CHST2 (53345 upstream) : SLC9A9 (88910 downstream)																							GGCCTCAGGGCCCCCCCCCAG	0.746													3	4	---	---	---	---					
