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
MYOM3	127294	broad.mit.edu	37	1	24383949	24383949	+	Missense_Mutation	SNP	C	T	T			TCGA-DJ-A2PP-01A-11D-A19J-08	TCGA-DJ-A2PP-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	86d5c0fc-2730-4d3d-8db0-d9a6299ec5b4	b9468d7e-7742-42c4-8295-e524ea19c877	g.chr1:24383949C>T	uc001bin.3	-	37	4382	c.4219G>A	c.(4219-4221)GTC>ATC	p.V1407I	MYOM3_uc001bil.3_Missense_Mutation_p.V300I|MYOM3_uc001bim.3_Missense_Mutation_p.V1064I	NM_152372	NP_689585	Q5VTT5	MYOM3_HUMAN	myomesin family, member 3	1407	Ig-like C2-type 4.									skin(2)|ovary(1)	3		Colorectal(325;3.55e-05)|Renal(390;0.000703)|Lung NSC(340;0.001)|all_lung(284;0.0014)|Ovarian(437;0.00351)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;5.31e-24)|Colorectal(126;7.52e-08)|COAD - Colon adenocarcinoma(152;4.01e-06)|GBM - Glioblastoma multiforme(114;4.36e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00108)|KIRC - Kidney renal clear cell carcinoma(1967;0.00404)|STAD - Stomach adenocarcinoma(196;0.00966)|READ - Rectum adenocarcinoma(331;0.0678)|Lung(427;0.153)		TTGACGAAGACGCCGTAGCGG	0.577000													10	48	---	---	---	---	0	0	0.387290	0	0
NRAS	4893	broad.mit.edu	37	1	115256529	115256529	+	Missense_Mutation	SNP	T	C	C	rs11554290		TCGA-DJ-A2PP-01A-11D-A19J-08	TCGA-DJ-A2PP-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	86d5c0fc-2730-4d3d-8db0-d9a6299ec5b4	b9468d7e-7742-42c4-8295-e524ea19c877	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)			72	113	---	---	---	---	0	0	0.870114	0	0
PGLYRP4	57115	broad.mit.edu	37	1	153315684	153315684	+	Silent	SNP	G	A	A			TCGA-DJ-A2PP-01A-11D-A19J-08	TCGA-DJ-A2PP-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	86d5c0fc-2730-4d3d-8db0-d9a6299ec5b4	b9468d7e-7742-42c4-8295-e524ea19c877	g.chr1:153315684G>A	uc001fbo.2	-	5	419	c.354C>T	c.(352-354)AAC>AAT	p.N118N	PGLYRP4_uc001fbp.2_Silent_p.N114N	NM_020393	NP_065126	Q96LB8	PGRP4_HUMAN	peptidoglycan recognition protein-I-beta	118					defense response to Gram-positive bacterium|detection of bacterium|innate immune response|peptidoglycan catabolic process	extracellular region|intracellular|membrane	N-acetylmuramoyl-L-alanine amidase activity|peptidoglycan receptor activity|zinc ion binding			ovary(3)|skin(1)	4	all_lung(78;2.81e-33)|Lung NSC(65;9.54e-32)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.171)			CAACCAGGAAGCTATGGAGCA	0.502000													29	54	---	---	---	---	0	0	0.750413	0	0
LYST	1130	broad.mit.edu	37	1	235920719	235920719	+	Silent	SNP	T	C	C			TCGA-DJ-A2PP-01A-11D-A19J-08	TCGA-DJ-A2PP-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	86d5c0fc-2730-4d3d-8db0-d9a6299ec5b4	b9468d7e-7742-42c4-8295-e524ea19c877	g.chr1:235920719T>C	uc001hxj.2	-	24	7096	c.6921A>G	c.(6919-6921)TTA>TTG	p.L2307L		NM_000081	NP_000072	Q99698	LYST_HUMAN	lysosomal trafficking regulator	2307					defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			ovary(6)|breast(4)|central_nervous_system(2)	12	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)			GGAGTTCATATAATCCACAGC	0.373000									Chediak-Higashi_syndrome				30	54	---	---	---	---	0	0	0.740014	0	0
ERCC6	2074	broad.mit.edu	37	10	50732508	50732508	+	Missense_Mutation	SNP	T	C	C			TCGA-DJ-A2PP-01A-11D-A19J-08	TCGA-DJ-A2PP-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	86d5c0fc-2730-4d3d-8db0-d9a6299ec5b4	b9468d7e-7742-42c4-8295-e524ea19c877	g.chr10:50732508T>C	uc001jhs.3	-	5	1122	c.968A>G	c.(967-969)AAA>AGA	p.K323R	PGBD3_uc001jht.2_5'Flank|PGBD3_uc009xoe.2_Missense_Mutation_p.K323R|PGBD3_uc001jhu.2_Missense_Mutation_p.K323R	NM_000124	NP_000115	Q03468	ERCC6_HUMAN	excision repair cross-complementing rodent	323					base-excision repair|positive regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair	nucleolus|soluble fraction|transcription elongation factor complex	ATP binding|chromatin binding|DNA binding|DNA-dependent ATPase activity|helicase activity|protein C-terminus binding|protein complex binding|protein N-terminus binding			lung(5)|breast(5)|ovary(3)|large_intestine(2)|skin(1)	16						CTCCTCTTTTTTGGACAGAAC	0.473000								Direct_reversal_of_damage|NER					47	79	---	---	---	---	0	0	0.870114	0	0
POLR3B	55703	broad.mit.edu	37	12	106903265	106903265	+	Missense_Mutation	SNP	T	A	A			TCGA-DJ-A2PP-01A-11D-A19J-08	TCGA-DJ-A2PP-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	86d5c0fc-2730-4d3d-8db0-d9a6299ec5b4	b9468d7e-7742-42c4-8295-e524ea19c877	g.chr12:106903265T>A	uc001tlp.2	+	28	3562	c.3340T>A	c.(3340-3342)TTC>ATC	p.F1114I	POLR3B_uc001tlq.2_Missense_Mutation_p.F1056I	NM_018082	NP_060552	Q9NW08	RPC2_HUMAN	DNA-directed RNA polymerase III B isoform 1	1114					innate immune response|positive regulation of innate immune response|positive regulation of interferon-beta production|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|ribonucleoside binding			ovary(1)|central_nervous_system(1)	2						CAAGCTGCTCTTCCAGGAACT	0.443000													36	59	---	---	---	---	0	0	0.834066	0	0
BCL8	606	broad.mit.edu	37	15	20876449	20876449	+	Missense_Mutation	SNP	G	A	A			TCGA-DJ-A2PP-01A-11D-A19J-08	TCGA-DJ-A2PP-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	86d5c0fc-2730-4d3d-8db0-d9a6299ec5b4	b9468d7e-7742-42c4-8295-e524ea19c877	g.chr15:20876449G>A	uc010tze.1	-	2	371	c.164C>T	c.(163-165)CCT>CTT	p.P55L	BCL8_uc010tzd.1_RNA	NR_027992				RecName: Full=Putative protein BCL8;												0						TACCTTTGCAGGTGTATGTAT	0.333000													3	32	---	---	---	---	0	0	0.150653	0	0
SLC12A4	6560	broad.mit.edu	37	16	67980860	67980860	+	Missense_Mutation	SNP	C	T	T			TCGA-DJ-A2PP-01A-11D-A19J-08	TCGA-DJ-A2PP-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	86d5c0fc-2730-4d3d-8db0-d9a6299ec5b4	b9468d7e-7742-42c4-8295-e524ea19c877	g.chr16:67980860C>T	uc002euz.2	-	17	2362	c.2221G>A	c.(2221-2223)GAG>AAG	p.E741K	LCAT_uc002euy.1_5'Flank|SLC12A4_uc010ceu.2_Missense_Mutation_p.E735K|SLC12A4_uc010vkh.1_Missense_Mutation_p.E710K|SLC12A4_uc010vki.1_Missense_Mutation_p.E741K|SLC12A4_uc010vkj.1_Missense_Mutation_p.E743K|SLC12A4_uc002eva.2_Missense_Mutation_p.E741K|SLC12A4_uc010cev.1_RNA|SLC12A4_uc002evb.2_RNA	NM_005072	NP_005063	Q9UP95	S12A4_HUMAN	solute carrier family 12, member 4 isoform a	741					cell volume homeostasis|potassium ion transport|sodium ion transport	integral to plasma membrane|membrane fraction	potassium:chloride symporter activity			ovary(1)	1		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0042)|Epithelial(162;0.0185)|all cancers(182;0.121)	Bumetanide(DB00887)|Potassium Chloride(DB00761)	GCCTGAGCCTCGCCATAGCTC	0.637000													26	51	---	---	---	---	0	0	0.706142	0	0
C17orf66	256957	broad.mit.edu	37	17	34185530	34185530	+	Splice_Site	SNP	C	T	T			TCGA-DJ-A2PP-01A-11D-A19J-08	TCGA-DJ-A2PP-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	86d5c0fc-2730-4d3d-8db0-d9a6299ec5b4	b9468d7e-7742-42c4-8295-e524ea19c877	g.chr17:34185530C>T	uc002hke.1	-	10	1089	c.940_splice	c.e10-1	p.A314_splice	C17orf66_uc010wck.1_Splice_Site|C17orf66_uc010wcl.1_Splice_Site_p.A274_splice|C17orf66_uc010wcm.1_Splice_Site_p.A280_splice	NM_152781	NP_689994	A2RTY3	CQ066_HUMAN	hypothetical protein LOC256957								binding			breast(2)|skin(1)	3		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0184)		TCCTAAGTGCCTATGAGGGGG	0.562000													11	21	---	---	---	---	0	0	0.361761	0	0
PTPRS	5802	broad.mit.edu	37	19	5244253	5244253	+	Missense_Mutation	SNP	T	C	C			TCGA-DJ-A2PP-01A-11D-A19J-08	TCGA-DJ-A2PP-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	86d5c0fc-2730-4d3d-8db0-d9a6299ec5b4	b9468d7e-7742-42c4-8295-e524ea19c877	g.chr19:5244253T>C	uc002mbv.2	-	11	1463	c.1229A>G	c.(1228-1230)CAG>CGG	p.Q410R	PTPRS_uc002mbu.1_Missense_Mutation_p.Q397R|PTPRS_uc010xin.1_Missense_Mutation_p.Q397R|PTPRS_uc002mbw.2_Missense_Mutation_p.Q397R|PTPRS_uc002mbx.2_Missense_Mutation_p.Q401R|PTPRS_uc002mby.2_Missense_Mutation_p.Q397R	NM_002850	NP_002841	Q13332	PTPRS_HUMAN	protein tyrosine phosphatase, receptor type,	410	Fibronectin type-III 1.|Extracellular (Potential).				cell adhesion	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0321)|Lung(535;0.182)		GGGGGGCCCCTGGCCGATGGA	0.672000													25	37	---	---	---	---	0	0	0.654019	0	0
CAPN13	92291	broad.mit.edu	37	2	30966369	30966369	+	Missense_Mutation	SNP	C	T	T			TCGA-DJ-A2PP-01A-11D-A19J-08	TCGA-DJ-A2PP-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	86d5c0fc-2730-4d3d-8db0-d9a6299ec5b4	b9468d7e-7742-42c4-8295-e524ea19c877	g.chr2:30966369C>T	uc002rnn.2	-	12	1501	c.1325G>A	c.(1324-1326)CGC>CAC	p.R442H	CAPN13_uc002rnm.2_RNA|CAPN13_uc002rno.2_5'UTR	NM_144575	NP_653176	Q6MZZ7	CAN13_HUMAN	calpain 13	442					proteolysis	intracellular	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity			large_intestine(1)|ovary(1)	2	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.155)					GAAGTTGCGGCGGAATTTATT	0.463000													70	121	---	---	---	---	0	0	0.870114	0	0
NRXN1	9378	broad.mit.edu	37	2	51254683	51254683	+	Silent	SNP	G	A	A			TCGA-DJ-A2PP-01A-11D-A19J-08	TCGA-DJ-A2PP-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	86d5c0fc-2730-4d3d-8db0-d9a6299ec5b4	b9468d7e-7742-42c4-8295-e524ea19c877	g.chr2:51254683G>A	uc010fbq.2	-	2	2206	c.729C>T	c.(727-729)TGC>TGT	p.C243C	NRXN1_uc002rxe.3_Silent_p.C243C|NRXN1_uc002rxd.1_Silent_p.C243C	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	Error:Variant_position_missing_in_P58400_after_alignment					angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			GCGAGCAGTCGCACACGGCCT	0.751000													3	21	---	---	---	---	0	0	0.150653	0	0
MTMR3	8897	broad.mit.edu	37	22	30416424	30416424	+	Missense_Mutation	SNP	C	T	T			TCGA-DJ-A2PP-01A-11D-A19J-08	TCGA-DJ-A2PP-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	86d5c0fc-2730-4d3d-8db0-d9a6299ec5b4	b9468d7e-7742-42c4-8295-e524ea19c877	g.chr22:30416424C>T	uc003agv.3	+	17	3104	c.2776C>T	c.(2776-2778)CTT>TTT	p.L926F	MTMR3_uc003agu.3_Missense_Mutation_p.L926F|MTMR3_uc003agw.3_Missense_Mutation_p.L926F	NM_021090	NP_066576	Q13615	MTMR3_HUMAN	myotubularin-related protein 3 isoform c	926					phosphatidylinositol dephosphorylation	cytoplasm|membrane|membrane fraction|nucleus	metal ion binding|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity			breast(3)|ovary(1)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(5;0.00204)|Epithelial(10;0.06)|all cancers(5;0.107)			TAAAGAGGGGCTTGTGTGCAA	0.587000													4	92	---	---	---	---	0	0	0.150653	0	0
PIGZ	80235	broad.mit.edu	37	3	196674504	196674504	+	Missense_Mutation	SNP	G	A	A			TCGA-DJ-A2PP-01A-11D-A19J-08	TCGA-DJ-A2PP-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	86d5c0fc-2730-4d3d-8db0-d9a6299ec5b4	b9468d7e-7742-42c4-8295-e524ea19c877	g.chr3:196674504G>A	uc003fxh.2	-	3	1411	c.1264C>T	c.(1264-1266)CTC>TTC	p.L422F		NM_025163	NP_079439	Q86VD9	PIGZ_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	422	Helical; (Potential).				GPI anchor biosynthetic process	integral to membrane|intrinsic to endoplasmic reticulum membrane	alpha-1,2-mannosyltransferase activity			ovary(3)	3	all_cancers(143;1.05e-08)|Ovarian(172;0.0634)|Breast(254;0.0838)		Epithelial(36;4.29e-24)|all cancers(36;2.79e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.03e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00603)		AGGGCACCGAGGGCGTTGAAG	0.652000													7	29	---	---	---	---	0	0	0.248553	0	0
C5orf42	65250	broad.mit.edu	37	5	37169007	37169007	+	Silent	SNP	T	C	C			TCGA-DJ-A2PP-01A-11D-A19J-08	TCGA-DJ-A2PP-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	86d5c0fc-2730-4d3d-8db0-d9a6299ec5b4	b9468d7e-7742-42c4-8295-e524ea19c877	g.chr5:37169007T>C	uc011cpa.1	-	34	7350	c.7119A>G	c.(7117-7119)CCA>CCG	p.P2373P	C5orf42_uc011coy.1_Silent_p.P873P|C5orf42_uc003jks.2_RNA|C5orf42_uc011coz.1_Silent_p.P1448P|C5orf42_uc003jkr.1_Silent_p.P406P	NM_023073	NP_075561	E9PH94	E9PH94_HUMAN	hypothetical protein LOC65250	2373										ovary(4)|breast(2)|skin(1)	7	all_lung(31;0.000616)		COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.177)|Colorectal(62;0.202)			TTGAGGTTGATGGAAACATAT	0.393000													28	123	---	---	---	---	0	0	0.729181	0	0
PCDHGA4	56111	broad.mit.edu	37	5	140736469	140736469	+	Missense_Mutation	SNP	C	A	A			TCGA-DJ-A2PP-01A-11D-A19J-08	TCGA-DJ-A2PP-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	86d5c0fc-2730-4d3d-8db0-d9a6299ec5b4	b9468d7e-7742-42c4-8295-e524ea19c877	g.chr5:140736469C>A	uc003ljq.1	+	1	1702	c.1702C>A	c.(1702-1704)CCT>ACT	p.P568T	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljp.1_Missense_Mutation_p.P568T	NM_018917	NP_061740	Q9Y5G9	PCDG4_HUMAN	protocadherin gamma subfamily A, 4 isoform 1	568	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCCCACCTTCCCTACTGATGG	0.577000													32	302	---	---	---	---	2.80507e-11	3.33102e-11	0.760397	1	0
TULP4	56995	broad.mit.edu	37	6	158910761	158910761	+	Missense_Mutation	SNP	C	T	T			TCGA-DJ-A2PP-01A-11D-A19J-08	TCGA-DJ-A2PP-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	86d5c0fc-2730-4d3d-8db0-d9a6299ec5b4	b9468d7e-7742-42c4-8295-e524ea19c877	g.chr6:158910761C>T	uc003qrf.2	+	9	2985	c.1628C>T	c.(1627-1629)CCA>CTA	p.P543L	TULP4_uc003qrg.2_Missense_Mutation_p.P543L	NM_020245	NP_064630	Q9NRJ4	TULP4_HUMAN	tubby like protein 4 isoform 1	543					intracellular signal transduction|response to nutrient	cytoplasm	protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Breast(66;0.000781)|Ovarian(120;0.0308)|Lung SC(201;0.164)|Prostate(117;0.171)		OV - Ovarian serous cystadenocarcinoma(65;1.64e-18)|BRCA - Breast invasive adenocarcinoma(81;2.67e-05)		CCCAAACTCCCAAGGTAATCT	0.478000													8	57	---	---	---	---	0	0	0.278610	0	0
ANKMY2	57037	broad.mit.edu	37	7	16649339	16649339	+	Silent	SNP	G	A	A			TCGA-DJ-A2PP-01A-11D-A19J-08	TCGA-DJ-A2PP-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	86d5c0fc-2730-4d3d-8db0-d9a6299ec5b4	b9468d7e-7742-42c4-8295-e524ea19c877	g.chr7:16649339G>A	uc003sti.2	-	7	998	c.798C>T	c.(796-798)ATC>ATT	p.I266I	ANKMY2_uc010ktz.2_RNA	NM_020319	NP_064715	Q8IV38	ANKY2_HUMAN	ankyrin repeat and MYND domain containing 2	266						cilium	zinc ion binding			central_nervous_system(1)	1	Lung NSC(10;0.103)|all_lung(11;0.204)			UCEC - Uterine corpus endometrioid carcinoma (126;0.195)		TTTCTCTAATGATCTTTTCTT	0.393000													9	66	---	---	---	---	0	0	0.307466	0	0
CCDC132	55610	broad.mit.edu	37	7	92869235	92869235	+	Silent	SNP	G	A	A			TCGA-DJ-A2PP-01A-11D-A19J-08	TCGA-DJ-A2PP-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	86d5c0fc-2730-4d3d-8db0-d9a6299ec5b4	b9468d7e-7742-42c4-8295-e524ea19c877	g.chr7:92869235G>A	uc003umo.2	+	2	218	c.90G>A	c.(88-90)CGG>CGA	p.R30R	CCDC132_uc003umq.2_RNA|CCDC132_uc003ump.2_5'UTR|CCDC132_uc003umr.2_RNA|CCDC132_uc011khz.1_Silent_p.R30R|CCDC132_uc003umn.2_Silent_p.R30R	NM_017667	NP_060137	Q96JG6	CC132_HUMAN	coiled-coil domain containing 132 isoform a	30											0	all_cancers(62;2.64e-11)|all_epithelial(64;1.4e-10)|Breast(17;0.000675)|Lung NSC(181;0.0618)|all_lung(186;0.0837)		STAD - Stomach adenocarcinoma(171;0.000302)			AGAGTCTCCGGGTCCCTGGAA	0.393000													34	71	---	---	---	---	0	0	0.812448	0	0
TG	7038	broad.mit.edu	37	8	133935654	133935654	+	Missense_Mutation	SNP	A	G	G			TCGA-DJ-A2PP-01A-11D-A19J-08	TCGA-DJ-A2PP-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	86d5c0fc-2730-4d3d-8db0-d9a6299ec5b4	b9468d7e-7742-42c4-8295-e524ea19c877	g.chr8:133935654A>G	uc003ytw.2	+	22	4641	c.4600A>G	c.(4600-4602)AAG>GAG	p.K1534E	TG_uc010mdw.2_Missense_Mutation_p.K293E|TG_uc011ljb.1_5'UTR|TG_uc003ytx.1_Intron	NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	1534	Thyroglobulin type-1 11.				hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		AGCCAGCCAGAAGGACAGGGG	0.572000													6	55	---	---	---	---	0	0	0.248553	0	0
Unknown	0	broad.mit.edu	37	16	32077916	32077917	+	IGR	INS	-	TTT	TTT	rs139112308	by1000genomes	TCGA-DJ-A2PP-01A-11D-A19J-08	TCGA-DJ-A2PP-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	86d5c0fc-2730-4d3d-8db0-d9a6299ec5b4	b9468d7e-7742-42c4-8295-e524ea19c877	g.chr16:32077916_32077917insTTT								ZNF267 (149290 upstream) : HERC2P4 (84693 downstream)																							ATGGAAAACGGTTATTTTTTTG	0.421													3	5	---	---	---	---					
SKA2	348235	broad.mit.edu	37	17	57232498	57232498	+	Frame_Shift_Del	DEL	T	-	-			TCGA-DJ-A2PP-01A-11D-A19J-08	TCGA-DJ-A2PP-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	86d5c0fc-2730-4d3d-8db0-d9a6299ec5b4	b9468d7e-7742-42c4-8295-e524ea19c877	g.chr17:57232498delT	uc002ixd.2	-	1	303	c.27delA	c.(25-27)GAAfs	p.E9fs	PRR11_uc002ixf.1_5'Flank|PRR11_uc002ixg.1_5'Flank|SKA2_uc010dde.1_5'UTR|SKA2_uc002ixe.2_RNA	NM_182620	NP_872426	Q8WVK7	SKA2_HUMAN	spindle and KT associated 2 isoform 1	9					cell division|chromosome segregation|mitotic anaphase|mitotic prometaphase|regulation of microtubule polymerization or depolymerization	condensed chromosome outer kinetochore|cytosol|spindle microtubule	microtubule binding				0						TCACCATCAGTTCCAGCTTAT	0.562													19	292	---	---	---	---					
Unknown	0	broad.mit.edu	37	21	9590549	9590550	+	IGR	INS	-	A	A			TCGA-DJ-A2PP-01A-11D-A19J-08	TCGA-DJ-A2PP-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	86d5c0fc-2730-4d3d-8db0-d9a6299ec5b4	b9468d7e-7742-42c4-8295-e524ea19c877	g.chr21:9590549_9590550insA								None (None upstream) : None (None downstream)																							CCCTCaaatttaaaaaattata	0.322													3	4	---	---	---	---					
HDAC2	3066	broad.mit.edu	37	6	114292109	114292110	+	In_Frame_Ins	INS	-	CTG	CTG			TCGA-DJ-A2PP-01A-11D-A19J-08	TCGA-DJ-A2PP-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	86d5c0fc-2730-4d3d-8db0-d9a6299ec5b4	b9468d7e-7742-42c4-8295-e524ea19c877	g.chr6:114292109_114292110insCTG	uc003pwd.1	-	1	245_246	c.245_246insCAG	c.(244-246)AGG>AGCAGG	p.81_82insS	uc003pwf.2_Intron|HDAC2_uc003pwc.1_5'Flank|HDAC2_uc003pwe.1_5'UTR	NM_001527	NP_001518	Q92769	HDAC2_HUMAN	histone deacetylase 2	Error:Variant_position_missing_in_Q92769_after_alignment					blood coagulation|dendrite development|embryonic digit morphogenesis|epidermal cell differentiation|eyelid development in camera-type eye|fungiform papilla formation|hair follicle placode formation|maintenance of chromatin silencing|negative regulation of apoptosis|negative regulation of cell cycle|negative regulation of neuron projection development|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|odontogenesis of dentine-containing tooth|positive regulation of cell proliferation|positive regulation of proteolysis|positive regulation of receptor biosynthetic process|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|ESC/E(Z) complex|NuRD complex|Sin3 complex	chromatin binding|enzyme binding|histone deacetylase activity (H3-K16 specific)|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|sequence-specific DNA binding|transcription factor binding			skin(2)|ovary(1)|central_nervous_system(1)	4		all_cancers(87;0.000629)|all_epithelial(87;0.00274)|Colorectal(196;0.0317)|all_lung(197;0.24)		all cancers(137;0.00318)|OV - Ovarian serous cystadenocarcinoma(136;0.00569)|Epithelial(106;0.0112)|GBM - Glioblastoma multiforme(226;0.0832)	Vorinostat(DB02546)	GGCTCCTCCTCctgctgctgct	0.520													4	5	---	---	---	---					
Unknown	0	broad.mit.edu	37	9	22823450	22823450	+	RNA	DEL	C	-	-			TCGA-DJ-A2PP-01A-11D-A19J-08	TCGA-DJ-A2PP-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	86d5c0fc-2730-4d3d-8db0-d9a6299ec5b4	b9468d7e-7742-42c4-8295-e524ea19c877	g.chr9:22823450delC	uc003zpq.1	+	6		c.1585delC								Homo sapiens cDNA FLJ35282 fis, clone PROST2007328.																		cagcaggaagcagttagagtg	0.000													2	4	---	---	---	---					
NUDT11	55190	broad.mit.edu	37	X	51239296	51239309	+	Translation_Start_Site	DEL	TCCTCGAGGCAGCC	-	-			TCGA-DJ-A2PP-01A-11D-A19J-08	TCGA-DJ-A2PP-10A-01D-A19M-08									Somatic	Phase_I	Capture				Illumina GAIIx	86d5c0fc-2730-4d3d-8db0-d9a6299ec5b4	b9468d7e-7742-42c4-8295-e524ea19c877	g.chrX:51239296_51239309delTCCTCGAGGCAGCC	uc010njt.2	-	1						NM_018159	NP_060629	Q96G61	NUD11_HUMAN	nudix-type motif 11							cytoplasm	diphosphoinositol-polyphosphate diphosphatase activity|metal ion binding				0	Ovarian(276;0.236)					TTGCACTTCATCCTCGAGGCAGCCTCCTCGAGGC	0.584										HNSCC(48;0.14)			3	6	---	---	---	---					
