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_alt_allele	validation_method	validation_status	validation_tumor_sample	pox	qox	pox_cutoff	isArtifactMode	oxoGCut
MLL2	8085	broad.mit.edu	37	19	36219029	36219029	+	Missense_Mutation	SNP	G	G	A			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr19:36219029G>A	uc021usv.1	+	18	4528	c.4528G>A	c.(4528-4530)Gcc>Acc	p.A1510T	MLL2_uc021usu.1_Missense_Mutation_p.A324T	NM_014727	NP_055542	O14686	MLL2_HUMAN	Homo sapiens myeloid/lymphoid or mixed-lineage leukemia 4 (MLL4), mRNA.	0	Cys-rich.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			NS(1)|breast(4)|central_nervous_system(38)|cervix(3)|endometrium(22)|haematopoietic_and_lymphoid_tissue(121)|kidney(35)|large_intestine(22)|lung(78)|ovary(3)|pancreas(2)|prostate(13)|skin(7)|stomach(3)|upper_aerodigestive_tract(9)|urinary_tract(5)	366						CTGGTTCGACGCCCACGACCC	0.627000			"""N, F, Mis"""		"""medulloblastoma, renal"""					HNSCC(34;0.089)			7	10					0	0	1	0	0
CEP152	22995	broad.mit.edu	37	15	49052457	49052457	+	Missense_Mutation	SNP	T	T	C			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr15:49052457T>C	uc001zwz.3	-	18	2762	c.2569A>G	c.(2569-2571)Ata>Gta	p.I857V	CEP152_uc001zwy.3_Missense_Mutation_p.I857V|CEP152_uc001zxa.2_Missense_Mutation_p.I764V	NM_001194998	NP_001181927	O94986	CE152_HUMAN	Homo sapiens centrosomal protein 152kDa (CEP152), transcript variant 1, mRNA.	857					G2/M transition of mitotic cell cycle|centrosome duplication	centrosome|cytosol	protein kinase binding			breast(3)|cervix(3)|endometrium(3)|kidney(3)|large_intestine(16)|lung(30)|ovary(1)|prostate(2)|skin(2)	63		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	1	0	0
THEMIS	387357	broad.mit.edu	37	6	128135044	128135044	+	Missense_Mutation	SNP	G	G	T			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr6:128135044G>T	uc011ebt.2	-	3	891	c.742C>A	c.(742-744)Cta>Ata	p.L248I	THEMIS_uc010kfa.3_Missense_Mutation_p.L151I|THEMIS_uc021zfa.1_Missense_Mutation_p.L248I|THEMIS_uc010kfb.3_Missense_Mutation_p.L213I	NM_001164685	NP_001158157	Q8N1K5	THMS1_HUMAN	Homo sapiens thymocyte selection associated (THEMIS), transcript variant 1, mRNA.	248	CABIT 1.				T cell receptor signaling pathway|negative T cell selection|positive T cell selection	cytoplasm|nucleus				breast(1)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(10)|liver(1)|lung(28)|ovary(2)|pancreas(1)|prostate(1)|skin(4)|stomach(1)|urinary_tract(3)	60						TCGACATCTAGACTGGGGAGG	0.343000													42	48					0	0	1	0	0
GSTM3	2947	broad.mit.edu	37	1	110280288	110280288	+	Missense_Mutation	SNP	G	G	A			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr1:110280288G>A	uc001dyo.2	-	6	768	c.458C>T	c.(457-459)gCc>gTc	p.A153V	GSTM3_uc001dyp.2_Missense_Mutation_p.A150V|GSTM3_uc010ovv.2_Missense_Mutation_p.A153V	NM_000849	NP_000840	P21266	GSTM3_HUMAN	Homo sapiens glutathione S-transferase mu 3 (brain) (GSTM3), transcript variant 1, mRNA.	153	GST C-terminal.				establishment of blood-nerve barrier|glutathione metabolic process|response to estrogen stimulus	cytoplasm	glutathione transferase activity|identical protein binding			endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(4)|lung(2)|skin(1)	9		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	1	0	0
REV3L	5980	broad.mit.edu	37	6	111652902	111652902	+	Missense_Mutation	SNP	G	G	A			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr6:111652902G>A	uc003puy.4	-	23	8352	c.8011C>T	c.(8011-8013)Ccc>Tcc	p.P2671S	REV3L_uc003pux.4_Missense_Mutation_p.P2593S|REV3L_uc003puz.4_Missense_Mutation_p.P2593S|REV3L_uc003pva.1_Non-coding_Transcript	NM_002912	NP_002903	O60673	DPOLZ_HUMAN	Homo sapiens REV3-like, catalytic subunit of DNA polymerase zeta (yeast) (REV3L), mRNA.	2671					DNA-dependent DNA replication|translesion synthesis	nucleus|zeta DNA polymerase complex	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding			NS(2)|breast(1)|endometrium(6)|kidney(7)|large_intestine(30)|lung(25)|ovary(3)|prostate(5)|skin(8)|upper_aerodigestive_tract(1)	88		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)					7	129					0	0	1	0	0
LNX1	84708	broad.mit.edu	37	4	54440038	54440038	+	Missense_Mutation	SNP	G	G	C			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr4:54440038G>C	uc003hag.4	-	1	388	c.132C>G	c.(130-132)tgC>tgG	p.C44W	PDGFRA_uc003haa.3_Intron|LNX1_uc003hah.4_Non-coding_Transcript	NM_001126328	NP_001119800	Q8TBB1	LNX1_HUMAN	Homo sapiens ligand of numb-protein X 1 (LNX1), transcript variant 1, mRNA.	44						cytoplasm	zinc ion binding			autonomic_ganglia(1)|breast(1)|central_nervous_system(3)|endometrium(3)|large_intestine(11)|lung(6)|ovary(3)|urinary_tract(4)	32	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	1	0	0
KIAA1549	57670	broad.mit.edu	37	7	138597183	138597183	+	Missense_Mutation	SNP	C	C	T			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr7:138597183C>T	uc011kql.2	-	2	2951	c.2902G>A	c.(2902-2904)Gag>Aag	p.E968K	KIAA1549_uc011kqj.2_Missense_Mutation_p.E968K	NM_001164665	NP_001158137	Q9HCM3	K1549_HUMAN	Homo sapiens KIAA1549 (KIAA1549), transcript variant 2, mRNA.	968						integral to membrane			KIAA1549/BRAF(703)	large_intestine(4)|pancreas(1)|upper_aerodigestive_tract(2)	7						ATGATGTACTCCTGCACAGCT	0.468000			O	BRAF	pilocytic astrocytoma								22	43					0	0	1	0	0
TBCK	93627	broad.mit.edu	37	4	107216253	107216253	+	Silent	SNP	C	C	T			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr4:107216253C>T	uc010ilv.2	-	2	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_001156908	Q8TEA7	TBCK_HUMAN	Homo sapiens TBC1 domain containing kinase (TBCK), transcript variant 1, mRNA.	88	Protein kinase.					intracellular	Rab GTPase activator activity			NS(1)|endometrium(2)|kidney(1)|large_intestine(5)|lung(9)|ovary(1)|pancreas(1)|prostate(3)|stomach(1)|upper_aerodigestive_tract(1)	25						TACAGTACCTCACAGGTTTCC	0.383000													42	71					0	0	1	0	0
COL9A2	1298	broad.mit.edu	37	1	40767021	40767021	+	Missense_Mutation	SNP	C	C	T			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr1:40767021C>T	uc001cfh.1	-	31	2015	c.1903G>A	c.(1903-1905)Ggc>Agc	p.G635S	COL9A2_uc001cfi.1_Missense_Mutation_p.G454S	NM_001852	NP_001843	Q14055	CO9A2_HUMAN	Homo sapiens collagen, type IX, alpha 2 (COL9A2), mRNA.	635	Triple-helical region 1 (COL1).				axon guidance|skeletal system development	collagen type IX				endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(5)|ovary(4)|stomach(2)|urinary_tract(2)	22	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	1	0	0
LRP4	4038	broad.mit.edu	37	11	46920980	46920980	+	Missense_Mutation	SNP	C	C	T			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr11:46920980C>T	uc001ndn.4	-	4	748	c.505G>A	c.(505-507)Ggt>Agt	p.G169S	LRP4_uc009ylh.2_Missense_Mutation_p.G120S	NM_002334	NP_002325	O75096	LRP4_HUMAN	Homo sapiens low density lipoprotein receptor-related protein 4 (LRP4), mRNA.	169	LDL-receptor class A 4.				Wnt receptor signaling pathway|endocytosis|negative regulation of canonical Wnt receptor signaling pathway	integral to membrane	calcium ion binding|receptor activity			breast(7)|central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(13)|lung(24)|ovary(3)|pancreas(2)|prostate(5)|skin(2)|stomach(2)|upper_aerodigestive_tract(1)	70				Lung(87;0.159)		TCGGTGTCACCGTCGCAGTAC	0.582000													5	166					0	0	1	0	0
CLRN3	119467	broad.mit.edu	37	10	129676574	129676575	+	Missense_Mutation	DNP	TC	TC	AA			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr10:129676574_129676575TC>AA	uc001lka.1	-	2	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	Homo sapiens clarin 3 (CLRN3), mRNA.	174						integral to membrane				endometrium(1)|large_intestine(1)|lung(2)|skin(1)|upper_aerodigestive_tract(1)	6		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	1	0	0
WDR59	79726	broad.mit.edu	37	16	74919593	74919593	+	Missense_Mutation	SNP	A	A	C			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr16:74919593A>C	uc002fdh.1	-	24	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	Homo sapiens WD repeat domain 59 (WDR59), mRNA.	883										breast(3)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(4)|lung(13)|ovary(1)|prostate(1)	27						ACAAACTTCAACACTTCAGCT	0.458000													27	60					0	0	1	0	0
PTPRD	5789	broad.mit.edu	37	9	8501033	8501033	+	Missense_Mutation	SNP	T	T	C			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr9:8501033T>C	uc003zkk.3	-	23	2592	c.1849A>G	c.(1849-1851)Agt>Ggt	p.S617G	PTPRD_uc003zkp.3_Intron|PTPRD_uc003zkq.3_Intron|PTPRD_uc003zkr.3_Intron|PTPRD_uc003zks.3_Intron|PTPRD_uc022bdj.1_Intron	NM_002839	NP_002830	P23468	PTPRD_HUMAN	Homo sapiens protein tyrosine phosphatase, receptor type, D (PTPRD), transcript variant 1, mRNA.	617	Fibronectin type-III 4.				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			NS(1)|breast(7)|central_nervous_system(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(22)|liver(1)|lung(83)|ovary(4)|pancreas(1)|prostate(7)|skin(19)|stomach(3)|upper_aerodigestive_tract(5)|urinary_tract(1)	168		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		CTGGTGCAACTAATGTCTTGA	0.403000										TSP Lung(15;0.13)			3	56					0	0	1	0	0
COL27A1	85301	broad.mit.edu	37	9	117052336	117052336	+	Splice_Site	SNP	A	A	G			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr9:117052336A>G	uc011lxl.2	+	46	4207	c.4207_splice	c.e46-2	p.G1403_splice	COL27A1_uc004bii.3_Splice_Site	NM_032888	NP_116277	Q8IZC6	CORA1_HUMAN	Homo sapiens collagen, type XXVII, alpha 1 (COL27A1), mRNA.	1403	Collagen-like 13.|Pro-rich.|Triple-helical region.				cell adhesion		extracellular matrix structural constituent	p.?(2)		central_nervous_system(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(3)|kidney(4)|large_intestine(17)|lung(30)|ovary(4)|prostate(6)|skin(3)|soft_tissue(1)|stomach(1)|urinary_tract(3)	80						TTGATTTTTCAGGGACCAAAG	0.627000													3	67					0	0	1	0	0
EPCAM	4072	broad.mit.edu	37	2	47596655	47596655	+	Missense_Mutation	SNP	C	C	T			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr2:47596655C>T	uc002rvx.3	+	0	369	c.11C>T	c.(10-12)cCg>cTg	p.P4L		NM_002354	NP_002345	P16422	EPCAM_HUMAN	Homo sapiens epithelial cell adhesion molecule (EPCAM), mRNA.	4					positive regulation of cell proliferation	apical plasma membrane|basolateral plasma membrane|integral to membrane|lateral plasma membrane|tight junction	protein binding	p.0?(2)|p.?(1)		endometrium(3)|large_intestine(1)|liver(2)|lung(7)|skin(1)|stomach(1)	15						ATGGCGCCCCCGCAGGTCCTC	0.741000													2	1					0	0	1	0	0
DNAH9	1770	broad.mit.edu	37	17	11607602	11607602	+	Missense_Mutation	SNP	C	C	T			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr17:11607602C>T	uc002gne.3	+	24	5302	c.5234C>T	c.(5233-5235)gCc>gTc	p.A1745V	DNAH9_uc010coo.3_Missense_Mutation_p.A1039V	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	Homo sapiens dynein, axonemal, heavy chain 9 (DNAH9), transcript variant 2, mRNA.	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	p.A1745V(2)|p.S1744N(1)		NS(2)|autonomic_ganglia(1)|breast(15)|central_nervous_system(5)|endometrium(17)|haematopoietic_and_lymphoid_tissue(6)|kidney(17)|large_intestine(49)|liver(2)|lung(123)|ovary(6)|pancreas(1)|prostate(6)|skin(21)|stomach(2)|upper_aerodigestive_tract(13)|urinary_tract(4)	290		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	1	0	0
SPON2	10417	broad.mit.edu	37	4	1165191	1165191	+	Missense_Mutation	SNP	C	C	T			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr4:1165191C>T	uc021xkj.1	-	4	929	c.304G>A	c.(304-306)Gag>Aag	p.E102K	SPON2_uc003gco.4_Missense_Mutation_p.E102K|SPON2_uc010ibr.3_Missense_Mutation_p.E102K|SPON2_uc003gcm.1_Missense_Mutation_p.E20K	NM_001199021	NP_001185950	Q9BUD6	SPON2_HUMAN	Homo sapiens spondin 2, extracellular matrix protein (SPON2), transcript variant 3, mRNA.	102	Spondin.				axon guidance|cell adhesion|innate immune response	proteinaceous extracellular matrix	metal ion binding			central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(2)|pancreas(1)|skin(1)	9			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	1	0	0
ALG3	10195	broad.mit.edu	37	3	183963511	183963511	+	Missense_Mutation	SNP	C	C	T			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr3:183963511C>T	uc003fne.2	-	1	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_uc011brf.1_Intron	NM_005787	NP_005778	Q92685	ALG3_HUMAN	Homo sapiens asparagine-linked glycosylation 3, alpha-1,3- mannosyltransferase homolog (S. cerevisiae) (ALG3), transcript variant 1, mRNA.	96					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			kidney(1)|large_intestine(1)|lung(6)|upper_aerodigestive_tract(1)	9	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	1	0	0
MPDZ	8777	broad.mit.edu	37	9	13138104	13138104	+	Missense_Mutation	SNP	A	A	G			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr9:13138104A>G	uc010mhy.3	-	27	4109	c.4052T>C	c.(4051-4053)aTt>aCt	p.I1351T	MPDZ_uc003zky.4_5'Flank|MPDZ_uc010mib.3_Missense_Mutation_p.I56T|MPDZ_uc010mhx.3_Missense_Mutation_p.I173T|MPDZ_uc011lmm.2_Missense_Mutation_p.I210T|MPDZ_uc003zkz.4_Missense_Mutation_p.I44T|MPDZ_uc010mhz.3_Missense_Mutation_p.I1318T|MPDZ_uc011lmn.2_Missense_Mutation_p.I1318T|MPDZ_uc003zlb.4_Missense_Mutation_p.I1351T|MPDZ_uc010mia.1_Missense_Mutation_p.I1351T	NM_003829	NP_003820	O75970	MPDZ_HUMAN	Homo sapiens multiple PDZ domain protein (MPDZ), mRNA.	1351	PDZ 8.				interspecies interaction between organisms	apical plasma membrane|dendrite|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	protein C-terminus binding			NS(1)|breast(2)|central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(4)|kidney(2)|large_intestine(14)|lung(15)|ovary(5)|prostate(7)|stomach(1)|urinary_tract(2)	61				GBM - Glioblastoma multiforme(50;2.03e-06)		CTCCAGTTCAATCATATGCAG	0.403000													13	16					0	0	1	0	0
CCNT1	904	broad.mit.edu	37	12	49087252	49087252	+	Missense_Mutation	SNP	C	C	A			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr12:49087252C>A	uc001rsd.4	-	8	2068	c.1745G>T	c.(1744-1746)gGg>gTg	p.G582V	CCNT1_uc009zkz.2_Missense_Mutation_p.G297V|CCNT1_uc021qxk.1_5'Flank	NM_001240	NP_001231	O60563	CCNT1_HUMAN	Homo sapiens cyclin T1 (CCNT1), mRNA.	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			breast(3)|endometrium(1)|kidney(1)|large_intestine(4)|lung(13)|ovary(3)|skin(2)	27						AAACACAGCCCCTCCAGTCTC	0.458000													41	46					0	0	1	0	0
F2RL2	2151	broad.mit.edu	37	5	75914398	75914398	+	Missense_Mutation	SNP	G	G	T	rs140813985		TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr5:75914398G>T	uc003kem.3	-	1	319	c.134C>A	c.(133-135)cCa>cAa	p.P45Q	IQGAP2_uc003kek.3_Intron|IQGAP2_uc010izv.2_Intron|IQGAP2_uc011csv.2_Intron|IQGAP2_uc003kel.3_Intron|F2RL2_uc011csw.2_Missense_Mutation_p.P23Q	NM_004101	NP_004092	O00254	PAR3_HUMAN	Homo sapiens coagulation factor II (thrombin) receptor-like 2 (F2RL2), mRNA.	45					platelet activation	extracellular region|integral to plasma membrane	phosphatidylinositol phospholipase C activity|protein binding|thrombin receptor activity			central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(16)|large_intestine(3)|lung(4)|ovary(1)|prostate(1)|skin(3)	32		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	0	1	0	0
FGD4	121512	broad.mit.edu	37	12	32793220	32793220	+	Missense_Mutation	SNP	C	C	T			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr12:32793220C>T	uc010ske.2	+	16	2474	c.2390C>T	c.(2389-2391)gCc>gTc	p.A797V	FGD4_uc001rlc.3_Missense_Mutation_p.A770V|FGD4_uc001rkz.3_Missense_Mutation_p.A685V|FGD4_uc001rla.3_Missense_Mutation_p.A341V|FGD4_uc001rlb.1_Non-coding_Transcript	NM_139241	NP_640334	Q96M96	FGD4_HUMAN	Homo sapiens FYVE, RhoGEF and PH domain containing 4 (FGD4), mRNA.	685					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	Golgi apparatus|cytoskeleton|cytosol|filopodium|lamellipodium|ruffle	Rho guanyl-nucleotide exchange factor activity|metal ion binding|small GTPase binding			breast(1)|central_nervous_system(1)|cervix(1)|kidney(2)|large_intestine(5)|lung(7)|ovary(2)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(3)	27	Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.204)					GACGTCAGAGCCCAGGCCACC	0.493000													60	111					0	0	1	0	0
BRAF	673	broad.mit.edu	37	7	140477832	140477846	+	In_Frame_Del	DEL	AGGTGTAGGTGCTGT	AGGTGTAGGTGCTGT	-			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr7:140477832_140477846delAGGTGTAGGTGCTGT	uc003vwc.4	-	11	1523_1537	c.1462_1476delACAGCACCTACACCT	c.(1462-1476)acagcacctacacctdel	p.TAPTP488del		NM_004333	NP_004324	P15056	BRAF_HUMAN	Homo sapiens v-raf murine sarcoma viral oncogene homolog B1 (BRAF), mRNA.	488	Protein kinase.				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.L485_P490>Y(4)|p.N486_P490del(3)	SLC45A3/BRAF(2)|AGTRAP/BRAF(2)|FAM131B_ENST00000443739/BRAF(7)|AKAP9_ENST00000356239/BRAF(10)|KIAA1549/BRAF(703)|FCHSD1/BRAF(2)	NS(588)|adrenal_gland(3)|autonomic_ganglia(3)|biliary_tract(29)|bone(7)|breast(21)|central_nervous_system(99)|cervix(6)|endometrium(33)|eye(72)|gastrointestinal_tract_(site_indeterminate)(2)|genital_tract(4)|haematopoietic_and_lymphoid_tissue(436)|kidney(3)|large_intestine(6953)|liver(17)|lung(192)|oesophagus(4)|ovary(275)|pancreas(15)|pituitary(1)|prostate(25)|salivary_gland(1)|skin(6285)|small_intestine(12)|soft_tissue(40)|stomach(11)|testis(7)|thyroid(12220)|upper_aerodigestive_tract(13)|urinary_tract(3)	27380	Melanoma(164;0.00956)				Sorafenib(DB00398)	GTAACTGCTGAGGTGTAGGTGCTGTCACATTCAAC	0.358		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				19	26	---	---	---	---					
TNN	63923	broad.mit.edu	37	1	175048656	175048656	+	Frame_Shift_Del	DEL	C	C	-			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr1:175048656delC	uc001gkl.1	+	2	710	c.597delC	c.(595-597)tacfs	p.Y199fs	TNN_uc010pmx.1_Frame_Shift_Del_p.Y199fs	NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	Homo sapiens tenascin N (TNN), mRNA.	199	EGF-like 2.				cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				NS(1)|central_nervous_system(2)|cervix(1)|endometrium(13)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(29)|liver(1)|lung(81)|ovary(5)|prostate(6)|skin(5)|stomach(4)|upper_aerodigestive_tract(3)|urinary_tract(3)	156		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	T	-			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr13:111160356delT	uc001vqx.3	+	46	4958	c.4669delT	c.(4669-4671)tatfs	p.Y1557fs		NM_001846	NP_001837	P08572	CO4A2_HUMAN	Homo sapiens collagen, type IV, alpha 2 (COL4A2), mRNA.	1557	Collagen IV NC1.				angiogenesis|axon guidance|extracellular matrix organization|negative regulation of angiogenesis	collagen type IV	extracellular matrix structural constituent|protein binding			NS(1)|central_nervous_system(3)|endometrium(4)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(4)|liver(2)|lung(48)|ovary(1)|prostate(3)|skin(5)|upper_aerodigestive_tract(3)|urinary_tract(1)	80	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	---	---	---	---					
UBR1	197131	broad.mit.edu	37	15	43270075	43270076	+	Splice_Site	INS	-	-	A			TCGA-EM-A2P2-01A-11D-A202-08	TCGA-EM-A2P2-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ffffff5c-9797-4c83-b841-120e142e999e	d44f44bd-cfb5-4d3a-8793-9c1085fff05b	g.chr15:43270075_43270076insA	uc001zqq.3	-	38	4284	c.4218_splice	c.e38+1	p.L1406_splice		NM_174916	NP_777576	Q8IWV7	UBR1_HUMAN	Homo sapiens ubiquitin protein ligase E3 component n-recognin 1 (UBR1), mRNA.	1406					cellular response to leucine|negative regulation of TOR signaling cascade	cytosol	leucine binding|zinc ion binding			NS(2)|endometrium(2)|kidney(7)|large_intestine(12)|lung(25)|pancreas(1)|prostate(2)|skin(3)|upper_aerodigestive_tract(3)|urinary_tract(1)	58		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	---	---	---	---