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
TP73	7161	broad.mit.edu	37	1	3599677	3599677	+	Missense_Mutation	SNP	A	G	G			TCGA-EM-A2CT-01A-11D-A17V-08	TCGA-EM-A2CT-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	c031db9d-3df4-4e30-bd5f-e85ab565782c	9af44b82-f5a6-400d-b9c6-4f00b6a24bdd	g.chr1:3599677A>G	uc001akp.2	+	3	229	c.119A>G	c.(118-120)GAG>GGG	p.E40G	TP73_uc001akq.2_Missense_Mutation_p.E40G	NM_005427	NP_005418	O15350	P73_HUMAN	tumor protein p73 isoform a	40	Asp/Glu-rich (acidic).|Transactivation (By similarity).				cellular response to UV|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|mismatch repair|mitotic cell cycle G1/S transition DNA damage checkpoint|negative regulation of JUN kinase activity|negative regulation of neuron apoptosis|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|protein tetramerization|response to gamma radiation|response to X-ray	chromatin|cytosol|transcription factor complex	chromatin binding|damaged DNA binding|double-stranded DNA binding|metal ion binding|p53 binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|transcription repressor activity			ovary(1)|lung(1)	2	all_cancers(77;0.0395)|Ovarian(185;0.0634)|Lung NSC(156;0.188)|all_lung(157;0.198)	all_epithelial(116;7.42e-17)|all_lung(118;1.86e-06)|Lung NSC(185;0.000163)|Renal(390;0.00357)|Breast(487;0.00446)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Lung SC(97;0.109)|Ovarian(437;0.127)		Epithelial(90;5.57e-38)|OV - Ovarian serous cystadenocarcinoma(86;1.87e-22)|GBM - Glioblastoma multiforme(42;5.72e-16)|Colorectal(212;2.22e-05)|COAD - Colon adenocarcinoma(227;8.48e-05)|Kidney(185;0.000539)|BRCA - Breast invasive adenocarcinoma(365;0.000868)|STAD - Stomach adenocarcinoma(132;0.0072)|KIRC - Kidney renal clear cell carcinoma(229;0.00751)|Lung(427;0.226)		GGGAATAATGAGGTGGTGGGC	0.587000													3	115	---	---	---	---	0	0	6.4e-05	0	0
MST1P2	11209	broad.mit.edu	37	1	16974224	16974224	+	RNA	SNP	C	G	G	rs148702086	by1000genomes	TCGA-EM-A2CT-01A-11D-A17V-08	TCGA-EM-A2CT-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	c031db9d-3df4-4e30-bd5f-e85ab565782c	9af44b82-f5a6-400d-b9c6-4f00b6a24bdd	g.chr1:16974224C>G	uc009vow.2	+	5		c.1034C>G			MST1P2_uc010ocg.1_RNA|MST1P2_uc010och.1_Intron|MST1P2_uc010oci.1_RNA|MST1P2_uc001azk.2_Intron|MST1P2_uc001azl.3_RNA|MST1P2_uc009vox.2_Intron|MST1P2_uc001azm.3_Intron					Homo sapiens cDNA FLJ53774 complete cds, moderately similar to Hepatocyte growth factor-like protein precursor.												0						TTGGTCCCAGCCCCAGAGGGA	0.652000													4	36	---	---	---	---	0	0	0.00024832	0	0
NRAS	4893	broad.mit.edu	37	1	115256529	115256529	+	Missense_Mutation	SNP	T	C	C	rs11554290		TCGA-EM-A2CT-01A-11D-A17V-08	TCGA-EM-A2CT-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	c031db9d-3df4-4e30-bd5f-e85ab565782c	9af44b82-f5a6-400d-b9c6-4f00b6a24bdd	g.chr1:115256529T>C	uc009wgu.2	-	3	436	c.182A>G	c.(181-183)CAA>CGA	p.Q61R		NM_002524	NP_002515	P01111	RASN_HUMAN	neuroblastoma RAS viral (v-ras) oncogene homolog	61	GTP.		Q -> K (in neuroblastoma cell).		activation of MAPKK activity|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	Golgi membrane|plasma membrane	GTP binding|GTPase activity	p.Q61R(757)|p.Q61K(537)|p.Q61L(147)|p.Q61H(95)|p.Q61P(21)|p.Q61E(9)|p.Q61?(4)|p.Q61Q(3)|p.Q61_E62>HK(1)		haematopoietic_and_lymphoid_tissue(1008)|skin(956)|thyroid(334)|large_intestine(62)|NS(60)|soft_tissue(32)|lung(31)|upper_aerodigestive_tract(25)|urinary_tract(12)|liver(10)|adrenal_gland(9)|autonomic_ganglia(8)|testis(8)|central_nervous_system(8)|prostate(8)|breast(7)|biliary_tract(6)|ovary(6)|stomach(5)|pancreas(5)|endometrium(2)|kidney(2)|cervix(2)|eye(1)	2607	all_epithelial(7;5.11e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;4.64e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		GTACTCTTCTTGTCCAGCTGT	0.458000	Q61L(HEPG2_LIVER)|Q61R(SKMEL2_SKIN)|Q61R(KMS27_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|Q61L(IPC298_SKIN)|Q61P(TF1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|Q61L(MHHES1_BONE)|Q61R(HT1197_URINARY_TRACT)|Q61L(MELJUSO_SKIN)|Q61R(ONS76_CENTRAL_NERVOUS_SYSTEM)|Q61R(KU1919_URINARY_TRACT)|Q61L(C3A_LIVER)|Q61R(TT2609C02_THYROID)|Q61R(NCIH2347_LUNG)|Q61L(KMS21BM_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|Q61L(OCIAML3_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|Q61R(SW1271_LUNG)|Q61L(HL60_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|Q61L(MOLP8_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)	50	Mis		melanoma|MM|AML|thyroid				Noonan_syndrome	TSP Lung(23;0.16)|Multiple Myeloma(1;<1E-6)			55	105	---	---	---	---	0	0	0.000781405	0	0
DICER1	23405	broad.mit.edu	37	14	95556886	95556886	+	Missense_Mutation	SNP	T	G	G			TCGA-EM-A2CT-01A-11D-A17V-08	TCGA-EM-A2CT-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	c031db9d-3df4-4e30-bd5f-e85ab565782c	9af44b82-f5a6-400d-b9c6-4f00b6a24bdd	g.chr14:95556886T>G	uc001ydw.2	-	28	5900	c.5718A>C	c.(5716-5718)AGA>AGC	p.R1906S	DICER1_uc010avh.1_Missense_Mutation_p.R804S|DICER1_uc001ydv.2_Missense_Mutation_p.R1896S|DICER1_uc001ydx.2_Missense_Mutation_p.R1906S	NM_030621	NP_085124	Q9UPY3	DICER_HUMAN	dicer1	1906	DRBM.				negative regulation of Schwann cell proliferation|negative regulation of transcription from RNA polymerase II promoter|nerve development|neuron projection morphogenesis|peripheral nervous system myelin formation|positive regulation of myelination|positive regulation of Schwann cell differentiation|pre-miRNA processing|production of siRNA involved in RNA interference|targeting of mRNA for destruction involved in RNA interference	cytosol|RNA-induced silencing complex	ATP binding|ATP-dependent helicase activity|double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity			skin(2)|ovary(1)|pancreas(1)|lung(1)	5		all_cancers(154;0.0621)|all_epithelial(191;0.223)		Epithelial(152;0.211)|COAD - Colon adenocarcinoma(157;0.215)		GGAGGGCTCTTCTTGCTGCTG	0.418000			Mis F|N			pleuropulmonary blastoma			DICER_1_syndrome_|Familial_Multinodular_Goiter_				59	106	---	---	---	---	0	0	0.000781405	0	0
GOLGA6L10	647042	broad.mit.edu	37	15	82635117	82635117	+	RNA	SNP	T	C	C			TCGA-EM-A2CT-01A-11D-A17V-08	TCGA-EM-A2CT-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	c031db9d-3df4-4e30-bd5f-e85ab565782c	9af44b82-f5a6-400d-b9c6-4f00b6a24bdd	g.chr15:82635117T>C	uc002bgx.2	-	5		c.463A>G						A6NI86	GG6LA_HUMAN	Homo sapiens cDNA FLJ40113 fis, clone TESTI2008621.												0						TTTTTCAATTTCTTGACCCGC	0.383000													3	15	---	---	---	---	0	0	0.00024832	0	0
GOLGA6L5	374650	broad.mit.edu	37	15	85053142	85053142	+	RNA	SNP	C	T	T			TCGA-EM-A2CT-01A-11D-A17V-08	TCGA-EM-A2CT-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	c031db9d-3df4-4e30-bd5f-e85ab565782c	9af44b82-f5a6-400d-b9c6-4f00b6a24bdd	g.chr15:85053142C>T	uc002bkm.2	-	9		c.1905G>A			uc002bkl.1_5'Flank	NR_003246				Homo sapiens cDNA FLJ33459 fis, clone BRAMY2000585.												0						TTTTTCAATTCCTTGACCCGC	0.393000													4	18	---	---	---	---	0	0	0.000274275	0	0
Unknown	0	broad.mit.edu	37	17	21731144	21731144	+	Missense_Mutation	SNP	T	G	G	rs149119138	by1000genomes	TCGA-EM-A2CT-01A-11D-A17V-08	TCGA-EM-A2CT-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	c031db9d-3df4-4e30-bd5f-e85ab565782c	9af44b82-f5a6-400d-b9c6-4f00b6a24bdd	g.chr17:21731144T>G	uc002gyy.3	+	2	571	c.446T>G	c.(445-447)CTG>CGG	p.L149R						SubName: Full=cDNA FLJ51326, highly similar to Homo sapiens ubiquitin B (UBB), mRNA;																		GTCCTGCGTCTGAGAGGTGGT	0.542000													5	109	---	---	---	---	0	0	0.000602214	0	0
KRTAP4-12	83755	broad.mit.edu	37	17	39279800	39279800	+	Missense_Mutation	SNP	C	T	T			TCGA-EM-A2CT-01A-11D-A17V-08	TCGA-EM-A2CT-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	c031db9d-3df4-4e30-bd5f-e85ab565782c	9af44b82-f5a6-400d-b9c6-4f00b6a24bdd	g.chr17:39279800C>T	uc002hwa.2	-	1	620	c.575G>A	c.(574-576)CGC>CAC	p.R192H		NM_031854	NP_114060	Q9BQ66	KR412_HUMAN	keratin associated protein 4-12	192						keratin filament					0		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000371)			GCACAAGGGGCGGGGGCAGGT	0.483000													6	17	---	---	---	---	0	0	3.59834e-05	0	0
WDR7	23335	broad.mit.edu	37	18	54603138	54603138	+	Splice_Site	SNP	T	C	C			TCGA-EM-A2CT-01A-11D-A17V-08	TCGA-EM-A2CT-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	c031db9d-3df4-4e30-bd5f-e85ab565782c	9af44b82-f5a6-400d-b9c6-4f00b6a24bdd	g.chr18:54603138T>C	uc002lgk.1	+	23	4042	c.3831_splice	c.e23+2	p.E1277_splice	WDR7_uc002lgl.1_Splice_Site_p.E1244_splice	NM_015285	NP_056100	Q9Y4E6	WDR7_HUMAN	rabconnectin-3 beta isoform 1											ovary(2)|skin(1)	3				Lung(128;0.0238)|Colorectal(16;0.0296)		GCCAAAGAGGTGAGCGGAACT	0.517000													10	90	---	---	---	---	0	0	0.000442599	0	0
SLC9A4	389015	broad.mit.edu	37	2	103141530	103141530	+	Missense_Mutation	SNP	G	T	T			TCGA-EM-A2CT-01A-11D-A17V-08	TCGA-EM-A2CT-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	c031db9d-3df4-4e30-bd5f-e85ab565782c	9af44b82-f5a6-400d-b9c6-4f00b6a24bdd	g.chr2:103141530G>T	uc002tbz.3	+	10	2323	c.1866G>T	c.(1864-1866)AAG>AAT	p.K622N		NM_001011552	NP_001011552	Q6AI14	SL9A4_HUMAN	solute carrier family 9 (sodium/hydrogen	622	Cytoplasmic (Potential).				regulation of pH	apical plasma membrane|basolateral plasma membrane|integral to membrane	sodium:hydrogen antiporter activity			skin(2)|central_nervous_system(1)	3						CAAGTGAGAAGCAGGCTAAAG	0.498000													8	209	---	---	---	---	1.12685e-05	0.000289642	0.000274275	1	0
DDX11L2	84771	broad.mit.edu	37	2	114357557	114357557	+	Nonstop_Mutation	SNP	A	G	G	rs115341812	by1000genomes	TCGA-EM-A2CT-01A-11D-A17V-08	TCGA-EM-A2CT-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	c031db9d-3df4-4e30-bd5f-e85ab565782c	9af44b82-f5a6-400d-b9c6-4f00b6a24bdd	g.chr2:114357557A>G	uc010yxx.1	-	3	709	c.382T>C	c.(382-384)TAG>CAG	p.*128Q						SubName: Full=DEAD/H box polypeptide 11 like 2;												0						GCCTACTTCTAGTGAAACTGG	0.567000													4	43	---	---	---	---	0	0	0.00024832	0	0
IRS1	3667	broad.mit.edu	37	2	227661463	227661463	+	Missense_Mutation	SNP	C	A	A			TCGA-EM-A2CT-01A-11D-A17V-08	TCGA-EM-A2CT-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	c031db9d-3df4-4e30-bd5f-e85ab565782c	9af44b82-f5a6-400d-b9c6-4f00b6a24bdd	g.chr2:227661463C>A	uc002voh.3	-	1	2044	c.1992G>T	c.(1990-1992)ATG>ATT	p.M664I		NM_005544	NP_005535	P35568	IRS1_HUMAN	insulin receptor substrate 1	664	YXXM motif 5.				fibroblast growth factor receptor signaling pathway|glucose homeostasis|insulin receptor signaling pathway|negative regulation of insulin receptor signaling pathway|negative regulation of insulin secretion|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of insulin receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity	caveola|cytosol|insulin receptor complex|microsome|nucleus	insulin receptor binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase binding|protein kinase C binding|SH2 domain binding|transmembrane receptor protein tyrosine kinase adaptor activity			lung(5)|central_nervous_system(4)|ovary(2)|pancreas(1)	12		Renal(207;0.023)|all_lung(227;0.0994)|all_hematologic(139;0.118)|Esophageal squamous(248;0.23)		Epithelial(121;3.03e-11)|all cancers(144;2.42e-08)|Lung(261;0.00712)|LUSC - Lung squamous cell carcinoma(224;0.0137)		TGGGGGACATCATCATGTAGC	0.522000											OREG0015248	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	97	---	---	---	---	2.0095e-06	5.36381e-05	8.12818e-05	1	0
NGEF	25791	broad.mit.edu	37	2	233744290	233744290	+	Missense_Mutation	SNP	A	G	G			TCGA-EM-A2CT-01A-11D-A17V-08	TCGA-EM-A2CT-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	c031db9d-3df4-4e30-bd5f-e85ab565782c	9af44b82-f5a6-400d-b9c6-4f00b6a24bdd	g.chr2:233744290A>G	uc002vts.2	-	15	2290	c.2042T>C	c.(2041-2043)CTC>CCC	p.L681P	NGEF_uc010zmm.1_Missense_Mutation_p.L404P|NGEF_uc010fyg.1_Missense_Mutation_p.L589P	NM_019850	NP_062824	Q8N5V2	NGEF_HUMAN	neuronal guanine nucleotide exchange factor	681					apoptosis|cell differentiation|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|nervous system development|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|growth cone|plasma membrane	Rho guanyl-nucleotide exchange factor activity			ovary(3)|central_nervous_system(3)|skin(1)	7		Breast(86;0.00279)|Renal(207;0.00339)|all_hematologic(139;0.00793)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0271)|Lung NSC(271;0.0839)		Epithelial(121;8.65e-17)|BRCA - Breast invasive adenocarcinoma(100;0.00037)|LUSC - Lung squamous cell carcinoma(224;0.00813)|Lung(119;0.00984)|GBM - Glioblastoma multiforme(43;0.0604)		ACATTCCTTGAGGTTCTGGGA	0.592000													4	113	---	---	---	---	0	0	0.00024832	0	0
OSMR	9180	broad.mit.edu	37	5	38925336	38925336	+	Missense_Mutation	SNP	A	G	G			TCGA-EM-A2CT-01A-11D-A17V-08	TCGA-EM-A2CT-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	c031db9d-3df4-4e30-bd5f-e85ab565782c	9af44b82-f5a6-400d-b9c6-4f00b6a24bdd	g.chr5:38925336A>G	uc003jln.1	+	15	2442	c.2075A>G	c.(2074-2076)GAC>GGC	p.D692G	OSMR_uc011cpj.1_5'UTR	NM_003999	NP_003990	Q99650	OSMR_HUMAN	oncostatin M receptor precursor	692	Fibronectin type-III 4.|Extracellular (Potential).				cell proliferation|positive regulation of cell proliferation	oncostatin-M receptor complex	growth factor binding|oncostatin-M receptor activity			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5	all_lung(31;0.000365)					TACAAAATTGACAACCCGGAA	0.348000													3	82	---	---	---	---	0	0	6.4e-05	0	0
SYNJ2	8871	broad.mit.edu	37	6	158505093	158505094	+	Missense_Mutation	DNP	CG	AT	AT			TCGA-EM-A2CT-01A-11D-A17V-08	TCGA-EM-A2CT-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	c031db9d-3df4-4e30-bd5f-e85ab565782c	9af44b82-f5a6-400d-b9c6-4f00b6a24bdd	g.chr6:158505093_158505094CG>AT	uc003qqx.1	+	22	3170_3171	c.3095_3096CG>AT	c.(3094-3096)TCG>TAT	p.S1032Y	SYNJ2_uc003qqw.1_Missense_Mutation_p.S1032Y|SYNJ2_uc003qqy.1_Missense_Mutation_p.S745Y|SYNJ2_uc003qqz.1_Missense_Mutation_p.S649Y|SYNJ2_uc003qra.1_Missense_Mutation_p.S375Y|SYNJ2_uc010kjp.1_5'Flank	NM_003898	NP_003889	O15056	SYNJ2_HUMAN	synaptojanin 2	1032	Catalytic (By similarity).						nucleotide binding|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|RNA binding			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(65;4.42e-18)|BRCA - Breast invasive adenocarcinoma(81;4.23e-05)		CCTGGAGTCTCGGACAGTGAAC	0.515000													7	302	---	---	---	---	0	0	6.4e-05	0	0
TRY6	154754	broad.mit.edu	37	7	142481342	142481342	+	Missense_Mutation	SNP	G	C	C	rs146962136	by1000genomes	TCGA-EM-A2CT-01A-11D-A17V-08	TCGA-EM-A2CT-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	c031db9d-3df4-4e30-bd5f-e85ab565782c	9af44b82-f5a6-400d-b9c6-4f00b6a24bdd	g.chr7:142481342G>C	uc011ksq.1	+	3	499	c.416G>C	c.(415-417)TGC>TCC	p.C139S	uc003vzp.2_Intron|uc011ksh.1_Intron|uc011ksi.1_Intron|uc003vzw.1_Intron|uc010loj.1_Intron|uc003wad.2_Intron|uc003wag.1_Intron|uc003wan.1_Intron|TRY6_uc011ksr.1_RNA	NR_001296				SubName: Full=Protease, serine, 3; Flags: Fragment;												0						GGCACCGAGTGCCTTATCTCC	0.557000													3	30	---	---	---	---	0	0	0.00024832	0	0
IFNA4	3441	broad.mit.edu	37	9	21187385	21187385	+	Missense_Mutation	SNP	T	G	G			TCGA-EM-A2CT-01A-11D-A17V-08	TCGA-EM-A2CT-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	c031db9d-3df4-4e30-bd5f-e85ab565782c	9af44b82-f5a6-400d-b9c6-4f00b6a24bdd	g.chr9:21187385T>G	uc003zon.2	-	1	214	c.146A>C	c.(145-147)CAT>CCT	p.H49P		NM_021068	NP_066546	P05014	IFNA4_HUMAN	interferon, alpha 4 precursor	49					blood coagulation|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|interferon-alpha/beta receptor binding			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(5;2.69e-202)|Lung(24;2.26e-22)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)		GCAGGAGAAATGAGAGATTCT	0.517000													3	148	---	---	---	---	0	0	0.00024832	0	0
Unknown	0	broad.mit.edu	37	1	148855840	148855842	+	IGR	DEL	GGT	-	-	rs60282471		TCGA-EM-A2CT-01A-11D-A17V-08	TCGA-EM-A2CT-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	c031db9d-3df4-4e30-bd5f-e85ab565782c	9af44b82-f5a6-400d-b9c6-4f00b6a24bdd	g.chr1:148855840_148855842delGGT								NBPF16 (97529 upstream) : LOC645166 (72444 downstream)																							aagccgcggcggtggcggcggag	0.335													7	14	---	---	---	---					
MICALCL	84953	broad.mit.edu	37	11	12316384	12316389	+	In_Frame_Del	DEL	CTCCTA	-	-	rs3812754	byFrequency	TCGA-EM-A2CT-01A-11D-A17V-08	TCGA-EM-A2CT-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	c031db9d-3df4-4e30-bd5f-e85ab565782c	9af44b82-f5a6-400d-b9c6-4f00b6a24bdd	g.chr11:12316384_12316389delCTCCTA	uc001mkg.1	+	3	1697_1702	c.1406_1411delCTCCTA	c.(1405-1413)CCTCCTACA>CCA	p.PT470del		NM_032867	NP_116256	Q6ZW33	MICLK_HUMAN	MICAL C-terminal like	470_471					cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm	mitogen-activated protein kinase binding			skin(1)	1				Epithelial(150;0.00177)		cctcctcctcctcctACAGCGGGAGG	0.432													5	2	---	---	---	---					
Unknown	0	broad.mit.edu	37	12	57106159	57106159	+	IGR	DEL	T	-	-			TCGA-EM-A2CT-01A-11D-A17V-08	TCGA-EM-A2CT-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	c031db9d-3df4-4e30-bd5f-e85ab565782c	9af44b82-f5a6-400d-b9c6-4f00b6a24bdd	g.chr12:57106159delT								PTGES3 (24081 upstream) : NACA (52 downstream)																							CCTTTTTAAGTTTTTTTTTTT	0.373													4	9	---	---	---	---					
Unknown	0	broad.mit.edu	37	17	19091624	19091625	+	IGR	INS	-	A	A			TCGA-EM-A2CT-01A-11D-A17V-08	TCGA-EM-A2CT-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	c031db9d-3df4-4e30-bd5f-e85ab565782c	9af44b82-f5a6-400d-b9c6-4f00b6a24bdd	g.chr17:19091624_19091625insA								GRAPL (29476 upstream) : EPN2 (49065 downstream)																							TCCTGCTTGGCATGTCGCGAGA	0.480													3	6	---	---	---	---					
CGB	1082	broad.mit.edu	37	19	49528886	49528886	+	5'Flank	DEL	C	-	-	rs36051701		TCGA-EM-A2CT-01A-11D-A17V-08	TCGA-EM-A2CT-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	c031db9d-3df4-4e30-bd5f-e85ab565782c	9af44b82-f5a6-400d-b9c6-4f00b6a24bdd	g.chr19:49528886delC	uc002plv.1	-						CGB_uc010yad.1_Intron|CGB_uc002plu.1_5'Flank	NM_000737	NP_000728	P01233	CGHB_HUMAN	chorionic gonadotropin beta 3 subunit precursor						apoptosis|cell-cell signaling|cellular nitrogen compound metabolic process|female gamete generation|hormone biosynthetic process|peptide hormone processing|signal transduction	extracellular region|soluble fraction	hormone activity				0		all_epithelial(76;9.62e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		all cancers(93;0.000371)|OV - Ovarian serous cystadenocarcinoma(262;0.000503)|GBM - Glioblastoma multiforme(486;0.00518)|Epithelial(262;0.0427)	Choriogonadotropin alfa(DB00097)	CCGGCGGCAGCCCCCTCCACC	0.657													4	9	---	---	---	---					
MED15	51586	broad.mit.edu	37	22	20920814	20920816	+	In_Frame_Del	DEL	CAG	-	-			TCGA-EM-A2CT-01A-11D-A17V-08	TCGA-EM-A2CT-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	c031db9d-3df4-4e30-bd5f-e85ab565782c	9af44b82-f5a6-400d-b9c6-4f00b6a24bdd	g.chr22:20920814_20920816delCAG	uc002zsp.2	+	7	831_833	c.751_753delCAG	c.(751-753)CAGdel	p.Q262del	MED15_uc002zso.2_In_Frame_Del_p.Q191del|MED15_uc002zsq.2_In_Frame_Del_p.Q262del|MED15_uc010gso.2_In_Frame_Del_p.Q262del|MED15_uc002zsr.2_In_Frame_Del_p.Q236del|MED15_uc011ahs.1_In_Frame_Del_p.Q236del|MED15_uc002zss.2_In_Frame_Del_p.Q181del|MED15_uc011ahu.1_5'UTR	NM_001003891	NP_001003891	Q96RN5	MED15_HUMAN	mediator complex subunit 15 isoform a	262	Poly-Gln.		Missing.	Missing (in Ref. 3; BAB85034).	regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|mediator complex	protein binding			skin(1)	1	all_cancers(11;2.07e-24)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0221)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)|Epithelial(17;0.209)			acaacagcaacagcagcagcagc	0.315													10	77	---	---	---	---					
CC2D2A	57545	broad.mit.edu	37	4	15513005	15513007	+	In_Frame_Del	DEL	GAA	-	-	rs112367037		TCGA-EM-A2CT-01A-11D-A17V-08	TCGA-EM-A2CT-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	c031db9d-3df4-4e30-bd5f-e85ab565782c	9af44b82-f5a6-400d-b9c6-4f00b6a24bdd	g.chr4:15513005_15513007delGAA	uc010idv.2	+	9	921_923	c.676_678delGAA	c.(676-678)GAAdel	p.E229del	CC2D2A_uc003gnx.2_In_Frame_Del_p.E180del|CC2D2A_uc003gnu.2_In_Frame_Del_p.E229del|CC2D2A_uc003gnv.2_In_Frame_Del_p.E229del	NM_001080522	NP_001073991	Q9P2K1	C2D2A_HUMAN	coiled-coil and C2 domain containing 2A isoform	229	Poly-Glu.				cell projection organization	cilium|microtubule basal body				pancreas(2)|ovary(1)	3						GGAGGAAGGGGAAGAAGAAGAAC	0.443													10	11	---	---	---	---					
Unknown	0	broad.mit.edu	37	6	128901157	128901158	+	IGR	INS	-	T	T			TCGA-EM-A2CT-01A-11D-A17V-08	TCGA-EM-A2CT-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	c031db9d-3df4-4e30-bd5f-e85ab565782c	9af44b82-f5a6-400d-b9c6-4f00b6a24bdd	g.chr6:128901157_128901158insT								PTPRK (59287 upstream) : LAMA2 (303128 downstream)																							tcttttctttcttttttttttt	0.267													3	5	---	---	---	---					
Unknown	0	broad.mit.edu	37	8	7347247	7347247	+	IGR	DEL	T	-	-			TCGA-EM-A2CT-01A-11D-A17V-08	TCGA-EM-A2CT-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	c031db9d-3df4-4e30-bd5f-e85ab565782c	9af44b82-f5a6-400d-b9c6-4f00b6a24bdd	g.chr8:7347247delT								DEFB105A (175 upstream) : DEFB107A (6121 downstream)																							ACtttttttcttttttttttt	0.075													5	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	9	104121960	104121963	+	IGR	DEL	AAAC	-	-	rs113884218		TCGA-EM-A2CT-01A-11D-A17V-08	TCGA-EM-A2CT-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	c031db9d-3df4-4e30-bd5f-e85ab565782c	9af44b82-f5a6-400d-b9c6-4f00b6a24bdd	g.chr9:104121960_104121963delAAAC								LPPR1 (34544 upstream) : BAAT (737 downstream)																							aagactGTCTaaacaaacaaacaa	0.137													10	8	---	---	---	---					
Unknown	0	broad.mit.edu	37	X	134807674	134807674	+	IGR	DEL	A	-	-	rs67107016		TCGA-EM-A2CT-01A-11D-A17V-08	TCGA-EM-A2CT-10A-01D-A17V-08									Somatic	Phase_I	Capture				Illumina GAIIx	c031db9d-3df4-4e30-bd5f-e85ab565782c	9af44b82-f5a6-400d-b9c6-4f00b6a24bdd	g.chrX:134807674delA								DDX26B (91215 upstream) : CT45A1 (39511 downstream)																							AAATAGTATGAACTATGATTG	0.433													5	5	---	---	---	---					
