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
HRNR	388697	broad.mit.edu	37	1	152193268	152193268	+	Silent	SNP	C	T	T	rs150466362		TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr1:152193268C>T	uc001ezt.1	-	3	913	c.837G>A	c.(835-837)TCG>TCA	p.S279S		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	279	3.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			AGCTGGAAGACGAACCTGAGC	0.577													37	560					0	0	0.006999	0	0
KIAA1383	54627	broad.mit.edu	37	1	232941483	232941483	+	Silent	SNP	C	T	T			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr1:232941483C>T	uc001hvh.2	+	1	846	c.714C>T	c.(712-714)CTC>CTT	p.L238L		NM_019090	NP_061963	Q9P2G4	K1383_HUMAN	hypothetical protein LOC54627	96										ovary(1)	1		all_cancers(173;0.00528)|Prostate(94;0.122)|all_epithelial(177;0.169)				AGTCCTGCCTCTTCCGCCTGC	0.721													5	32					0	0	0.001984	0	0
MUC2	4583	broad.mit.edu	37	11	1075719	1075719	+	Missense_Mutation	SNP	G	A	A			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr11:1075719G>A	uc001lsx.1	+	2	172	c.145G>A	c.(145-147)GAC>AAC	p.D49N		NM_002457	NP_002448	Q02817	MUC2_HUMAN	mucin 2 precursor	49	VWFD 1.					inner mucus layer|outer mucus layer	protein binding			lung(1)|breast(1)	2		all_cancers(49;1.08e-07)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.191)		BRCA - Breast invasive adenocarcinoma(625;0.000207)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)	Pranlukast(DB01411)	CAAGACCTTCGACGGGGACGT	0.622													7	38					0	0	0.003080	0	0
OR5AS1	219447	broad.mit.edu	37	11	55798086	55798086	+	Missense_Mutation	SNP	C	G	G			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr11:55798086C>G	uc010riw.1	+	1	192	c.192C>G	c.(190-192)AGC>AGG	p.S64R		NM_001001921	NP_001001921	Q8N127	O5AS1_HUMAN	olfactory receptor, family 5, subfamily AS,	64	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|liver(1)|skin(1)	5	Esophageal squamous(21;0.00693)					ATTTTCTTAGCAACTTATCTT	0.348													7	57					0	0	0.001984	0	0
PDGFD	80310	broad.mit.edu	37	11	103870852	103870852	+	Nonsense_Mutation	SNP	G	A	A			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr11:103870852G>A	uc001phq.2	-	2	628	c.256C>T	c.(256-258)CAG>TAG	p.Q86*	PDGFD_uc001php.2_Nonsense_Mutation_p.Q80*	NM_025208	NP_079484	Q9GZP0	PDGFD_HUMAN	platelet derived growth factor D isoform 1	86	CUB.				positive regulation of cell division	endoplasmic reticulum lumen|extracellular region|Golgi membrane	growth factor activity			upper_aerodigestive_tract(1)|large_intestine(1)	2		Acute lymphoblastic leukemia(157;0.000994)|all_hematologic(158;0.0017)|Melanoma(852;0.0563)|all_neural(303;0.165)		BRCA - Breast invasive adenocarcinoma(274;0.00136)|Epithelial(105;0.111)		GTATTCTCCTGAGAGTGAAGC	0.458													14	202					0	0	0.020292	0	0
RDX	5962	broad.mit.edu	37	11	110134885	110134885	+	Silent	SNP	A	C	C			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr11:110134885A>C	uc001pku.2	-	5	577	c.267T>G	c.(265-267)GTT>GTG	p.V89V	RDX_uc009yxx.1_RNA|RDX_uc009yxy.2_Silent_p.V89V|RDX_uc009yxz.2_Intron|RDX_uc009yya.2_Silent_p.V57V|RDX_uc010rwe.1_Intron	NM_002906	NP_002897	P35241	RADI_HUMAN	radixin	89	FERM.				actin filament capping	cleavage furrow|cytoskeleton|extrinsic to membrane|Golgi apparatus|nucleolus|plasma membrane	actin binding				0		all_cancers(61;7.18e-13)|all_epithelial(67;2.61e-07)|Melanoma(852;1.46e-05)|all_hematologic(158;3.66e-05)|Acute lymphoblastic leukemia(157;3.95e-05)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Breast(348;0.0544)		Epithelial(105;1.13e-06)|BRCA - Breast invasive adenocarcinoma(274;9.75e-06)|all cancers(92;5.9e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0248)		ATTCCTCAGAAACATCTTCAG	0.343													7	56					0	0	0.003080	0	0
SIK2	23235	broad.mit.edu	37	11	111487048	111487048	+	Missense_Mutation	SNP	A	C	C			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr11:111487048A>C	uc001plt.2	+	2	335	c.217A>C	c.(217-219)ATG>CTG	p.M73L		NM_015191	NP_056006	Q9H0K1	SIK2_HUMAN	SNF1-like kinase 2	73	Protein kinase.				intracellular protein kinase cascade|regulation of insulin receptor signaling pathway	Golgi apparatus	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(2)|skin(1)	3						AATAATGAAAATGTTAGACCA	0.373													11	71					0	0	0.013537	0	0
CSRNP2	81566	broad.mit.edu	37	12	51470329	51470329	+	Missense_Mutation	SNP	C	T	T			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr12:51470329C>T	uc001rxu.1	-	2	314	c.16G>A	c.(16-18)GGC>AGC	p.G6S		NM_030809	NP_110436	Q9H175	CSRN2_HUMAN	TGF-beta induced apoptosis protein 12	6					apoptosis|positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0						AGACCCGAGCCCGTGAATGCA	0.522													9	153					0	0	0.006214	0	0
MYO1H	283446	broad.mit.edu	37	12	109826642	109826642	+	Missense_Mutation	SNP	T	C	C			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr12:109826642T>C	uc010sxn.1	+	1	119	c.119T>C	c.(118-120)CTC>CCC	p.L40P		NM_001101421	NP_001094891	Q8N1T3	MYO1H_HUMAN	myosin 1H	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment						myosin complex	motor activity				0						AGCGAGAACCTCATATACGTA	0.493													5	458					0	0	0.014758	0	0
TMEM120B	144404	broad.mit.edu	37	12	122190038	122190038	+	Missense_Mutation	SNP	G	A	A			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr12:122190038G>A	uc001ubc.3	+	5	514	c.370G>A	c.(370-372)GCC>ACC	p.A124T	TMEM120B_uc009zxh.2_Missense_Mutation_p.A124T	NM_001080825	NP_001074294	A0PK00	T120B_HUMAN	transmembrane protein 120B	124	Helical; (Potential).					integral to membrane					0	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;5.75e-05)|Epithelial(86;0.000128)|BRCA - Breast invasive adenocarcinoma(302;0.238)		TGGCAGGTTCGCCTACAAGGA	0.567													11	96					0	0	0.010729	0	0
ZMYM2	7750	broad.mit.edu	37	13	20638648	20638648	+	Missense_Mutation	SNP	A	G	G			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr13:20638648A>G	uc001umr.2	+	20	3393	c.3095A>G	c.(3094-3096)GAA>GGA	p.E1032G	ZMYM2_uc001ums.2_Missense_Mutation_p.E1032G|ZMYM2_uc001umt.2_Missense_Mutation_p.E1032G|ZMYM2_uc001umv.2_Missense_Mutation_p.E412G|ZMYM2_uc001umw.2_Missense_Mutation_p.E485G	NM_003453	NP_003444	Q9UBW7	ZMYM2_HUMAN	zinc finger protein 198	1032					regulation of transcription, DNA-dependent|transcription, DNA-dependent	PML body	ubiquitin conjugating enzyme binding|zinc ion binding			lung(3)|ovary(2)|prostate(1)	6		all_cancers(29;8.65e-21)|all_epithelial(30;1.04e-18)|all_lung(29;6.75e-18)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;0.000148)|Epithelial(112;0.000249)|OV - Ovarian serous cystadenocarcinoma(117;0.00816)|Lung(94;0.0173)|LUSC - Lung squamous cell carcinoma(192;0.0856)		TTTGGCGAAGAATATGAGGAA	0.343													3	8					0	0	0.009096	0	0
KIAA0284	283638	broad.mit.edu	37	14	105353382	105353382	+	Missense_Mutation	SNP	G	A	A			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr14:105353382G>A	uc010axb.2	+	12	3030	c.2806G>A	c.(2806-2808)GAG>AAG	p.E936K	INF2_uc010tyi.1_Intron|KIAA0284_uc001ypr.2_Missense_Mutation_p.E866K|KIAA0284_uc001yps.2_Missense_Mutation_p.E842K|KIAA0284_uc001ypt.2_5'Flank	NM_001112726	NP_001106197	Q9Y4F5	K0284_HUMAN	hypothetical protein LOC283638 isoform 1	936						cytoplasm|microtubule				breast(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000472)|OV - Ovarian serous cystadenocarcinoma(23;0.00596)|Epithelial(46;0.0149)|GBM - Glioblastoma multiforme(11;0.116)	Epithelial(152;0.178)		TGTGGATGCCGAGTGTGAGGG	0.662													30	41					0	0	0.008361	0	0
HERC2	8924	broad.mit.edu	37	15	28389059	28389059	+	Missense_Mutation	SNP	T	C	C			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr15:28389059T>C	uc001zbj.2	-	74	11484	c.11378A>G	c.(11377-11379)AAT>AGT	p.N3793S		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	3793					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		AAGCAGCCTATTTATGTTAAT	0.423													5	138					0	0	0.014758	0	0
HERC2	8924	broad.mit.edu	37	15	28460828	28460828	+	Missense_Mutation	SNP	G	A	A	rs140060040	byFrequency	TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr15:28460828G>A	uc001zbj.2	-	39	6255	c.6149C>T	c.(6148-6150)ACG>ATG	p.T2050M		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	2050					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		CATGAGCAGCGTGATCCACTG	0.632													12	16					0	0	0.013537	0	0
VPS13C	54832	broad.mit.edu	37	15	62201315	62201315	+	Missense_Mutation	SNP	T	C	C			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr15:62201315T>C	uc002agz.2	-	65	8928	c.8854A>G	c.(8854-8856)ATC>GTC	p.I2952V	VPS13C_uc002aha.2_Missense_Mutation_p.I2909V|VPS13C_uc002ahb.1_Missense_Mutation_p.I2952V|VPS13C_uc002ahc.1_Missense_Mutation_p.I2909V|VPS13C_uc002ahd.1_Missense_Mutation_p.I329V	NM_020821	NP_065872	Q709C8	VP13C_HUMAN	vacuolar protein sorting 13C protein isoform 2A	2952					protein localization					ovary(2)	2						TCCACCAAGATACCCCCATTC	0.348													5	51					0	0	0.014758	0	0
HERC1	8925	broad.mit.edu	37	15	63901366	63901366	+	Missense_Mutation	SNP	T	C	C			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr15:63901366T>C	uc002amp.2	-	78	14648	c.14500A>G	c.(14500-14502)ATC>GTC	p.I4834V	HERC1_uc002amo.2_RNA	NM_003922	NP_003913	Q15751	HERC1_HUMAN	hect domain and RCC1-like domain 1	4834	HECT.				protein modification process|transport	cytosol|Golgi apparatus|membrane	acid-amino acid ligase activity|ARF guanyl-nucleotide exchange factor activity			ovary(6)|breast(6)|lung(5)|central_nervous_system(2)	19						CAGTTGTTGATGGCATAGCGC	0.602													7	30					0	0	0.006214	0	0
GOLGA6L5	374650	broad.mit.edu	37	15	85056021	85056021	+	RNA	SNP	T	C	C	rs1062001		TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr15:85056021T>C	uc002bkm.2	-	6		c.539A>G				NR_003246				Homo sapiens cDNA FLJ33459 fis, clone BRAMY2000585.												0						GTAGCTGCTCTACCTTAGATG	0.502													3	15					0	0	0.004672	0	0
MAN2A2	4122	broad.mit.edu	37	15	91450665	91450665	+	Missense_Mutation	SNP	G	A	A			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr15:91450665G>A	uc010bnz.2	+	8	1251	c.1136G>A	c.(1135-1137)CGC>CAC	p.R379H	MAN2A2_uc010boa.2_Missense_Mutation_p.R421H|MAN2A2_uc002bqc.2_Missense_Mutation_p.R379H|MAN2A2_uc010uql.1_Missense_Mutation_p.R83H|MAN2A2_uc010uqm.1_Missense_Mutation_p.A26T	NM_006122	NP_006113	P49641	MA2A2_HUMAN	mannosidase, alpha, class 2A, member 2	379	Lumenal (Potential).				mannose metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-mannosidase activity|carbohydrate binding|mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase activity|zinc ion binding			large_intestine(2)|ovary(1)	3	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.229)			CCTGGTGGGCGCATCAACTGC	0.567													4	93					0	0	0.014758	0	0
ANKS4B	257629	broad.mit.edu	37	16	21261086	21261086	+	Missense_Mutation	SNP	A	G	G			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr16:21261086A>G	uc010bwp.1	+	2	242	c.199A>G	c.(199-201)ACT>GCT	p.T67A	CRYM_uc010bwq.1_Intron	NM_145865	NP_665872	Q8N8V4	ANS4B_HUMAN	harmonin-interacting ankyrin-repeat containing	67	ANK 2.									ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0565)		CTGGGGAAACACTCCTCTACA	0.463													8	85					0	0	0.004482	0	0
BCKDK	10295	broad.mit.edu	37	16	31121057	31121057	+	Missense_Mutation	SNP	C	T	T			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr16:31121057C>T	uc002eaw.3	+	4	644	c.328C>T	c.(328-330)CGC>TGC	p.R110C	BCKDK_uc002eav.3_Missense_Mutation_p.R110C|BCKDK_uc010cah.2_RNA|BCKDK_uc010cai.2_Missense_Mutation_p.R110C	NM_005881	NP_005872	O14874	BCKD_HUMAN	branched chain ketoacid dehydrogenase kinase	110					branched chain family amino acid catabolic process|peptidyl-histidine phosphorylation	mitochondrial alpha-ketoglutarate dehydrogenase complex	[3-methyl-2-oxobutanoate dehydrogenase (acetyl-transferring)] kinase activity|ATP binding|protein binding|protein serine/threonine kinase activity|two-component sensor activity			stomach(1)|breast(1)	2						CAAGGGCTTCCGCTGCCTTCC	0.572													11	96					0	0	0.010729	0	0
C17orf39	79018	broad.mit.edu	37	17	17948505	17948505	+	Missense_Mutation	SNP	T	G	G			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr17:17948505T>G	uc002gsg.1	+	2	651	c.483T>G	c.(481-483)ATT>ATG	p.I161M		NM_024052	NP_076957	Q8IVV7	CQ039_HUMAN	hypothetical protein LOC79018	161										skin(1)	1	all_neural(463;0.228)					ACTTGAAGATTAAAGGCCTTA	0.483													13	90					0	0	0.006122	0	0
KRTAP4-11	653240	broad.mit.edu	37	17	39274087	39274087	+	Missense_Mutation	SNP	G	C	C	rs141357429	by1000genomes	TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr17:39274087G>C	uc002hvz.2	-	1	520	c.481C>G	c.(481-483)CTG>GTG	p.L161V		NM_033059	NP_149048	Q9BYQ6	KR411_HUMAN	keratin associated protein 4-11	161	27.|27 X 5 AA repeats of C-C-[GIKRQVHEL]- [SPTR]-[STVQRMC].					keratin filament					0		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000371)			ACTGGACGCAGGcagcagcag	0.323													3	30					0	0	0.004672	0	0
COL1A1	1277	broad.mit.edu	37	17	48264128	48264128	+	Silent	SNP	G	A	A			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr17:48264128G>A	uc002iqm.2	-	48	3813	c.3687C>T	c.(3685-3687)CTC>CTT	p.L1229L		NM_000088	NP_000079	P02452	CO1A1_HUMAN	alpha 1 type I collagen preproprotein	1229	Fibrillar collagen NC1.				axon guidance|blood vessel development|collagen biosynthetic process|collagen fibril organization|embryonic skeletal system development|leukocyte migration|platelet activation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent|protein localization to nucleus|sensory perception of sound|skin morphogenesis|tooth mineralization|visual perception	collagen type I|extracellular space|plasma membrane	identical protein binding|platelet-derived growth factor binding		COL1A1/PDGFB(372)	soft_tissue(372)|central_nervous_system(7)|skin(1)|breast(1)|pancreas(1)	382					Collagenase(DB00048)|Palifermin(DB00039)	TGTCCACCTCGAGGTCACGGT	0.627			T	PDGFB|USP6	dermatofibrosarcoma protuberans|aneurysmal bone cyst 		Osteogenesis imperfecta						11	284					0	0	0.013537	0	0
TMEM104	54868	broad.mit.edu	37	17	72832630	72832630	+	Missense_Mutation	SNP	G	A	A			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr17:72832630G>A	uc002jls.3	+	10	1457	c.1295G>A	c.(1294-1296)GGC>GAC	p.G432D	TMEM104_uc010wrf.1_Intron|TMEM104_uc010wrg.1_Intron|TMEM104_uc010dfx.2_Missense_Mutation_p.G432D	NM_017728	NP_060198	Q8NE00	TM104_HUMAN	transmembrane protein 104	432	Helical; (Potential).					integral to membrane					0	all_lung(278;0.23)					GCGGGCACCGGCATCCAGTAC	0.652													4	49					0	0	0.014758	0	0
LAMA1	284217	broad.mit.edu	37	18	7036073	7036073	+	Silent	SNP	G	A	A	rs138401018	byFrequency	TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr18:7036073G>A	uc002knm.2	-	13	1846	c.1752C>T	c.(1750-1752)GGC>GGT	p.G584G	LAMA1_uc010wzj.1_Silent_p.G60G	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	584	Laminin IV type A 1.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TCAGGAATCCGCCAAACGCAG	0.453													4	53					0	0	0.001168	0	0
FSD1	79187	broad.mit.edu	37	19	4311913	4311913	+	Missense_Mutation	SNP	C	T	T			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr19:4311913C>T	uc002lzy.2	+	7	718	c.565C>T	c.(565-567)CCG>TCG	p.P189S	FSD1_uc002lzz.2_Missense_Mutation_p.P189S|FSD1_uc002maa.2_Missense_Mutation_p.P2S	NM_024333	NP_077309	Q9BTV5	FSD1_HUMAN	fibronectin type III and SPRY domain containing	189	Fibronectin type-III.				cell division|mitosis	cleavage furrow|microtubule|microtubule organizing center|nucleus				skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.034)|STAD - Stomach adenocarcinoma(1328;0.18)		GTGGCGCATGCCGGATGAGGA	0.632													4	81					0	0	0.014758	0	0
CLEC4M	10332	broad.mit.edu	37	19	7833752	7833752	+	Missense_Mutation	SNP	C	T	T			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr19:7833752C>T	uc002mih.2	+	8	1127	c.1009C>T	c.(1009-1011)CCC>TCC	p.P337S	CLEC4M_uc010xjw.1_Missense_Mutation_p.P293S|CLEC4M_uc010dvt.2_Missense_Mutation_p.P314S|CLEC4M_uc010dvs.2_Missense_Mutation_p.P336S|CLEC4M_uc010xjx.1_Missense_Mutation_p.P309S|CLEC4M_uc002mhz.2_Missense_Mutation_p.T230I|CLEC4M_uc002mic.2_Missense_Mutation_p.T294I|CLEC4M_uc002mia.2_Missense_Mutation_p.P224S	NM_001144910	NP_001138382	Q9H2X3	CLC4M_HUMAN	C-type lectin domain family 4, member M isoform	360	Extracellular (Probable).|C-type lectin.				cell-cell recognition|endocytosis|innate immune response|intracellular signal transduction|intracellular virion transport|leukocyte cell-cell adhesion|peptide antigen transport|viral genome replication|virion attachment to host cell surface receptor	cytoplasm|extracellular region|integral to plasma membrane	ICAM-3 receptor activity|mannose binding|metal ion binding|peptide antigen binding|virion binding			pancreas(1)	1						CAGTGGAGAACCCAACAATAG	0.512													23	186					0	0	0.006320	0	0
CIC	23152	broad.mit.edu	37	19	42799059	42799059	+	Missense_Mutation	SNP	C	T	T			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr19:42799059C>T	uc002otf.1	+	20	4583	c.4543C>T	c.(4543-4545)CGC>TGC	p.R1515C		NM_015125	NP_055940	Q96RK0	CIC_HUMAN	capicua homolog	1515					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(4)|breast(4)|lung(1)|central_nervous_system(1)|skin(1)	11		Prostate(69;0.00682)				CCGTGAGGTGCGCCAGAAGAT	0.502			T	DUX4	soft tissue sarcoma								8	60					0	0	0.004482	0	0
TTC27	55622	broad.mit.edu	37	2	32891715	32891715	+	Missense_Mutation	SNP	A	T	T			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr2:32891715A>T	uc002rom.2	+	7	1050	c.819A>T	c.(817-819)AAA>AAT	p.K273N	TTC27_uc010ymx.1_Missense_Mutation_p.K223N	NM_017735	NP_060205	Q6P3X3	TTC27_HUMAN	tetratricopeptide repeat domain 27	273							protein binding			central_nervous_system(1)	1						CTTTGGGAAAAAGAACACGGT	0.383													8	60					0	0	0.004482	0	0
CCDC88A	55704	broad.mit.edu	37	2	55544946	55544946	+	Missense_Mutation	SNP	G	T	T			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr2:55544946G>T	uc002ryv.2	-	20	4195	c.3353C>A	c.(3352-3354)ACC>AAC	p.T1118N	CCDC88A_uc010yoz.1_Missense_Mutation_p.T1119N|CCDC88A_uc010ypa.1_Missense_Mutation_p.T1118N|CCDC88A_uc002ryu.2_Missense_Mutation_p.T401N|CCDC88A_uc002rys.2_Missense_Mutation_p.T104N|CCDC88A_uc002ryw.2_Missense_Mutation_p.T402N|CCDC88A_uc010fby.1_5'UTR	NM_001135597	NP_001129069	Q3V6T2	GRDN_HUMAN	coiled-coil domain containing 88A isoform 1	1119	Potential.				activation of protein kinase B activity|cell migration|cellular membrane organization|DNA replication|lamellipodium assembly|microtubule cytoskeleton organization|regulation of actin cytoskeleton organization|regulation of cell proliferation|regulation of DNA replication|regulation of neuron projection development|TOR signaling cascade	cytoplasmic membrane-bounded vesicle|cytosol|endoplasmic reticulum|Golgi apparatus|lamellipodium|plasma membrane	actin binding|microtubule binding|phosphatidylinositol binding|protein homodimerization activity|protein kinase B binding			ovary(2)|skin(2)	4						CATGAGTGAGGTACTTTGGGA	0.333													13	87					0.000219431	0.000322498	0.020292	1	0
GPAT2	150763	broad.mit.edu	37	2	96691942	96691942	+	Missense_Mutation	SNP	A	G	G			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr2:96691942A>G	uc002svf.2	-	11	1367	c.1144T>C	c.(1144-1146)TTT>CTT	p.F382L	GPAT2_uc002svd.2_Missense_Mutation_p.F195L|GPAT2_uc002sve.2_Missense_Mutation_p.F184L|GPAT2_uc002svg.2_Missense_Mutation_p.F255L|GPAT2_uc010yuh.1_Missense_Mutation_p.F311L|GPAT2_uc002svh.2_Missense_Mutation_p.F382L	NM_207328	NP_997211	Q6NUI2	GPAT2_HUMAN	glycerol-3-phosphate acyltransferase 2,	382					glycerol-3-phosphate metabolic process|phospholipid biosynthetic process|triglyceride biosynthetic process	integral to membrane|mitochondrial outer membrane	glycerol-3-phosphate O-acyltransferase activity				0						TGCAGGGAAAAGGGCTGAGCT	0.647													3	81					0	0	0.004672	0	0
TFPI	7035	broad.mit.edu	37	2	188332562	188332562	+	Silent	SNP	G	A	A			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr2:188332562G>A	uc002upx.2	-	7	759	c.726C>T	c.(724-726)TGC>TGT	p.C242C	TFPI_uc002upy.2_Silent_p.C242C|TFPI_uc002upz.2_Silent_p.C238C	NM_006287	NP_006278	P10646	TFPI1_HUMAN	tissue factor pathway inhibitor isoform a	242	BPTI/Kunitz inhibitor 3.				blood coagulation, extrinsic pathway	extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			skin(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0554)		Coagulation factor VIIa(DB00036)	TAAATGGGCGGCATTTCCCAA	0.418													4	99					0	0	0.009096	0	0
IDH1	3417	broad.mit.edu	37	2	209113112	209113112	+	Missense_Mutation	SNP	C	T	T	rs121913500		TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr2:209113112C>T	uc002vcs.2	-	4	641	c.395G>A	c.(394-396)CGT>CAT	p.R132H	IDH1_uc002vct.2_Missense_Mutation_p.R132H|IDH1_uc002vcu.2_Missense_Mutation_p.R132H	NM_005896	NP_005887	O75874	IDHC_HUMAN	isocitrate dehydrogenase 1 (NADP+), soluble	132		Substrate.	R -> G (in a glioma sample; glioblastoma multiforme; somatic mutation).|R -> L (in a glioma sample; glioblastoma multiforme; somatic mutation; abolishes magnesium binding and alters enzyme activity so that isocitrate is no longer converted to alpha-ketoglutarate but instead alpha-ketoglutarate is converted to R(-)-2-hydroxyglutarate).|R -> S (in a glioma sample; glioblastoma multiforme; somatic mutation; abolishes magnesium binding and alters enzyme activity so that isocitrate is no longer converted to alpha-ketoglutarate but instead alpha-ketoglutarate is converted to R(-)-2-hydroxyglutarate).|R -> H (in a glioma sample; glioblastoma multiforme; somatic mutation; abolishes magnesium binding and alters enzyme activity so that isocitrate is no longer converted to alpha-ketoglutarate but instead alpha-ketoglutarate is converted to R(-)-2-hydroxyglutarate).|R -> C (in colorectal cancer and glioma samples; glioblastoma multiforme; somatic mutation; abolishes magnesium binding and alters enzyme activity so that isocitrate is no longer converted to alpha- ketoglutarate but instead alpha- ketoglutarate is converted to R(-)-2- hydroxyglutarate).		2-oxoglutarate metabolic process|cellular lipid metabolic process|glyoxylate cycle|isocitrate metabolic process|NADPH regeneration|tricarboxylic acid cycle	cytosol|peroxisomal matrix	isocitrate dehydrogenase (NADP+) activity|magnesium ion binding|NAD binding|protein homodimerization activity	p.R132H(2023)|p.R132C(344)|p.R132?(210)|p.R132G(117)|p.R132S(79)|p.R132L(58)|p.R132V(1)|p.G131_R132>VL(1)		central_nervous_system(2156)|haematopoietic_and_lymphoid_tissue(606)|bone(74)|thyroid(22)|large_intestine(4)|skin(2)|prostate(2)|autonomic_ganglia(1)|soft_tissue(1)	2868				Epithelial(149;0.0322)|LUSC - Lung squamous cell carcinoma(261;0.0711)|Lung(261;0.136)		ATAAGCATGACGACCTATGAT	0.393			Mis		gliobastoma 								29	66					0	0	0.012213	0	0
UGT1A5	54579	broad.mit.edu	37	2	234681041	234681041	+	Missense_Mutation	SNP	G	A	A			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr2:234681041G>A	uc002vuw.2	+	5	1441	c.1441G>A	c.(1441-1443)GAC>AAC	p.D481N	UGT1A8_uc002vup.2_Missense_Mutation_p.D477N|UGT1A10_uc002vur.2_Missense_Mutation_p.D477N|UGT1A9_uc002vus.2_Missense_Mutation_p.D477N|UGT1A7_uc002vut.2_Missense_Mutation_p.D477N|UGT1A6_uc002vuu.2_Missense_Mutation_p.D212N|UGT1A6_uc002vuv.3_Missense_Mutation_p.D479N|UGT1A4_uc002vux.2_Missense_Mutation_p.D481N|UGT1A3_uc002vuy.2_Missense_Mutation_p.D481N|UGT1A9_uc002vva.2_RNA|UGT1A1_uc002vvb.2_Missense_Mutation_p.D480N	NM_019078	NP_061951	P35504	UD15_HUMAN	UDP glycosyltransferase 1 family, polypeptide A5	481					xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(1)	1		Breast(86;0.000765)|all_lung(227;0.00267)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0328)|Lung NSC(271;0.0457)|Lung SC(224;0.128)		Epithelial(121;4.51e-18)|BRCA - Breast invasive adenocarcinoma(100;0.000523)|Lung(119;0.00271)|LUSC - Lung squamous cell carcinoma(224;0.00645)		CGCAGCCCACGACCTCACCTG	0.597													5	224					0	0	0.001168	0	0
XRN2	22803	broad.mit.edu	37	20	21336757	21336757	+	Missense_Mutation	SNP	G	A	A			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr20:21336757G>A	uc002wsf.1	+	22	2155	c.2060G>A	c.(2059-2061)GGG>GAG	p.G687E	XRN2_uc002wsg.1_Missense_Mutation_p.G611E|XRN2_uc010zsk.1_Missense_Mutation_p.G633E	NM_012255	NP_036387	Q9H0D6	XRN2_HUMAN	5'-3' exoribonuclease 2	687					cell growth|DNA catabolic process, exonucleolytic|mRNA processing|regulation of transcription, DNA-dependent|RNA catabolic process|spermatogenesis|transcription termination, DNA-dependent	nucleolus	5'-3' exoribonuclease activity|nucleic acid binding|protein binding|zinc ion binding			skin(1)	1						TTATTTGTGGGGAAACATCAC	0.383													16	128					0	0	0.007413	0	0
FRG1B	284802	broad.mit.edu	37	20	29628300	29628300	+	Missense_Mutation	SNP	G	A	A			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr20:29628300G>A	uc010ztl.1	+	3	244	c.212G>A	c.(211-213)AGT>AAT	p.S71N	FRG1B_uc002wvm.1_RNA|FRG1B_uc010ztj.1_RNA|FRG1B_uc010gdr.1_RNA|FRG1B_uc010ztk.1_Missense_Mutation_p.S23N					Homo sapiens cDNA FLJ32537 fis, clone SMINT2000400, highly similar to Homo sapiens FRG1 mRNA.												0						GAAGCAAAAAGTAAAACAGCA	0.358													6	55					0	0	0.001984	0	0
Unknown	0	broad.mit.edu	37	22	18844888	18844888	+	RNA	SNP	A	G	G			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr22:18844888A>G	uc002zoe.2	+	4		c.2142A>G			uc002zof.2_5'Flank					Homo sapiens cDNA FLJ76361 complete cds.																		GCTCACGGAAATACAGCTTCA	0.587													3	134					0	0	0.004672	0	0
LOC96610	96610	broad.mit.edu	37	22	22682036	22682036	+	RNA	SNP	G	A	A	rs113036480		TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr22:22682036G>A	uc011aim.1	+	37		c.3527G>A								Parts of antibodies, mostly variable regions.												0						TATGGTAACAGCAATCGGCCC	0.567													5	370					0	0	0.001168	0	0
GTSE1	51512	broad.mit.edu	37	22	46704680	46704680	+	Missense_Mutation	SNP	G	A	A			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr22:46704680G>A	uc011aqy.1	+	4	814	c.602G>A	c.(601-603)CGG>CAG	p.R201Q	GTSE1_uc011aqz.1_Missense_Mutation_p.R48Q	NM_016426	NP_057510	Q9NYZ3	GTSE1_HUMAN	G-2 and S-phase expressed 1	182					DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G2 phase of mitotic cell cycle|microtubule-based process	cytoplasmic microtubule				ovary(1)	1		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00462)		CGCCTCACCCGGGCGCCGGGG	0.687													4	181					0	0	0.009096	0	0
KCNH8	131096	broad.mit.edu	37	3	19554646	19554646	+	Missense_Mutation	SNP	A	C	C			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr3:19554646A>C	uc003cbk.1	+	13	2459	c.2264A>C	c.(2263-2265)CAA>CCA	p.Q755P	KCNH8_uc010hex.1_Missense_Mutation_p.Q216P	NM_144633	NP_653234	Q96L42	KCNH8_HUMAN	potassium voltage-gated channel, subfamily H,	755	Cytoplasmic (Potential).					integral to membrane	two-component sensor activity			lung(4)|ovary(1)	5						AGCTTAAAGCAACTGGCCTCG	0.493													4	135					0	0	0.009096	0	0
XIRP1	165904	broad.mit.edu	37	3	39230848	39230848	+	Missense_Mutation	SNP	A	C	C			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr3:39230848A>C	uc003cjk.1	-	2	310	c.89T>G	c.(88-90)CTG>CGG	p.L30R	XIRP1_uc003cji.2_Missense_Mutation_p.L30R|XIRP1_uc003cjj.2_Intron	NM_194293	NP_919269	Q702N8	XIRP1_HUMAN	xin actin-binding repeat containing 1	30	Interaction with VASP.						actin binding			ovary(4)|breast(2)|central_nervous_system(1)|pancreas(1)	8				KIRC - Kidney renal clear cell carcinoma(284;0.0517)|Kidney(284;0.065)		CAGGTCCTCCAGGGCTGGGGG	0.632													6	37					0	0	0.004482	0	0
C3orf30	152405	broad.mit.edu	37	3	118870125	118870125	+	Silent	SNP	C	T	T			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr3:118870125C>T	uc003ecb.1	+	3	1637	c.1597C>T	c.(1597-1599)CTG>TTG	p.L533L	C3orf30_uc011biw.1_Silent_p.L532L	NM_152539	NP_689752	Q96M34	CC030_HUMAN	hypothetical protein LOC152405	533										ovary(2)	2				GBM - Glioblastoma multiforme(114;0.222)		GAATTTTATGCTGTGCCAGGT	0.269													4	283					0	0	0.014758	0	0
GTF2E1	2960	broad.mit.edu	37	3	120489647	120489647	+	Missense_Mutation	SNP	G	A	A			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr3:120489647G>A	uc003edz.3	+	3	635	c.521G>A	c.(520-522)CGC>CAC	p.R174H		NM_005513	NP_005504	P29083	T2EA_HUMAN	general transcription factor IIE, polypeptide 1,	174					interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	nucleoplasm	protein binding|zinc ion binding	p.R174C(1)		ovary(1)	1				GBM - Glioblastoma multiforme(114;0.159)		AAAGATGCACGCACACTTTTG	0.423													50	330					0	0	0.014410	0	0
GPR87	53836	broad.mit.edu	37	3	151012049	151012049	+	Missense_Mutation	SNP	A	T	T			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr3:151012049A>T	uc003eyt.2	-	3	1346	c.985T>A	c.(985-987)TCA>ACA	p.S329T	MED12L_uc011bnz.1_Intron|MED12L_uc003eyp.2_Intron	NM_023915	NP_076404	Q9BY21	GPR87_HUMAN	G protein-coupled receptor 87	329	Cytoplasmic (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			large_intestine(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			CTGATATTTGATTTTTTGAAC	0.358													7	163					0	0	0.001984	0	0
PIK3CA	5290	broad.mit.edu	37	3	178951958	178951958	+	Missense_Mutation	SNP	A	G	G			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr3:178951958A>G	uc003fjk.2	+	21	3170	c.3013A>G	c.(3013-3015)ATG>GTG	p.M1005V		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	1005	PI3K/PI4K.				epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity			breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			TTTCTCAATGATGCTTGGCTC	0.388		57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			10	101					0	0	0.008291	0	0
SCD5	79966	broad.mit.edu	37	4	83557863	83557863	+	Missense_Mutation	SNP	T	C	C			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr4:83557863T>C	uc003hna.2	-	4	1003	c.683A>G	c.(682-684)TAT>TGT	p.Y228C		NM_001037582	NP_001032671	Q86SK9	SCD5_HUMAN	stearoyl-CoA desaturase 5 isoform a	228	Helical; (Potential).				fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	iron ion binding|stearoyl-CoA 9-desaturase activity			ovary(1)	1		Colorectal(4;0.0323)|Hepatocellular(203;0.115)				TGAGATGGTATAGCGGAGAAT	0.562													7	66					0	0	0.001984	0	0
MOCS2	4338	broad.mit.edu	37	5	52402983	52402983	+	Missense_Mutation	SNP	A	G	G			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr5:52402983A>G	uc011cqf.1	-	3	248	c.209T>C	c.(208-210)CTC>CCC	p.L70P	MOCS2_uc003joz.2_Missense_Mutation_p.S8P|uc003jpb.1_5'Flank	NM_176806	NP_789776	O96033	MOC2A_HUMAN	molybdopterin synthase small subunit MOCS2A	70					Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cytosol|molybdopterin synthase complex	nucleotide binding				0		Lung NSC(810;3.08e-05)|Breast(144;0.0848)				AAGCACGAGGAGCTGATCTCC	0.408													8	75					0	0	0.003080	0	0
RHOBTB3	22836	broad.mit.edu	37	5	95119548	95119548	+	Nonsense_Mutation	SNP	C	T	T			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr5:95119548C>T	uc003klm.2	+	10	2041	c.1504C>T	c.(1504-1506)CAA>TAA	p.Q502*		NM_014899	NP_055714	O94955	RHBT3_HUMAN	rho-related BTB domain containing 3	502	Interaction with Rab9.				retrograde transport, endosome to Golgi	Golgi apparatus	ATP binding|ATPase activity|Rab GTPase binding			lung(1)|skin(1)	2		all_cancers(142;2.58e-06)|all_epithelial(76;4.19e-09)|all_lung(232;0.00307)|Lung NSC(167;0.00452)|Ovarian(225;0.0164)|Colorectal(57;0.0846)|Breast(839;0.198)		all cancers(79;8.79e-16)		CGAGATGTACCAAGTGTCCAG	0.468													14	197					0	0	0.007413	0	0
TCOF1	6949	broad.mit.edu	37	5	149755650	149755650	+	Silent	SNP	A	G	G			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr5:149755650A>G	uc003lry.2	+	13	2007	c.1899A>G	c.(1897-1899)AAA>AAG	p.K633K	TCOF1_uc003lrw.2_Silent_p.K633K|TCOF1_uc011dch.1_Silent_p.K633K|TCOF1_uc003lrz.2_Silent_p.K633K|TCOF1_uc003lrx.2_Silent_p.K556K|TCOF1_uc003lsa.2_Silent_p.K556K|TCOF1_uc011dci.1_Silent_p.K122K	NM_001135243	NP_001128715	Q13428	TCOF_HUMAN	Treacher Collins-Franceschetti syndrome 1	633					skeletal system development	nucleolus	protein binding|transporter activity			ovary(2)|large_intestine(1)	3		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CTCAGGCAAAACCAGCTCTGA	0.572													16	223					0	0	0.004007	0	0
MED7	9443	broad.mit.edu	37	5	156566369	156566369	+	Missense_Mutation	SNP	T	C	C			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr5:156566369T>C	uc010jik.2	-	2	466	c.74A>G	c.(73-75)AAT>AGT	p.N25S	MED7_uc003lwm.3_Missense_Mutation_p.N25S	NM_001100816	NP_001094286	O43513	MED7_HUMAN	mediator complex subunit 7	25					regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex|transcription factor complex	protein binding|transcription coactivator activity				0	Renal(175;0.00212)	Medulloblastoma(196;0.0354)|all_neural(177;0.0999)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			TTCTTGAATATTTTCATCCGT	0.438													10	85					0	0	0.006214	0	0
MDN1	23195	broad.mit.edu	37	6	90428622	90428622	+	Missense_Mutation	SNP	A	G	G			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr6:90428622A>G	uc003pnn.1	-	42	6301	c.6185T>C	c.(6184-6186)GTC>GCC	p.V2062A		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	2062					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		GACCAGGATGACCATCCAGCT	0.562													3	102					0	0	0.004672	0	0
RPL23AP53	644128	broad.mit.edu	37	8	163401	163401	+	RNA	SNP	G	C	C			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr8:163401G>C	uc010lra.2	-	4		c.732C>G			RPL23AP53_uc003woq.3_RNA|RPL23AP53_uc010lrb.2_RNA	NR_003572				Homo sapiens cDNA FLJ45055 fis, clone BRAWH3022900.												0						TCTGGTGCTTGTTGGCTTTAA	0.463													4	54					0	0	0.009096	0	0
ANKRD46	157567	broad.mit.edu	37	8	101534835	101534835	+	Missense_Mutation	SNP	T	A	A			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr8:101534835T>A	uc003yjm.2	-	5	839	c.635A>T	c.(634-636)TAT>TTT	p.Y212F	ANKRD46_uc003yjn.1_Missense_Mutation_p.Y212F|ANKRD46_uc003yjo.1_Missense_Mutation_p.Y212F|ANKRD46_uc003yjp.1_Missense_Mutation_p.Y212F	NM_198401	NP_940683	Q86W74	ANR46_HUMAN	ankyrin repeat domain 46	212						integral to membrane					0	all_cancers(14;5.07e-05)|all_epithelial(15;2.84e-07)|Lung NSC(17;0.000353)|all_lung(17;0.000998)		Epithelial(11;2.61e-11)|all cancers(13;5.03e-09)|OV - Ovarian serous cystadenocarcinoma(57;4.49e-06)|STAD - Stomach adenocarcinoma(118;0.0957)			CCCACTCACATAATAAGCAAT	0.488													11	71					0	0	0.010729	0	0
RAD21	5885	broad.mit.edu	37	8	117869555	117869555	+	Missense_Mutation	SNP	A	C	C			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr8:117869555A>C	uc003yod.2	-	6	927	c.639T>G	c.(637-639)GAT>GAG	p.D213E		NM_006265	NP_006256	O60216	RAD21_HUMAN	RAD21 homolog	213					apoptosis|cell division|chromosome segregation|double-strand break repair|mitotic metaphase/anaphase transition|mitotic prometaphase|protein localization to chromatin|reciprocal meiotic recombination|regulation of transcription from RNA polymerase II promoter	chromosome, centromeric region|cohesin complex|nuclear chromosome|nucleoplasm	protein binding			lung(1)|skin(1)	2	all_cancers(13;1.21e-21)|Lung NSC(37;0.000134)|Ovarian(258;0.0172)					CCTTATATTGATCTTCATATT	0.333													15	109					0	0	0.003163	0	0
Unknown	0	broad.mit.edu	37	9	22823377	22823377	+	RNA	SNP	A	G	G			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr9:22823377A>G	uc003zpq.1	+	6		c.1512A>G								Homo sapiens cDNA FLJ35282 fis, clone PROST2007328.																		tcccacattaatgacatcaaa	0													3	58					0	0	0.004672	0	0
ZNF618	114991	broad.mit.edu	37	9	116812025	116812025	+	Missense_Mutation	SNP	C	T	T			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr9:116812025C>T	uc004bid.2	+	15	2542	c.2443C>T	c.(2443-2445)CGG>TGG	p.R815W	ZNF618_uc004bic.2_Missense_Mutation_p.R722W|ZNF618_uc011lxi.1_Missense_Mutation_p.R782W|ZNF618_uc011lxj.1_Missense_Mutation_p.R783W|ZNF618_uc010mvb.2_Missense_Mutation_p.R405W	NM_133374	NP_588615	Q5T7W0	ZN618_HUMAN	zinc finger protein 618	815					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GCAGAAGCTGCGGCCTGTGCC	0.627													4	102					0	0	0.014758	0	0
NOTCH1	4851	broad.mit.edu	37	9	139412675	139412675	+	Missense_Mutation	SNP	T	C	C			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr9:139412675T>C	uc004chz.2	-	7	1169	c.1169A>G	c.(1168-1170)AAC>AGC	p.N390S		NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	390	Extracellular (Potential).|EGF-like 10.				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		ATTGACAGGGTTGGTGTCGCA	0.662			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			4	18					0	0	0.014758	0	0
COL4A6	1288	broad.mit.edu	37	X	107402954	107402954	+	Missense_Mutation	SNP	C	T	T			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chrX:107402954C>T	uc004enw.3	-	44	4656	c.4553G>A	c.(4552-4554)CGC>CAC	p.R1518H	COL4A6_uc004env.3_Missense_Mutation_p.R1517H|COL4A6_uc011msn.1_Missense_Mutation_p.R1493H|COL4A6_uc010npk.2_Missense_Mutation_p.R1460H|COL4A6_uc011msm.1_Missense_Mutation_p.R52H|COL4A6_uc010npj.2_5'UTR	NM_001847	NP_001838	Q14031	CO4A6_HUMAN	type IV alpha 6 collagen isoform A precursor	1518	Collagen IV NC1.				cell adhesion|extracellular matrix organization	collagen type IV	extracellular matrix structural constituent|protein binding			ovary(6)|urinary_tract(1)|large_intestine(1)	8						GGTGCTGAAGCGGGGCAGACA	0.562									Alport_syndrome_with_Diffuse_Leiomyomatosis				37	108					0	0	0.006230	0	0
ZCCHC12	170261	broad.mit.edu	37	X	117959418	117959418	+	Missense_Mutation	SNP	G	A	A			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chrX:117959418G>A	uc004equ.2	+	4	684	c.211G>A	c.(211-213)GTC>ATC	p.V71I		NM_173798	NP_776159	Q6PEW1	ZCH12_HUMAN	zinc finger, CCHC domain containing 12	71					regulation of transcription, DNA-dependent|transcription, DNA-dependent		nucleic acid binding|zinc ion binding			ovary(1)	1						agtcaatggcgtcctgccaga	0.055													18	76					0	0	0.004990	0	0
ARID1A	8289	broad.mit.edu	37	1	27059237	27059237	+	Frame_Shift_Del	DEL	A	-	-			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr1:27059237delA	uc001bmv.1	+	4	2247	c.1874delA	c.(1873-1875)CAAfs	p.Q625fs	ARID1A_uc001bmt.1_Frame_Shift_Del_p.Q625fs|ARID1A_uc001bmu.1_Frame_Shift_Del_p.Q625fs|ARID1A_uc001bmw.1_Frame_Shift_Del_p.Q242fs	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	625					androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding	p.Q625*(1)		ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		AAGGGAGGGCAAGAAGATATG	0.488			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								19	90	---	---	---	---					
PIK3R1	5295	broad.mit.edu	37	5	67589217	67589222	+	In_Frame_Del	DEL	TTGAAT	-	-			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr5:67589217_67589222delTTGAAT	uc003jva.2	+	10	1765_1770	c.1205_1210delTTGAAT	c.(1204-1212)GTTGAATTA>GTA	p.EL403del	PIK3R1_uc003jvb.2_In_Frame_Del_p.EL403del|PIK3R1_uc003jvc.2_In_Frame_Del_p.EL103del|PIK3R1_uc003jvd.2_In_Frame_Del_p.EL133del|PIK3R1_uc003jve.2_In_Frame_Del_p.EL82del|PIK3R1_uc011crb.1_In_Frame_Del_p.EL73del	NM_181523	NP_852664	P27986	P85A_HUMAN	phosphoinositide-3-kinase, regulatory subunit 1	403_404	SH2 1.				epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|growth hormone receptor signaling pathway|insulin receptor signaling pathway|insulin-like growth factor receptor signaling pathway|interspecies interaction between organisms|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol phosphorylation|phosphatidylinositol-mediated signaling|platelet activation|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose import|T cell costimulation|T cell receptor signaling pathway	1-phosphatidylinositol-4-phosphate 3-kinase, class IA complex	1-phosphatidylinositol binding|ErbB-3 class receptor binding|insulin binding|insulin receptor binding|insulin receptor substrate binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase regulator activity|protein phosphatase binding	p.?(1)		endometrium(34)|central_nervous_system(27)|large_intestine(20)|breast(7)|ovary(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|urinary_tract(1)|skin(1)|pancreas(1)	101		Lung NSC(167;1.99e-05)|Prostate(74;0.00308)|Ovarian(174;0.00473)|Colorectal(97;0.0176)		OV - Ovarian serous cystadenocarcinoma(47;3.76e-51)|Lung(70;0.0211)	Isoproterenol(DB01064)	AGTTCTGTGGTTGAATTAATAAACCA	0.335			Mis|F|O		gliobastoma|ovarian|colorectal					TCGA GBM(4;<1E-08)			24	43	---	---	---	---					
HDAC2	3066	broad.mit.edu	37	6	114292110	114292112	+	In_Frame_Del	DEL	CTG	-	-			TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chr6:114292110_114292112delCTG	uc003pwd.1	-	1	243_245	c.243_245delCAG	c.(241-246)AGCAGG>AGG	p.S81del	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)	GCTCCTCCTCctgctgctgctgc	0.522													3	4	---	---	---	---					
FAM48B1	100130302	broad.mit.edu	37	X	24382371	24382373	+	In_Frame_Del	DEL	TAT	-	-	rs71897203		TCGA-FG-5962-01B-11D-1893-08	TCGA-FG-5962-10A-01D-1893-08									Somatic	Phase_I	Capture				Illumina GAIIx	28e93aff-9ec4-4fcf-a469-74d8b6190991	57a1f9a5-e7cd-478d-b678-8e1992d9b223	g.chrX:24382371_24382373delTAT	uc011mjx.1	+	1	1494_1496	c.1494_1496delTAT	c.(1492-1497)GCTATT>GCT	p.I499del		NM_001136234	NP_001129706			hypothetical protein LOC100130302											kidney(1)	1						ctgctgctgctattgctgctgct	0.217													3	5	---	---	---	---					
