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
HLA-DQB2	3120	broad.mit.edu	37	6	32725567	32725567	+	Missense_Mutation	SNP	C	C	T	rs114234640	byFrequency	TCGA-FY-A40M-01A-11D-A23M-08	TCGA-FY-A40M-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f013bd51-dfbc-4f81-88ce-2d2d1188a116	738918d8-2f03-4344-a87a-21a0e1cdca57	g.chr6:32725567C>T	ENST00000435145.2	-	4	801	c.740G>A	c.(739-741)cGt>cAt	p.R247H	HLA-DQB2_ENST00000411527.1_Intron|HLA-DQB2_ENST00000437316.2_Missense_Mutation_p.R247H			Q5SR06	Q5SR06_HUMAN	major histocompatibility complex, class II, DQ beta 2	216					antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|immune response	integral to membrane|MHC class II protein complex				endometrium(1)|kidney(1)|lung(1)|prostate(2)	5						ACCCCTGTGACGGATGATAAG	0.552000													4	18					0	0	1	0	0
DVL3	1857	broad.mit.edu	37	3	183884441	183884441	+	Missense_Mutation	SNP	G	G	A			TCGA-FY-A40M-01A-11D-A23M-08	TCGA-FY-A40M-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f013bd51-dfbc-4f81-88ce-2d2d1188a116	738918d8-2f03-4344-a87a-21a0e1cdca57	g.chr3:183884441G>A	ENST00000313143.3	+	10	1276	c.1028G>A	c.(1027-1029)gGt>gAt	p.G343D	DVL3_ENST00000431765.1_Missense_Mutation_p.G343D|EIF2B5_ENST00000444495.1_Intron	NM_004423.3	NP_004414.3	Q92997	DVL3_HUMAN	dishevelled segment polarity protein 3	343					canonical Wnt receptor signaling pathway|intracellular signal transduction|positive regulation of JUN kinase activity|positive regulation of protein phosphorylation|positive regulation of transcription, DNA-dependent	cytoplasm	beta-catenin binding|frizzled binding|protease binding|protein heterodimerization activity|signal transducer activity			breast(1)|central_nervous_system(1)|endometrium(11)|large_intestine(6)|liver(1)|lung(13)|ovary(1)|prostate(1)	35	all_cancers(143;1.12e-10)|Ovarian(172;0.0339)		Epithelial(37;2.08e-34)|OV - Ovarian serous cystadenocarcinoma(80;1.31e-22)			AGTCCACGTGGTTGCTTCACA	0.527000													11	12					0	0	1	0	0
KIT	3815	broad.mit.edu	37	4	55604659	55604659	+	Missense_Mutation	SNP	G	G	A	rs139694927		TCGA-FY-A40M-01A-11D-A23M-08	TCGA-FY-A40M-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f013bd51-dfbc-4f81-88ce-2d2d1188a116	738918d8-2f03-4344-a87a-21a0e1cdca57	g.chr4:55604659G>A	ENST00000288135.5	+	21	2964	c.2867G>A	c.(2866-2868)cGg>cAg	p.R956Q		NM_000222.2|NM_001093772.1	NP_000213.1|NP_001087241.1	P10721	KIT_HUMAN	v-kit Hardy-Zuckerman 4 feline sarcoma viral oncogene homolog	956					male gonad development|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular space|integral to membrane	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity	p.R956Q(1)|p.R956L(1)		NS(8)|autonomic_ganglia(1)|bone(21)|breast(2)|central_nervous_system(4)|endometrium(10)|eye(12)|genital_tract(18)|haematopoietic_and_lymphoid_tissue(1820)|kidney(17)|large_intestine(17)|lung(27)|ovary(23)|pancreas(4)|prostate(1)|salivary_gland(15)|skin(228)|soft_tissue(4117)|stomach(3)|testis(55)|thymus(7)|upper_aerodigestive_tract(1)	6411	all_cancers(7;0.00453)|all_lung(4;0.000565)|Lung NSC(11;0.00129)|all_epithelial(27;0.0104)|Glioma(25;0.08)|all_neural(26;0.101)		LUSC - Lung squamous cell carcinoma(32;0.000276)|Epithelial(7;0.209)	Colorectal(1;0.0276)|COAD - Colon adenocarcinoma(1;0.171)	Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	CATTCTGTGCGGATCAATTCT	0.532000		1	"""Mis, O"""		"""GIST, AML, TGCT, mastocytosis, mucosal melanoma"""	"""GIST, epithelioma"""	Piebald trait		Piebaldism;Mast Cell disease, Familial Clustering of;Gastrointestinal Stromal Tumors, Sporadic Multiple Primary;Familial Gastrointestinal Stromal Tumors				8	94					0	0	1	0	0
HMCN1	83872	broad.mit.edu	37	1	186136027	186136027	+	Missense_Mutation	SNP	G	G	A	rs150494959	byFrequency	TCGA-FY-A40M-01A-11D-A23M-08	TCGA-FY-A40M-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f013bd51-dfbc-4f81-88ce-2d2d1188a116	738918d8-2f03-4344-a87a-21a0e1cdca57	g.chr1:186136027G>A	ENST00000271588.4	+	100	15756	c.15527G>A	c.(15526-15528)cGt>cAt	p.R5176H	HMCN1_ENST00000367492.2_Missense_Mutation_p.R5176H	NM_031935.2	NP_114141.2	Q96RW7	HMCN1_HUMAN	hemicentin 1	5176	EGF-like 2; calcium-binding (Potential).				response to stimulus|visual perception	basement membrane	calcium ion binding	p.R5176H(1)		NS(2)|autonomic_ganglia(1)|breast(10)|central_nervous_system(2)|cervix(1)|endometrium(28)|haematopoietic_and_lymphoid_tissue(4)|kidney(13)|large_intestine(58)|liver(3)|lung(101)|ovary(23)|pancreas(4)|prostate(20)|skin(8)|stomach(1)|upper_aerodigestive_tract(11)|urinary_tract(18)	308						TGTGTGGTCCGTTGTGGAAGT	0.463000													26	24					0	0	1	0	0
USH1C	10083	broad.mit.edu	37	11	17542472	17542472	+	Silent	SNP	G	G	A			TCGA-FY-A40M-01A-11D-A23M-08	TCGA-FY-A40M-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f013bd51-dfbc-4f81-88ce-2d2d1188a116	738918d8-2f03-4344-a87a-21a0e1cdca57	g.chr11:17542472G>A	ENST00000005226.7	-	14	1154	c.1155C>T	c.(1153-1155)ctC>ctT	p.L385L	USH1C_ENST00000527720.1_Silent_p.L354L|USH1C_ENST00000527020.1_Silent_p.L366L|USH1C_ENST00000318024.4_Silent_p.L385L	NM_153676.3	NP_710142.1	Q9Y6N9	USH1C_HUMAN	Usher syndrome 1C (autosomal recessive, severe)	385					equilibrioception|G2/M transition of mitotic cell cycle|photoreceptor cell maintenance|sensory perception of sound	apical part of cell|cytoplasm|stereocilium	protein binding			central_nervous_system(2)|endometrium(3)|kidney(2)|large_intestine(9)|lung(25)|ovary(1)|prostate(3)|skin(1)|stomach(1)|urinary_tract(1)	48						TTTTAGGCAAGAGTAGCTGTT	0.488000													200	268					0	0	1	0	0
SLC22A23	63027	broad.mit.edu	37	6	3285329	3285329	+	Silent	SNP	G	G	A			TCGA-FY-A40M-01A-11D-A23M-08	TCGA-FY-A40M-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f013bd51-dfbc-4f81-88ce-2d2d1188a116	738918d8-2f03-4344-a87a-21a0e1cdca57	g.chr6:3285329G>A	ENST00000436008.2	-	8	2025	c.1563C>T	c.(1561-1563)agC>agT	p.S521S	SLC22A23_ENST00000380302.4_Silent_p.S240S|SLC22A23_ENST00000490273.1_Silent_p.S240S|SLC22A23_ENST00000406686.3_Silent_p.S521S|PSMG4_ENST00000451246.2_Intron			A1A5C7	S22AN_HUMAN	solute carrier family 22, member 23	521					ion transport	integral to membrane	transmembrane transporter activity			endometrium(3)|kidney(1)|large_intestine(2)|lung(6)|ovary(1)|prostate(1)	14	Ovarian(93;0.0493)	all_hematologic(90;0.0905)				CTGGGTGCTGGCTGTACTTTC	0.537000													9	11					0	0	1	0	0
MET	0	broad.mit.edu	37	7	116339286	116339286	+	Missense_Mutation	SNP	A	A	G			TCGA-FY-A40M-01A-11D-A23M-08	TCGA-FY-A40M-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f013bd51-dfbc-4f81-88ce-2d2d1188a116	738918d8-2f03-4344-a87a-21a0e1cdca57	g.chr7:116339286A>G	ENST00000397752.3	+	2	348	c.148A>G	c.(148-150)Aca>Gca	p.T50A	MET_ENST00000436117.2_Missense_Mutation_p.T50A|MET_ENST00000318493.6_Missense_Mutation_p.T50A	NM_000245.2|NM_001127500.1	NP_000236.2|NP_001120972.1	P08581	MET_HUMAN	met proto-oncogene	50	Sema.				axon guidance|cell proliferation	basal plasma membrane|integral to plasma membrane	ATP binding|hepatocyte growth factor receptor activity|protein binding			NS(10)|breast(4)|central_nervous_system(4)|endometrium(5)|haematopoietic_and_lymphoid_tissue(5)|kidney(25)|large_intestine(8)|liver(3)|lung(70)|ovary(10)|pleura(2)|prostate(4)|skin(5)|stomach(6)|testis(1)|thyroid(4)|upper_aerodigestive_tract(64)|urinary_tract(3)	233	all_cancers(3;1.25e-07)|all_epithelial(6;4.07e-08)|Lung NSC(10;0.00108)|all_lung(10;0.00125)	Ovarian(593;0.133)	GBM - Glioblastoma multiforme(2;2.31e-07)|all cancers(2;0.000419)|STAD - Stomach adenocarcinoma(10;0.000512)			CACCGCGGAAACACCCATCCA	0.438000			Mis		"""papillary renal, head-neck squamous cell """	papillary renal			Hereditary Papillary Renal Carcinoma (type 1)				3	59					0	0	1	0	0
HINT1	3094	broad.mit.edu	37	5	130495259	130495259	+	Missense_Mutation	SNP	G	G	C			TCGA-FY-A40M-01A-11D-A23M-08	TCGA-FY-A40M-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f013bd51-dfbc-4f81-88ce-2d2d1188a116	738918d8-2f03-4344-a87a-21a0e1cdca57	g.chr5:130495259G>C	ENST00000304043.5	-	3	541	c.262C>G	c.(262-264)Ctg>Gtg	p.L88V	HINT1_ENST00000506207.1_5'UTR	NM_005340.6	NP_005331.1	P49773	HINT1_HUMAN	histidine triad nucleotide binding protein 1	88	HIT.				signal transduction	cytoplasm|cytoskeleton|nucleus	hydrolase activity|protein kinase C binding			endometrium(1)|large_intestine(1)|lung(3)	5		all_cancers(142;0.0452)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)		Adenosine monophosphate(DB00131)	TTCAGGCCCAGATCAGCAGCA	0.423000													29	47					0	0	1	0	0
NUP155	9631	broad.mit.edu	37	5	37352892	37352892	+	Missense_Mutation	SNP	G	G	A			TCGA-FY-A40M-01A-11D-A23M-08	TCGA-FY-A40M-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f013bd51-dfbc-4f81-88ce-2d2d1188a116	738918d8-2f03-4344-a87a-21a0e1cdca57	g.chr5:37352892G>A	ENST00000231498.3	-	5	706	c.503C>T	c.(502-504)gCg>gTg	p.A168V	NUP155_ENST00000381843.2_Missense_Mutation_p.A109V|NUP155_ENST00000513532.1_Missense_Mutation_p.A168V	NM_153485.1	NP_705618.1	O75694	NU155_HUMAN	nucleoporin 155kDa	168					carbohydrate metabolic process|glucose transport|mRNA transport|nucleocytoplasmic transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear membrane|nuclear pore	protein binding|structural constituent of nuclear pore|transporter activity			endometrium(1)|kidney(16)|large_intestine(5)|lung(29)|ovary(2)|prostate(1)|skin(3)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	62	all_lung(31;0.000137)		COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			TACAGGGGTCGCCAAAACCAG	0.403000													3	43					0	0	1	0	0
HYDIN	54768	broad.mit.edu	37	16	71218819	71218819	+	Silent	SNP	G	G	A			TCGA-FY-A40M-01A-11D-A23M-08	TCGA-FY-A40M-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f013bd51-dfbc-4f81-88ce-2d2d1188a116	738918d8-2f03-4344-a87a-21a0e1cdca57	g.chr16:71218819G>A	ENST00000393567.2	-	3	360	c.210C>T	c.(208-210)tgC>tgT	p.C70C	HYDIN_ENST00000541601.1_Silent_p.C87C|HYDIN_ENST00000393550.2_Silent_p.C70C|HYDIN_ENST00000321489.5_Silent_p.C70C|HYDIN_ENST00000448691.1_Silent_p.C70C|HYDIN_ENST00000288168.10_Silent_p.C87C|HYDIN_ENST00000538248.1_Silent_p.C97C|HYDIN_ENST00000448089.2_Silent_p.C70C	NM_001270974.1	NP_001257903.1	Q4G0P3	HYDIN_HUMAN	HYDIN, axonemal central pair apparatus protein	70										breast(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(17)|lung(12)|ovary(2)|skin(3)|stomach(2)|upper_aerodigestive_tract(1)	43		Ovarian(137;0.0654)				TCTGTGGTCGGCACATCAAAC	0.458000													4	90					0	0	1	0	0
SMARCA4	6597	broad.mit.edu	37	19	11094890	11094890	+	Silent	SNP	C	C	T			TCGA-FY-A40M-01A-11D-A23M-08	TCGA-FY-A40M-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f013bd51-dfbc-4f81-88ce-2d2d1188a116	738918d8-2f03-4344-a87a-21a0e1cdca57	g.chr19:11094890C>T	ENST00000358026.2	+	2	347	c.63C>T	c.(61-63)ggC>ggT	p.G21G	SMARCA4_ENST00000413806.3_Silent_p.G21G|SMARCA4_ENST00000450717.3_Silent_p.G21G|SMARCA4_ENST00000590574.1_Silent_p.G21G|SMARCA4_ENST00000589677.1_Silent_p.G21G|SMARCA4_ENST00000344626.4_Silent_p.G21G|SMARCA4_ENST00000541122.2_Silent_p.G21G|SMARCA4_ENST00000444061.3_Silent_p.G21G|SMARCA4_ENST00000429416.3_Silent_p.G21G	NM_001128849.1	NP_001122321.1	P51532	SMCA4_HUMAN	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4	21	Necessary for interaction with SS18L1/CREST (By similarity).				chromatin remodeling|negative regulation of androgen receptor signaling pathway|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nuclear chromatin|SWI/SNF complex|WINAC complex	androgen receptor binding|ATP binding|DNA binding|DNA-dependent ATPase activity|helicase activity|histone acetyl-lysine binding|identical protein binding|p53 binding|protein N-terminus binding|transcription corepressor activity	p.?(1)		adrenal_gland(1)|autonomic_ganglia(1)|breast(6)|central_nervous_system(23)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(8)|large_intestine(16)|liver(4)|lung(60)|ovary(10)|pancreas(7)|prostate(3)|skin(8)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	163		all_lung(6;0.0512)|Lung NSC(9;0.0568)				CGGGCCCTGGCCCTTCCCCTG	0.716000			"""F, N, Mis"""		NSCLC								12	32					0	0	1	0	0
GALNTL5	168391	broad.mit.edu	37	7	151711750	151711750	+	Missense_Mutation	SNP	C	C	A			TCGA-FY-A40M-01A-11D-A23M-08	TCGA-FY-A40M-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f013bd51-dfbc-4f81-88ce-2d2d1188a116	738918d8-2f03-4344-a87a-21a0e1cdca57	g.chr7:151711750C>A	ENST00000392800.2	+	8	1302	c.1048C>A	c.(1048-1050)Ctc>Atc	p.L350I	GALNTL5_ENST00000431418.2_Missense_Mutation_p.L350I	NM_145292.3	NP_660335.2	Q7Z4T8	GLTL5_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase-like 5	350	Catalytic subdomain B.					Golgi membrane|integral to membrane	transferase activity, transferring glycosyl groups			NS(1)|cervix(1)|endometrium(1)|kidney(2)|large_intestine(9)|lung(11)|ovary(2)|prostate(2)|skin(3)	32	all_neural(206;0.187)	all_hematologic(28;0.0749)	OV - Ovarian serous cystadenocarcinoma(82;0.00427)	UCEC - Uterine corpus endometrioid carcinoma (81;0.18)|BRCA - Breast invasive adenocarcinoma(188;0.166)		TGGAGGCCAACTCTTTATAAT	0.383000													39	33					2.24893e-16	2.24893e-16	1	1	0
MLLT3	4300	broad.mit.edu	37	9	20414313	20414313	+	Silent	SNP	G	G	A			TCGA-FY-A40M-01A-11D-A23M-08	TCGA-FY-A40M-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f013bd51-dfbc-4f81-88ce-2d2d1188a116	738918d8-2f03-4344-a87a-21a0e1cdca57	g.chr9:20414313G>A	ENST00000380338.4	-	5	817	c.531C>T	c.(529-531)agC>agT	p.S177S	MLLT3_ENST00000355930.6_5'UTR|MLLT3_ENST00000429426.2_Silent_p.S174S|MLLT3_ENST00000475957.1_5'UTR	NM_004529.2	NP_004520.2	P42568	AF9_HUMAN	myeloid/lymphoid or mixed-lineage leukemia (trithorax homolog, Drosophila); translocated to, 3	177	Poly-Ser.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			central_nervous_system(1)|cervix(1)|endometrium(13)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(6)|lung(24)|ovary(1)|prostate(4)|skin(1)|urinary_tract(7)	66				GBM - Glioblastoma multiforme(3;4.35e-105)|Lung(42;3.48e-06)|LUSC - Lung squamous cell carcinoma(42;7.92e-05)		tgctgctactgctgctgctgc	0.527000			T	MLL	ALL								4	62					0	0	1	0	0
LTBP1	4052	broad.mit.edu	37	2	33585808	33585808	+	Missense_Mutation	SNP	A	A	T			TCGA-FY-A40M-01A-11D-A23M-08	TCGA-FY-A40M-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f013bd51-dfbc-4f81-88ce-2d2d1188a116	738918d8-2f03-4344-a87a-21a0e1cdca57	g.chr2:33585808A>T	ENST00000404816.2	+	27	4498	c.4145A>T	c.(4144-4146)gAt>gTt	p.D1382V	LTBP1_ENST00000272273.5_Missense_Mutation_p.D280V|LTBP1_ENST00000390003.4_Missense_Mutation_p.D1057V|LTBP1_ENST00000418533.2_Missense_Mutation_p.D1014V|LTBP1_ENST00000354476.3_Missense_Mutation_p.D1383V|LTBP1_ENST00000402934.1_Missense_Mutation_p.D1001V|LTBP1_ENST00000404525.1_Missense_Mutation_p.D1003V|LTBP1_ENST00000407925.1_Missense_Mutation_p.D1056V			Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding protein 1	1382	TB 3.				negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			breast(2)|central_nervous_system(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(8)|large_intestine(13)|lung(60)|ovary(4)|pancreas(1)|prostate(2)|skin(3)|upper_aerodigestive_tract(4)|urinary_tract(3)	108	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)				GGATGGGGAGATAACTGCGAA	0.502000													31	39					0	0	1	0	0
ABCA12	26154	broad.mit.edu	37	2	215845310	215845310	+	Missense_Mutation	SNP	C	C	T			TCGA-FY-A40M-01A-11D-A23M-08	TCGA-FY-A40M-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f013bd51-dfbc-4f81-88ce-2d2d1188a116	738918d8-2f03-4344-a87a-21a0e1cdca57	g.chr2:215845310C>T	ENST00000272895.7	-	31	4856	c.4637G>A	c.(4636-4638)cGc>cAc	p.R1546H	ABCA12_ENST00000389661.4_Missense_Mutation_p.R1228H	NM_173076.2	NP_775099.2	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A (ABC1), member 12	1546	ABC transporter 1.		R -> C (in dbSNP:rs13401480).		cellular homeostasis|lipid transport	integral to membrane	ATP binding|ATPase activity	p.R1546H(1)		NS(3)|breast(5)|central_nervous_system(2)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(2)|kidney(5)|large_intestine(45)|lung(44)|ovary(8)|pancreas(2)|prostate(4)|skin(6)|upper_aerodigestive_tract(2)|urinary_tract(1)	139		Renal(323;0.127)		Epithelial(149;1.01e-05)|all cancers(144;0.00112)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		GAAGGCGATGCGGTCACTCAG	0.512000													4	60					0	0	1	0	0
SLITRK4	139065	broad.mit.edu	37	X	142717102	142717102	+	Missense_Mutation	SNP	C	C	T			TCGA-FY-A40M-01A-11D-A23M-08	TCGA-FY-A40M-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f013bd51-dfbc-4f81-88ce-2d2d1188a116	738918d8-2f03-4344-a87a-21a0e1cdca57	g.chrX:142717102C>T	ENST00000381779.4	-	2	2048	c.1823G>A	c.(1822-1824)cGa>cAa	p.R608Q	SLITRK4_ENST00000338017.4_Missense_Mutation_p.R608Q|SLITRK4_ENST00000356928.1_Missense_Mutation_p.R608Q	NM_001184749.1|NM_001184750.1|NM_173078.3	NP_001171678.1|NP_001171679.1|NP_775101.1	Q8IW52	SLIK4_HUMAN	SLIT and NTRK-like family, member 4	608						integral to membrane				autonomic_ganglia(1)|breast(1)|endometrium(6)|kidney(2)|large_intestine(11)|lung(27)|ovary(2)|pancreas(2)|prostate(4)|skin(2)|upper_aerodigestive_tract(2)	60	Acute lymphoblastic leukemia(192;6.56e-05)					AGGAGGACTTCGAATGGGACC	0.418000													12	118					0	0	1	0	0
ANKH	56172	broad.mit.edu	37	5	14769190	14769190	+	Silent	SNP	G	G	A			TCGA-FY-A40M-01A-11D-A23M-08	TCGA-FY-A40M-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f013bd51-dfbc-4f81-88ce-2d2d1188a116	738918d8-2f03-4344-a87a-21a0e1cdca57	g.chr5:14769190G>A	ENST00000284268.6	-	2	537	c.207C>T	c.(205-207)ttC>ttT	p.F69F		NM_054027.4	NP_473368.1	Q9HCJ1	ANKH_HUMAN	ANKH inorganic pyrophosphate transport regulator	69					locomotory behavior|regulation of bone mineralization|skeletal system development	integral to plasma membrane|outer membrane	inorganic diphosphate transmembrane transporter activity|inorganic phosphate transmembrane transporter activity			breast(1)|central_nervous_system(1)|endometrium(2)|kidney(2)|large_intestine(4)|lung(13)|prostate(1)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)	29						CCACATTTTTGAAGTCACTCA	0.567000													22	16					0	0	1	0	0
PRG4	10216	broad.mit.edu	37	1	186275982	186275982	+	Silent	SNP	C	C	T			TCGA-FY-A40M-01A-11D-A23M-08	TCGA-FY-A40M-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f013bd51-dfbc-4f81-88ce-2d2d1188a116	738918d8-2f03-4344-a87a-21a0e1cdca57	g.chr1:186275982C>T	ENST00000445192.2	+	7	1176	c.1131C>T	c.(1129-1131)acC>acT	p.T377T	PRG4_ENST00000367484.3_Silent_p.T336T|PRG4_ENST00000367486.3_Silent_p.T334T|PRG4_ENST00000367483.4_Silent_p.T336T|PRG4_ENST00000367485.4_Silent_p.T284T	NM_005807.3	NP_005798.2	Q92954	PRG4_HUMAN	proteoglycan 4	377	59 X 8 AA repeats of K-X-P-X-P-T-T-X.				cell proliferation|immune response	extracellular region	polysaccharide binding|protein binding|scavenger receptor activity			NS(2)|breast(1)|central_nervous_system(1)|endometrium(26)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(12)|lung(33)|prostate(7)|skin(9)|upper_aerodigestive_tract(2)|urinary_tract(1)	102						CACCCACCACCCCCAAGGAGC	0.637000													4	174					0	0	1	0	0
KRTAP5-10	387273	broad.mit.edu	37	11	71276851	71276851	+	Missense_Mutation	SNP	A	A	G	rs36179995		TCGA-FY-A40M-01A-11D-A23M-08	TCGA-FY-A40M-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f013bd51-dfbc-4f81-88ce-2d2d1188a116	738918d8-2f03-4344-a87a-21a0e1cdca57	g.chr11:71276851A>G	ENST00000398531.1	+	1	243	c.218A>G	c.(217-219)gAc>gGc	p.D73G	KRTAP5-10_ENST00000376536.4_Missense_Mutation_p.D73G	NM_001012710.1	NP_001012728.1	Q6L8G5	KR510_HUMAN	keratin associated protein 5-10	73	7 X 4 AA repeats of C-C-X-P.					keratin filament				endometrium(2)|large_intestine(1)|lung(4)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)	12						TCCAAGGGGGACTGTGGCTCT	0.672000													23	286					0	0	1	0	0
BNC2	54796	broad.mit.edu	37	9	16727837	16727837	+	Nonsense_Mutation	SNP	C	C	T			TCGA-FY-A40M-01A-11D-A23M-08	TCGA-FY-A40M-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f013bd51-dfbc-4f81-88ce-2d2d1188a116	738918d8-2f03-4344-a87a-21a0e1cdca57	g.chr9:16727837C>T	ENST00000380672.4	-	3	345	c.288G>A	c.(286-288)tgG>tgA	p.W96*	BNC2_ENST00000380666.2_Nonsense_Mutation_p.W96*|BNC2_ENST00000545497.1_Intron|BNC2_ENST00000380667.2_Intron	NM_017637.5	NP_060107.3	Q6ZN30	BNC2_HUMAN	basonuclin 2	96					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	zinc ion binding			NS(2)|breast(3)|central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(16)|liver(1)|lung(22)|ovary(2)|prostate(1)|skin(1)|urinary_tract(2)	60				GBM - Glioblastoma multiforme(50;9.01e-08)		CAGCGTTTTGCCATGTCCCCA	0.403000													4	155					0	0	1	0	0
ZNF385D	79750	broad.mit.edu	37	3	21462850	21462850	+	Silent	SNP	T	T	A			TCGA-FY-A40M-01A-11D-A23M-08	TCGA-FY-A40M-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f013bd51-dfbc-4f81-88ce-2d2d1188a116	738918d8-2f03-4344-a87a-21a0e1cdca57	g.chr3:21462850T>A	ENST00000281523.2	-	8	1562	c.1044A>T	c.(1042-1044)gcA>gcT	p.A348A		NM_024697.2	NP_078973.1	Q9H6B1	Z385D_HUMAN	zinc finger protein 385D	348	Poly-Ala.					nucleus	nucleic acid binding|zinc ion binding			NS(2)|breast(2)|endometrium(3)|kidney(2)|large_intestine(13)|lung(18)|ovary(1)|prostate(1)|skin(4)	46						TCActgccactgctgctgcgg	0.542000													11	17					0	0	1	0	0
COL8A1	1295	broad.mit.edu	37	3	99514780	99514780	+	Missense_Mutation	SNP	T	T	A			TCGA-FY-A40M-01A-11D-A23M-08	TCGA-FY-A40M-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f013bd51-dfbc-4f81-88ce-2d2d1188a116	738918d8-2f03-4344-a87a-21a0e1cdca57	g.chr3:99514780T>A	ENST00000261037.3	+	5	2415	c.2035T>A	c.(2035-2037)Ttc>Atc	p.F679I	COL8A1_ENST00000273342.4_Missense_Mutation_p.F679I	NM_001850.4	NP_001841.2	P27658	CO8A1_HUMAN	collagen, type VIII, alpha 1	679	C1q.|Nonhelical region (NC1).				angiogenesis|cell adhesion	basement membrane|collagen type VIII				breast(1)|endometrium(3)|kidney(1)|large_intestine(1)|lung(15)|skin(5)|upper_aerodigestive_tract(1)	27						GGTTGCTCTATTCAAGAACAA	0.557000													28	34					0	0	1	0	0
AC105399.2	0	broad.mit.edu	37	2	78019880	78019880	+	RNA	DEL	T	T	-			TCGA-FY-A40M-01A-11D-A23M-08	TCGA-FY-A40M-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f013bd51-dfbc-4f81-88ce-2d2d1188a116	738918d8-2f03-4344-a87a-21a0e1cdca57	g.chr2:78019880delT	ENST00000422418.1	+	0	130																											TAAAAATTCCTTTTTTTTTTT	0.393													2	4	---	---	---	---					
AC079305.8	0	broad.mit.edu	37	2	178063145	178063168	+	RNA	DEL	TGGGCTCCAGCTTTGGCTCTGGCG	TGGGCTCCAGCTTTGGCTCTGGCG	-			TCGA-FY-A40M-01A-11D-A23M-08	TCGA-FY-A40M-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f013bd51-dfbc-4f81-88ce-2d2d1188a116	738918d8-2f03-4344-a87a-21a0e1cdca57	g.chr2:178063145_178063168delTGGGCTCCAGCTTTGGCTCTGGCG	ENST00000455416.1	-	0	166																											AGCTACGGCCTGGGCTCCAGCTTTGGCTCTGGCGTGGGCTCCAG	0.598													5	9	---	---	---	---					
RP11-453E17.1	0	broad.mit.edu	37	4	68632418	68632419	+	RNA	INS	-	-	ACACACAT	rs59536241	by1000genomes	TCGA-FY-A40M-01A-11D-A23M-08	TCGA-FY-A40M-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f013bd51-dfbc-4f81-88ce-2d2d1188a116	738918d8-2f03-4344-a87a-21a0e1cdca57	g.chr4:68632418_68632419insACACACAT	ENST00000500538.2	+	0	1905				RP11-453E17.1_ENST00000502758.1_RNA																							cacacacacacaTATATATAct	0.431													9	6	---	---	---	---					
MSH3	4437	broad.mit.edu	37	5	79950742	79950750	+	In_Frame_Del	DEL	CCCCCAGCT	CCCCCAGCT	-	rs3045983		TCGA-FY-A40M-01A-11D-A23M-08	TCGA-FY-A40M-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f013bd51-dfbc-4f81-88ce-2d2d1188a116	738918d8-2f03-4344-a87a-21a0e1cdca57	g.chr5:79950742_79950750delCCCCCAGCT	ENST00000265081.6	+	1	276_284	c.196_204delCCCCCAGCT	c.(196-204)del	p.PPA66del	DHFR_ENST00000439211.2_5'UTR	NM_002439.4	NP_002430.3	P20585	MSH3_HUMAN	mutS homolog 3	66					maintenance of DNA repeat elements|meiotic mismatch repair|negative regulation of DNA recombination|positive regulation of helicase activity|reciprocal meiotic recombination|somatic recombination of immunoglobulin gene segments	MutSbeta complex|nuclear chromosome	ATP binding|DNA-dependent ATPase activity|double-strand/single-strand DNA junction binding|enzyme binding|loop DNA binding|Y-form DNA binding			NS(1)|breast(1)|endometrium(2)|kidney(1)|large_intestine(6)|lung(12)|ovary(1)|prostate(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	29		Lung NSC(167;0.00479)|all_lung(232;0.00507)|Ovarian(174;0.0261)|Breast(144;0.244)		OV - Ovarian serous cystadenocarcinoma(54;2.38e-45)|Epithelial(54;1.58e-38)|all cancers(79;4.93e-33)		gCCCCCAGCGCCCCCAGCTCCCGCCTTCC	0.732								Mismatch excision repair (MMR)					8	5	---	---	---	---					
CCT6P1	0	broad.mit.edu	37	7	65222951	65222951	+	RNA	DEL	T	T	-			TCGA-FY-A40M-01A-11D-A23M-08	TCGA-FY-A40M-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f013bd51-dfbc-4f81-88ce-2d2d1188a116	738918d8-2f03-4344-a87a-21a0e1cdca57	g.chr7:65222951delT	ENST00000442266.1	+	0	561																											TTTCTGTAACTTTTTTTTTTT	0.323													3	5	---	---	---	---					
PODXL	5420	broad.mit.edu	37	7	131241030	131241035	+	In_Frame_Del	DEL	GGCGAC	GGCGAC	-	rs11277659		TCGA-FY-A40M-01A-11D-A23M-08	TCGA-FY-A40M-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f013bd51-dfbc-4f81-88ce-2d2d1188a116	738918d8-2f03-4344-a87a-21a0e1cdca57	g.chr7:131241030_131241035delGGCGAC	ENST00000541194.1	-	1	341_346	c.84_89delGTCGCC	c.(82-90)ccc>cc	p.PSP28del	PODXL_ENST00000465001.1_Intron|PODXL_ENST00000378555.3_In_Frame_Del_p.PSP28del|PODXL_ENST00000537928.1_In_Frame_Del_p.PSP28del|PODXL_ENST00000322985.9_In_Frame_Del_p.PSP28del	NM_001018111.2	NP_001018121.1	O00592	PODXL_HUMAN	podocalyxin-like	28					cell adhesion|epithelial tube formation|negative regulation of cell-cell adhesion|positive regulation of cell migration|positive regulation of cell-cell adhesion mediated by integrin|regulation of microvillus assembly	actin cytoskeleton|apical plasma membrane|centrosome|filopodium|integral to plasma membrane|lamellipodium|membrane raft|microvillus membrane|nucleolus|ruffle		p.P30_S31delPS(2)		NS(1)|breast(3)|endometrium(3)|kidney(3)|large_intestine(4)|lung(4)|pancreas(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)	24	Melanoma(18;0.162)					ATTCTGGGAGggcgacggcgacggcg	0.748													5	10	---	---	---	---					
MNX1	3110	broad.mit.edu	37	7	156802527	156802529	+	In_Frame_Del	DEL	GCC	GCC	-			TCGA-FY-A40M-01A-11D-A23M-08	TCGA-FY-A40M-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f013bd51-dfbc-4f81-88ce-2d2d1188a116	738918d8-2f03-4344-a87a-21a0e1cdca57	g.chr7:156802527_156802529delGCC	ENST00000252971.6	-	1	816_818	c.516_518delGGC	c.(514-519)gct>gc	p.AA172del		NM_005515.3	NP_005506.3	P50219	MNX1_HUMAN	motor neuron and pancreas homeobox 1	172	Poly-Ala.				humoral immune response|regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			endometrium(1)|large_intestine(1)|lung(4)|skin(1)	7	Ovarian(565;0.218)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.00301)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CGCCAGCGCAGCCGCCGCCGCCG	0.803													2	4	---	---	---	---					
KRT1	3848	broad.mit.edu	37	12	53069236	53069256	+	In_Frame_Del	DEL	TAGCTGCTACCTCCGGAGCCA	TAGCTGCTACCTCCGGAGCCA	-	rs66529359	by1000genomes	TCGA-FY-A40M-01A-11D-A23M-08	TCGA-FY-A40M-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f013bd51-dfbc-4f81-88ce-2d2d1188a116	738918d8-2f03-4344-a87a-21a0e1cdca57	g.chr12:53069236_53069256delTAGCTGCTACCTCCGGAGCCA	ENST00000252244.3	-	9	1714_1734	c.1656_1676delTGGCTCCGGAGGTAGCAGCTA	c.(1654-1677)tac>ta	p.YGSGGSSY552del		NM_006121.3	NP_006112.3	P04264	K2C1_HUMAN	keratin 1	552	Gly/Ser-rich.|Tail.				complement activation, lectin pathway|epidermis development|fibrinolysis|regulation of angiogenesis|response to oxidative stress	plasma membrane	protein binding|receptor activity|structural constituent of cytoskeleton|sugar binding	p.S557_G563delSSYGSGG(3)		breast(2)|central_nervous_system(1)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(7)|lung(11)|ovary(1)|prostate(7)|skin(3)	39						tccggagccgtagctgctacctccggagccatagctgccac	0.688													8	3	---	---	---	---					
EP400	57634	broad.mit.edu	37	12	132547093	132547094	+	In_Frame_Ins	INS	-	-	CAG	rs113304321	by1000genomes	TCGA-FY-A40M-01A-11D-A23M-08	TCGA-FY-A40M-10A-01D-A23K-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f013bd51-dfbc-4f81-88ce-2d2d1188a116	738918d8-2f03-4344-a87a-21a0e1cdca57	g.chr12:132547093_132547094insCAG	ENST00000333577.4	+	48	8398_8399	c.8289_8290insCAG	c.(8287-8292)caagca>caCAGagca	p.2763_2763Q>HR	EP400_ENST00000332482.4_In_Frame_Ins_p.2690_2690Q>HR|EP400_ENST00000330386.6_In_Frame_Ins_p.2646_2646Q>HR|EP400_ENST00000389561.2_In_Frame_Ins_p.2727_2727Q>HR|EP400_ENST00000389562.2_In_Frame_Ins_p.2726_2726Q>HR			Q96L91	EP400_HUMAN	E1A binding protein p400	2763	Interaction with ZNF42 (By similarity).|Poly-Gln.				histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity	p.Q2726Q(9)		NS(1)|breast(6)|central_nervous_system(10)|cervix(1)|endometrium(21)|kidney(13)|large_intestine(25)|lung(56)|ovary(5)|prostate(8)|skin(6)|stomach(4)|upper_aerodigestive_tract(2)|urinary_tract(3)	161	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		agcagcaacaacagcagcagca	0.564													15	69	---	---	---	---					
