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
EIF4G3	8672	broad.mit.edu	37	1	21155713	21155713	+	Missense_Mutation	SNP	T	C	C			TCGA-DB-5270-01A-02D-1468-08	TCGA-DB-5270-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	27da0280-b7dc-43ba-a50a-2e9a2c6b1bcf	a52afc7f-a694-44cb-8235-ef78e8c30fa2	g.chr1:21155713T>C	uc001bec.2	-	26	4202	c.3946A>G	c.(3946-3948)ATT>GTT	p.I1316V	EIF4G3_uc010odi.1_Missense_Mutation_p.I920V|EIF4G3_uc010odj.1_Missense_Mutation_p.I1315V|EIF4G3_uc009vpz.2_Missense_Mutation_p.I1036V|EIF4G3_uc001bed.2_Missense_Mutation_p.I1316V|EIF4G3_uc001bef.2_Missense_Mutation_p.I1352V|EIF4G3_uc001bee.2_Missense_Mutation_p.I1322V	NM_003760	NP_003751	O43432	IF4G3_HUMAN	eukaryotic translation initiation factor 4	1316	MI.				interspecies interaction between organisms|regulation of translational initiation|RNA metabolic process	eukaryotic translation initiation factor 4F complex	protein binding|RNA cap binding|translation initiation factor activity			skin(1)	1		all_lung(284;2.61e-06)|Lung NSC(340;2.81e-06)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00149)|Ovarian(437;0.00338)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.023)|COAD - Colon adenocarcinoma(152;5.42e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000327)|GBM - Glioblastoma multiforme(114;0.000696)|Kidney(64;0.0018)|STAD - Stomach adenocarcinoma(196;0.00644)|KIRC - Kidney renal clear cell carcinoma(64;0.0185)|READ - Rectum adenocarcinoma(331;0.124)|Lung(427;0.191)		TACAACCAAATATGGGGAATA	0.378000													38	101					0	0	0.080422	0	0
GRHL3	57822	broad.mit.edu	37	1	24663012	24663012	+	Missense_Mutation	SNP	C	A	A			TCGA-DB-5270-01A-02D-1468-08	TCGA-DB-5270-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	27da0280-b7dc-43ba-a50a-2e9a2c6b1bcf	a52afc7f-a694-44cb-8235-ef78e8c30fa2	g.chr1:24663012C>A	uc001biy.2	+	4	368	c.322C>A	c.(322-324)CTT>ATT	p.L108I	GRHL3_uc001bix.2_Missense_Mutation_p.L103I|GRHL3_uc001biz.2_Missense_Mutation_p.L10I	NM_021180	NP_067003	Q8TE85	GRHL3_HUMAN	sister-of-mammalian grainyhead protein isoform	103					regulation of actin cytoskeleton organization|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1		Colorectal(325;3.46e-05)|Renal(390;0.0007)|Lung NSC(340;0.00171)|all_lung(284;0.00226)|Ovarian(437;0.00348)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.19)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;8.72e-25)|Colorectal(126;4.38e-08)|COAD - Colon adenocarcinoma(152;1.84e-06)|GBM - Glioblastoma multiforme(114;0.000132)|BRCA - Breast invasive adenocarcinoma(304;0.00105)|STAD - Stomach adenocarcinoma(196;0.00151)|KIRC - Kidney renal clear cell carcinoma(1967;0.00377)|READ - Rectum adenocarcinoma(331;0.0656)|Lung(427;0.143)		CCTCACTCCCCTTGAAAGCCC	0.507000													8	130					0.00307968	0.0035094	0.038147	1	0
DOCK7	85440	broad.mit.edu	37	1	63090967	63090967	+	Missense_Mutation	SNP	C	T	T			TCGA-DB-5270-01A-02D-1468-08	TCGA-DB-5270-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	27da0280-b7dc-43ba-a50a-2e9a2c6b1bcf	a52afc7f-a694-44cb-8235-ef78e8c30fa2	g.chr1:63090967C>T	uc001daq.2	-	12	1422	c.1388G>A	c.(1387-1389)CGA>CAA	p.R463Q	DOCK7_uc001dan.2_Missense_Mutation_p.R355Q|DOCK7_uc001dao.2_Missense_Mutation_p.R355Q|DOCK7_uc001dap.2_Missense_Mutation_p.R463Q|DOCK7_uc009wah.1_Missense_Mutation_p.R463Q	NM_033407	NP_212132	Q96N67	DOCK7_HUMAN	dedicator of cytokinesis 7	463					activation of Rac GTPase activity|axonogenesis|establishment of neuroblast polarity|microtubule cytoskeleton organization|positive regulation of peptidyl-serine phosphorylation	axon|basal part of cell|growth cone	GTP binding|guanyl-nucleotide exchange factor activity|Rac GTPase binding			ovary(2)	2						AGTAGCTGGTCGAAAGCTCGT	0.388000													5	218					0	0	0.014758	0	0
HPS1	3257	broad.mit.edu	37	10	100195403	100195403	+	Missense_Mutation	SNP	C	T	T			TCGA-DB-5270-01A-02D-1468-08	TCGA-DB-5270-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	27da0280-b7dc-43ba-a50a-2e9a2c6b1bcf	a52afc7f-a694-44cb-8235-ef78e8c30fa2	g.chr10:100195403C>T	uc010qpf.1	-	4	490	c.244G>A	c.(244-246)GTC>ATC	p.V82I	HPS1_uc001kpi.1_Missense_Mutation_p.V82I|HPS1_uc001kpj.1_Missense_Mutation_p.V22I|HPS1_uc001kpk.1_Missense_Mutation_p.V82I|HPS1_uc009xwb.2_RNA|HPS1_uc010qph.1_Missense_Mutation_p.V82I|HPS1_uc001kpl.2_Missense_Mutation_p.V82I	NM_000195	NP_000186	Q92902	HPS1_HUMAN	Hermansky-Pudlak syndrome 1 protein isoform a	82					lysosome organization|response to stimulus|visual perception	cytoplasmic membrane-bounded vesicle|integral to plasma membrane|lysosome|membrane fraction|soluble fraction	protein dimerization activity			skin(1)	1		Colorectal(252;0.234)		Epithelial(162;3.87e-12)|all cancers(201;5.63e-10)		AGGTGAAGGACATACAGGAAG	0.537000									Hermansky-Pudlak_syndrome				6	182					0	0	0.021553	0	0
OR5J2	282775	broad.mit.edu	37	11	55944144	55944144	+	Missense_Mutation	SNP	G	C	C			TCGA-DB-5270-01A-02D-1468-08	TCGA-DB-5270-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	27da0280-b7dc-43ba-a50a-2e9a2c6b1bcf	a52afc7f-a694-44cb-8235-ef78e8c30fa2	g.chr11:55944144G>C	uc010rjb.1	+	1	51	c.51G>C	c.(49-51)TTG>TTC	p.L17F		NM_001005492	NP_001005492	Q8NH18	OR5J2_HUMAN	olfactory receptor, family 5, subfamily J,	17	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|large_intestine(1)|breast(1)|pancreas(1)	4	Esophageal squamous(21;0.00693)					TTTTGGGATTGACAGATCATG	0.358000													39	148					0	0	0.104719	0	0
MMP12	4321	broad.mit.edu	37	11	102743820	102743820	+	Missense_Mutation	SNP	C	T	T			TCGA-DB-5270-01A-02D-1468-08	TCGA-DB-5270-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	27da0280-b7dc-43ba-a50a-2e9a2c6b1bcf	a52afc7f-a694-44cb-8235-ef78e8c30fa2	g.chr11:102743820C>T	uc001phk.2	-	2	170	c.125G>A	c.(124-126)GGC>GAC	p.G42D		NM_002426	NP_002417	P39900	MMP12_HUMAN	matrix metalloproteinase 12 preproprotein	42					positive regulation of epithelial cell proliferation involved in wound healing|proteolysis|wound healing, spreading of epidermal cells	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding				0		all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)		BRCA - Breast invasive adenocarcinoma(274;0.014)	Acetohydroxamic Acid(DB00551)	TATCTCAAGGCCATAAAATTT	0.333000													8	28					0	0	0.058154	0	0
PIK3C2G	5288	broad.mit.edu	37	12	18573895	18573895	+	Missense_Mutation	SNP	G	A	A			TCGA-DB-5270-01A-02D-1468-08	TCGA-DB-5270-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	27da0280-b7dc-43ba-a50a-2e9a2c6b1bcf	a52afc7f-a694-44cb-8235-ef78e8c30fa2	g.chr12:18573895G>A	uc001rdt.2	+	16	2329	c.2213G>A	c.(2212-2214)CGT>CAT	p.R738H	PIK3C2G_uc010sia.1_RNA|PIK3C2G_uc010sib.1_Missense_Mutation_p.R779H|PIK3C2G_uc010sic.1_Missense_Mutation_p.R557H	NM_004570	NP_004561	O75747	P3C2G_HUMAN	phosphoinositide-3-kinase, class 2 gamma	738					cell communication|phosphatidylinositol-mediated signaling	membrane|phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity			lung(8)|central_nervous_system(6)|breast(3)|stomach(2)|ovary(2)	21		Hepatocellular(102;0.194)				CAAGAAATTCGTAAAGTGGCA	0.363000													5	105					0	0	0.021553	0	0
CAPRIN2	65981	broad.mit.edu	37	12	30863150	30863150	+	Missense_Mutation	SNP	T	G	G			TCGA-DB-5270-01A-02D-1468-08	TCGA-DB-5270-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	27da0280-b7dc-43ba-a50a-2e9a2c6b1bcf	a52afc7f-a694-44cb-8235-ef78e8c30fa2	g.chr12:30863150T>G	uc001rji.1	-	18	3821	c.3070A>C	c.(3070-3072)AAC>CAC	p.N1024H	CAPRIN2_uc001rjf.1_3'UTR|CAPRIN2_uc001rjg.1_Missense_Mutation_p.N691H|CAPRIN2_uc001rjh.1_Missense_Mutation_p.N974H|CAPRIN2_uc001rjj.1_Missense_Mutation_p.N690H|CAPRIN2_uc001rjk.3_3'UTR|CAPRIN2_uc001rjl.3_3'UTR	NM_001002259	NP_001002259	Q6IMN6	CAPR2_HUMAN	C1q domain containing 1 isoform 1	1024	C1q.				negative regulation of cell growth|negative regulation of translation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of dendrite morphogenesis|positive regulation of dendritic spine morphogenesis|positive regulation of peptidyl-serine phosphorylation|positive regulation of protein binding|positive regulation of transcription from RNA polymerase II promoter	mitochondrion|receptor complex	receptor binding|RNA binding			ovary(1)|central_nervous_system(1)	2	all_lung(12;1.13e-09)|Lung NSC(12;7.98e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0355)|Lung SC(12;0.0905)|Esophageal squamous(101;0.233)					CCTAAGTTGTTCAGAAGAAGA	0.443000													36	108					0	0	0.064281	0	0
LETMD1	25875	broad.mit.edu	37	12	51449667	51449667	+	Missense_Mutation	SNP	C	G	G			TCGA-DB-5270-01A-02D-1468-08	TCGA-DB-5270-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	27da0280-b7dc-43ba-a50a-2e9a2c6b1bcf	a52afc7f-a694-44cb-8235-ef78e8c30fa2	g.chr12:51449667C>G	uc001rxm.2	+	5	579	c.523C>G	c.(523-525)CAA>GAA	p.Q175E	LETMD1_uc010smz.1_Missense_Mutation_p.Q125E|LETMD1_uc010sna.1_Intron|LETMD1_uc001rxl.2_Missense_Mutation_p.Q119E|LETMD1_uc009zlv.2_Intron|LETMD1_uc001rxs.2_Intron|LETMD1_uc009zlw.2_Missense_Mutation_p.Q188E|LETMD1_uc001rxn.2_Missense_Mutation_p.Q18E|LETMD1_uc001rxo.2_RNA|LETMD1_uc001rxp.2_Missense_Mutation_p.Q58E|LETMD1_uc001rxq.2_Intron|LETMD1_uc001rxr.2_Intron|LETMD1_uc001rxt.2_Intron	NM_015416	NP_056231	Q6P1Q0	LTMD1_HUMAN	LETM1 domain containing 1 isoform 1	175	Mitochondrial intermembrane (Potential).|LETM1.					integral to membrane|mitochondrial outer membrane	protein binding			central_nervous_system(2)	2						GACCCCAAAACAACAAACTGA	0.413000													3	163					0	0	0.004672	0	0
ACVR1B	91	broad.mit.edu	37	12	52370109	52370109	+	Splice_Site	SNP	A	T	T			TCGA-DB-5270-01A-02D-1468-08	TCGA-DB-5270-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	27da0280-b7dc-43ba-a50a-2e9a2c6b1bcf	a52afc7f-a694-44cb-8235-ef78e8c30fa2	g.chr12:52370109A>T	uc001rzn.2	+	3	374	c.332_splice	c.e3-2	p.G111_splice	ACVR1B_uc001rzl.2_Splice_Site_p.G111_splice|ACVR1B_uc001rzm.2_Splice_Site_p.G111_splice|ACVR1B_uc010snn.1_Splice_Site_p.G111_splice	NM_004302	NP_004293	P36896	ACV1B_HUMAN	activin A receptor, type IB isoform a precursor						G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|peptidyl-threonine phosphorylation|positive regulation of activin receptor signaling pathway|positive regulation of erythrocyte differentiation|protein autophosphorylation|transmembrane receptor protein serine/threonine kinase signaling pathway	cell surface	activin receptor activity, type I|ATP binding|metal ion binding|SMAD binding|transforming growth factor beta receptor activity|ubiquitin protein ligase binding			pancreas(4)|breast(2)|ovary(1)|lung(1)|kidney(1)	9				BRCA - Breast invasive adenocarcinoma(357;0.104)	Adenosine triphosphate(DB00171)	CACTTGACTCAGGTCACCTCA	0.532000													4	92					0	0	0.009096	0	0
TBC1D15	64786	broad.mit.edu	37	12	72315226	72315226	+	Nonsense_Mutation	SNP	A	T	T			TCGA-DB-5270-01A-02D-1468-08	TCGA-DB-5270-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	27da0280-b7dc-43ba-a50a-2e9a2c6b1bcf	a52afc7f-a694-44cb-8235-ef78e8c30fa2	g.chr12:72315226A>T	uc001swu.2	+	17	1921	c.1912A>T	c.(1912-1914)AAA>TAA	p.K638*	TBC1D15_uc010stt.1_Nonsense_Mutation_p.K607*|TBC1D15_uc001swv.2_Nonsense_Mutation_p.K621*|TBC1D15_uc001sww.2_Nonsense_Mutation_p.K370*	NM_022771	NP_073608	Q8TC07	TBC15_HUMAN	TBC1 domain family, member 15 isoform 1	616							protein binding|Rab GTPase activator activity				0						ACAGATGGTAAAATGCAAGGT	0.313000													25	124					0	0	0.034045	0	0
B3GNT4	79369	broad.mit.edu	37	12	122691811	122691811	+	Missense_Mutation	SNP	A	C	C			TCGA-DB-5270-01A-02D-1468-08	TCGA-DB-5270-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	27da0280-b7dc-43ba-a50a-2e9a2c6b1bcf	a52afc7f-a694-44cb-8235-ef78e8c30fa2	g.chr12:122691811A>C	uc001ubx.2	+	3	1231	c.1013A>C	c.(1012-1014)GAC>GCC	p.D338A	B3GNT4_uc001uby.2_Missense_Mutation_p.D313A	NM_030765	NP_110392	Q9C0J1	B3GN4_HUMAN	UDP-GlcNAc:betaGal	338	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to membrane	galactosyltransferase activity			ovary(1)	1	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000297)|Epithelial(86;0.000497)|BRCA - Breast invasive adenocarcinoma(302;0.222)		GACCCCTTAGACCCCTGCCTG	0.612000													6	52					0	0	0.043863	0	0
LOC646214	646214	broad.mit.edu	37	15	21936913	21936913	+	RNA	SNP	A	G	G	rs4984137		TCGA-DB-5270-01A-02D-1468-08	TCGA-DB-5270-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	27da0280-b7dc-43ba-a50a-2e9a2c6b1bcf	a52afc7f-a694-44cb-8235-ef78e8c30fa2	g.chr15:21936913A>G	uc010tzj.1	-	1		c.3827T>C				NR_027053				Homo sapiens mRNA for p21-activated kinase 2 variant protein.												0						GCCATCCAGTATGGCGTTCTG	0.507000													3	195					0	0	0.009096	0	0
GOLGA8F	100132565	broad.mit.edu	37	15	28632820	28632820	+	Missense_Mutation	SNP	T	C	C			TCGA-DB-5270-01A-02D-1468-08	TCGA-DB-5270-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	27da0280-b7dc-43ba-a50a-2e9a2c6b1bcf	a52afc7f-a694-44cb-8235-ef78e8c30fa2	g.chr15:28632820T>C	uc010uag.1	+	15	1476	c.1352T>C	c.(1351-1353)CTG>CCG	p.L451P	GOLGA8G_uc001zbp.3_Missense_Mutation_p.L245P|GOLGA8G_uc001zbo.2_Intron|GOLGA8G_uc001zbn.2_Missense_Mutation_p.L249P	NM_001164328	NP_001157800			golgi autoantigen, golgin subfamily a, 8F												0						CCACAGGACCTGGAGAGCAGG	0.617000													4	74					0	0	0.047766	0	0
NEO1	4756	broad.mit.edu	37	15	73581488	73581488	+	Silent	SNP	G	A	A	rs150727403		TCGA-DB-5270-01A-02D-1468-08	TCGA-DB-5270-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	27da0280-b7dc-43ba-a50a-2e9a2c6b1bcf	a52afc7f-a694-44cb-8235-ef78e8c30fa2	g.chr15:73581488G>A	uc002avm.3	+	25	3793	c.3651G>A	c.(3649-3651)GGG>GGA	p.G1217G	NEO1_uc010ukx.1_Silent_p.G1206G|NEO1_uc010uky.1_Silent_p.G1217G|NEO1_uc010ukz.1_Silent_p.G630G|NEO1_uc002avn.3_Silent_p.G855G	NM_002499	NP_002490	Q92859	NEO1_HUMAN	neogenin homolog 1 precursor	1217	Cytoplasmic (Potential).				axon guidance|cell adhesion|positive regulation of muscle cell differentiation	Golgi apparatus|integral to plasma membrane|nucleus				pancreas(1)	1						AACATCTAGGGCATGAGTCAG	0.488000													10	29					0	0	0.093190	0	0
HYDIN	54768	broad.mit.edu	37	16	71098695	71098695	+	Silent	SNP	C	G	G			TCGA-DB-5270-01A-02D-1468-08	TCGA-DB-5270-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	27da0280-b7dc-43ba-a50a-2e9a2c6b1bcf	a52afc7f-a694-44cb-8235-ef78e8c30fa2	g.chr16:71098695C>G	uc002ezr.2	-	16	2252	c.2124G>C	c.(2122-2124)GGG>GGC	p.G708G	HYDIN_uc010cfz.1_Silent_p.G453G|HYDIN_uc002ezv.2_Silent_p.G708G|HYDIN_uc010vmc.1_Silent_p.G725G|HYDIN_uc010vmd.1_Silent_p.G735G	NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	708										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				GGAAGCAGTGCCCAAAGTCCA	0.502000													12	39					0	0	0.028581	0	0
TP53	7157	broad.mit.edu	37	17	7577580	7577580	+	Missense_Mutation	SNP	T	C	C			TCGA-DB-5270-01A-02D-1468-08	TCGA-DB-5270-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	27da0280-b7dc-43ba-a50a-2e9a2c6b1bcf	a52afc7f-a694-44cb-8235-ef78e8c30fa2	g.chr17:7577580T>C	uc002gim.2	-	7	895	c.701A>G	c.(700-702)TAC>TGC	p.Y234C	TP53_uc002gig.1_Missense_Mutation_p.Y234C|TP53_uc002gih.2_Missense_Mutation_p.Y234C|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.Y102C|TP53_uc010cng.1_Missense_Mutation_p.Y102C|TP53_uc002gii.1_Missense_Mutation_p.Y102C|TP53_uc010cnh.1_Missense_Mutation_p.Y234C|TP53_uc010cni.1_Missense_Mutation_p.Y234C|TP53_uc002gij.2_Missense_Mutation_p.Y234C|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.Y141C|TP53_uc002gio.2_Missense_Mutation_p.Y102C	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	234	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		Y -> F (in a sporadic cancer; somatic mutation).|Y -> K (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|Y -> N (in sporadic cancers; somatic mutation).|Y -> C (in LFS; germline mutation and in sporadic cancers; somatic mutation).|Y -> S (in sporadic cancers; somatic mutation).|Y -> H (in sporadic cancers; somatic mutation).|Y -> D (in sporadic cancers; somatic mutation).|Y -> Q (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.Y234C(70)|p.Y234H(13)|p.Y234N(11)|p.0?(7)|p.Y234S(6)|p.Y234*(4)|p.Y234D(3)|p.Y234del(3)|p.Y234fs*2(1)|p.V225fs*23(1)|p.Y234fs*6(1)|p.Y234fs*5(1)|p.Y234fs*4(1)|p.Y234R(1)|p.Y234Y(1)|p.H233_C242del10(1)|p.D228fs*12(1)|p.Y234F(1)|p.I232_Y236delIHYNY(1)|p.Y141S(1)|p.T230_Y234delTTIHY(1)|p.H233fs*6(1)|p.Y234_N235insX(1)|p.I232fs*5(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		CATGTAGTTGTAGTGGATGGT	0.572000		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			13	55					0	0	0.105934	0	0
TP53	7157	broad.mit.edu	37	17	7578479	7578479	+	Missense_Mutation	SNP	G	A	A	rs28934874		TCGA-DB-5270-01A-02D-1468-08	TCGA-DB-5270-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	27da0280-b7dc-43ba-a50a-2e9a2c6b1bcf	a52afc7f-a694-44cb-8235-ef78e8c30fa2	g.chr17:7578479G>A	uc002gim.2	-	5	645	c.451C>T	c.(451-453)CCC>TCC	p.P151S	TP53_uc002gig.1_Missense_Mutation_p.P151S|TP53_uc002gih.2_Missense_Mutation_p.P151S|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.P19S|TP53_uc010cng.1_Missense_Mutation_p.P19S|TP53_uc002gii.1_Missense_Mutation_p.P19S|TP53_uc010cnh.1_Missense_Mutation_p.P151S|TP53_uc010cni.1_Missense_Mutation_p.P151S|TP53_uc002gij.2_Missense_Mutation_p.P151S|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.P58S|TP53_uc002gio.2_Missense_Mutation_p.P19S|TP53_uc010vug.1_Missense_Mutation_p.P112S	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	151	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		P -> R (in sporadic cancers; somatic mutation).|P -> A (in sporadic cancers; somatic mutation).|P -> L (in sporadic cancers; somatic mutation).|P -> H (in sporadic cancers; somatic mutation).|P -> T (in LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.P151S(61)|p.P151H(25)|p.P151T(13)|p.P151P(12)|p.P151A(10)|p.P152fs*18(9)|p.0?(7)|p.P151fs*30(7)|p.P151L(6)|p.P151R(6)|p.T150fs*16(3)|p.P151_V173del23(1)|p.P152_P153del(1)|p.P152fs*28(1)|p.P151del(1)|p.D148_T155delDSTPPPGT(1)|p.T150_P153delTPPP(1)|p.P58A(1)|p.D148fs*23(1)|p.S149fs*72(1)|p.S149fs*17(1)|p.Q144_G154del11(1)|p.P19A(1)|p.P152fs*14(1)|p.T150_P151delTP(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		CCGGGCGGGGGTGTGGAATCA	0.612000		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			19	61					0	0	0.043863	0	0
MUC16	94025	broad.mit.edu	37	19	9046721	9046721	+	Missense_Mutation	SNP	C	A	A			TCGA-DB-5270-01A-02D-1468-08	TCGA-DB-5270-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	27da0280-b7dc-43ba-a50a-2e9a2c6b1bcf	a52afc7f-a694-44cb-8235-ef78e8c30fa2	g.chr19:9046721C>A	uc002mkp.2	-	5	35114	c.34910G>T	c.(34909-34911)AGT>ATT	p.S11637I		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	11639	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TGTTGCAGAACTAGTGACCTG	0.522000													45	111					2.24893e-16	2.68775e-16	0.111260	1	0
HKR1	284459	broad.mit.edu	37	19	37854228	37854228	+	Missense_Mutation	SNP	A	T	T			TCGA-DB-5270-01A-02D-1468-08	TCGA-DB-5270-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	27da0280-b7dc-43ba-a50a-2e9a2c6b1bcf	a52afc7f-a694-44cb-8235-ef78e8c30fa2	g.chr19:37854228A>T	uc002ogb.2	+	6	1800	c.1531A>T	c.(1531-1533)ACC>TCC	p.T511S	HKR1_uc002ofx.2_Missense_Mutation_p.T227S|HKR1_uc002ofy.2_Missense_Mutation_p.T227S|HKR1_uc002oga.2_Missense_Mutation_p.T493S|HKR1_uc010xto.1_Missense_Mutation_p.T493S|HKR1_uc002ogc.2_Missense_Mutation_p.T492S|HKR1_uc010xtp.1_Missense_Mutation_p.T450S|HKR1_uc002ogd.2_Missense_Mutation_p.T450S	NM_181786	NP_861451	P10072	HKR1_HUMAN	GLI-Kruppel family member HKR1	511	C2H2-type 8.				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			CCGGAAATCAACCCTGAGCAC	0.507000													5	67					0	0	0.029380	0	0
FOXA3	3171	broad.mit.edu	37	19	46376150	46376150	+	Missense_Mutation	SNP	C	T	T			TCGA-DB-5270-01A-02D-1468-08	TCGA-DB-5270-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	27da0280-b7dc-43ba-a50a-2e9a2c6b1bcf	a52afc7f-a694-44cb-8235-ef78e8c30fa2	g.chr19:46376150C>T	uc002pdr.2	+	2	1084	c.887C>T	c.(886-888)GCG>GTG	p.A296V		NM_004497	NP_004488	P55318	FOXA3_HUMAN	forkhead box A3	296					brain development|cellular glucose homeostasis|cellular response to starvation|chromatin modification|embryo development|endocrine pancreas development|negative regulation of cell proliferation|neural plate anterior/posterior regionalization|neuron fate specification|positive regulation of hepatocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|spermatogenesis	transcription factor complex	DNA bending activity|double-stranded DNA binding|protein domain specific binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|transcription regulatory region DNA binding			breast(1)	1		Ovarian(192;0.0308)|all_neural(266;0.0476)		OV - Ovarian serous cystadenocarcinoma(262;0.00453)|GBM - Glioblastoma multiforme(486;0.0518)|Epithelial(262;0.236)		AAGCTGGACGCGCCCTACAAC	0.602000													6	32					0	0	0.029380	0	0
IDH1	3417	broad.mit.edu	37	2	209113112	209113112	+	Missense_Mutation	SNP	C	T	T	rs121913500		TCGA-DB-5270-01A-02D-1468-08	TCGA-DB-5270-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	27da0280-b7dc-43ba-a50a-2e9a2c6b1bcf	a52afc7f-a694-44cb-8235-ef78e8c30fa2	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	0.393000			Mis		gliobastoma 								30	67					0	0	0.041601	0	0
PCSK2	5126	broad.mit.edu	37	20	17462658	17462658	+	Silent	SNP	G	A	A			TCGA-DB-5270-01A-02D-1468-08	TCGA-DB-5270-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	27da0280-b7dc-43ba-a50a-2e9a2c6b1bcf	a52afc7f-a694-44cb-8235-ef78e8c30fa2	g.chr20:17462658G>A	uc002wpm.2	+	12	2180	c.1860G>A	c.(1858-1860)GAG>GAA	p.E620E	PCSK2_uc002wpl.2_Silent_p.E601E|PCSK2_uc010zrm.1_Silent_p.E585E|PCSK2_uc002wpn.2_Silent_p.E274E	NM_002594	NP_002585	P16519	NEC2_HUMAN	proprotein convertase subtilisin/kexin type 2	620					enkephalin processing|insulin processing|islet amyloid polypeptide processing	extracellular space|membrane|soluble fraction|transport vesicle	serine-type endopeptidase activity			ovary(3)|central_nervous_system(2)|large_intestine(1)|pancreas(1)	7					Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	AGGAGCTGGAGGAAGAGCTGG	0.587000													7	21					0	0	0.047766	0	0
SLC24A3	57419	broad.mit.edu	37	20	19664885	19664885	+	Missense_Mutation	SNP	C	G	G			TCGA-DB-5270-01A-02D-1468-08	TCGA-DB-5270-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	27da0280-b7dc-43ba-a50a-2e9a2c6b1bcf	a52afc7f-a694-44cb-8235-ef78e8c30fa2	g.chr20:19664885C>G	uc002wrl.2	+	11	1164	c.967C>G	c.(967-969)CTT>GTT	p.L323V		NM_020689	NP_065740	Q9HC58	NCKX3_HUMAN	solute carrier family 24	323	Cytoplasmic (Potential).					integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			ovary(1)	1						CCCACACCAGCTTTCCTTCTC	0.498000													20	39					0	0	0.055883	0	0
RTN4R	65078	broad.mit.edu	37	22	20229582	20229582	+	Silent	SNP	C	T	T			TCGA-DB-5270-01A-02D-1468-08	TCGA-DB-5270-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	27da0280-b7dc-43ba-a50a-2e9a2c6b1bcf	a52afc7f-a694-44cb-8235-ef78e8c30fa2	g.chr22:20229582C>T	uc002zrv.2	-	2	1275	c.1074G>A	c.(1072-1074)GCG>GCA	p.A358A	RTN4R_uc002zru.2_Silent_p.A130A	NM_023004	NP_075380	Q9BZR6	RTN4R_HUMAN	reticulon 4 receptor precursor	358					axonogenesis|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway	anchored to membrane|cell surface|endoplasmic reticulum|plasma membrane	protein binding|receptor activity				0	Colorectal(54;0.0993)					GTCCCTTCAGCGCATTGCCTG	0.662000													12	50					0	0	0.033300	0	0
DEPDC5	9681	broad.mit.edu	37	22	32293560	32293560	+	Silent	SNP	C	T	T			TCGA-DB-5270-01A-02D-1468-08	TCGA-DB-5270-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	27da0280-b7dc-43ba-a50a-2e9a2c6b1bcf	a52afc7f-a694-44cb-8235-ef78e8c30fa2	g.chr22:32293560C>T	uc003als.2	+	39	4345	c.4203C>T	c.(4201-4203)GGC>GGT	p.G1401G	DEPDC5_uc011als.1_Silent_p.G1332G|DEPDC5_uc011alu.1_Silent_p.G1432G|DEPDC5_uc011alv.1_RNA|DEPDC5_uc003alt.2_Silent_p.G1423G|DEPDC5_uc003alu.2_Silent_p.G850G|DEPDC5_uc003alv.2_RNA|DEPDC5_uc003alw.2_Silent_p.G699G|DEPDC5_uc011alx.1_Silent_p.G249G|DEPDC5_uc010gwk.2_Silent_p.G427G|DEPDC5_uc011aly.1_Silent_p.G249G	NM_014662	NP_055477	O75140	DEPD5_HUMAN	DEP domain containing 5 isoform 1	1401					intracellular signal transduction					ovary(4)|central_nervous_system(3)|pancreas(1)	8						ACCTGTATGGCGACCCCCTTC	0.547000													38	132					0	0	0.086207	0	0
LEF1	51176	broad.mit.edu	37	4	109000758	109000758	+	Silent	SNP	A	G	G			TCGA-DB-5270-01A-02D-1468-08	TCGA-DB-5270-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	27da0280-b7dc-43ba-a50a-2e9a2c6b1bcf	a52afc7f-a694-44cb-8235-ef78e8c30fa2	g.chr4:109000758A>G	uc003hyt.1	-	7	1390	c.735T>C	c.(733-735)CAT>CAC	p.H245H	LEF1_uc011cfj.1_Silent_p.H102H|LEF1_uc011cfk.1_Silent_p.H149H|LEF1_uc003hyu.1_Silent_p.H217H|LEF1_uc003hyv.1_Silent_p.H217H|LEF1_uc010imb.1_RNA|LEF1_uc010ima.1_5'Flank|LEF1_uc003hyw.1_RNA	NM_016269	NP_057353	Q9UJU2	LEF1_HUMAN	lymphoid enhancer-binding factor 1 isoform 1	245	Pro-rich.				canonical Wnt receptor signaling pathway|cell chemotaxis|cellular response to interleukin-4|epithelial to mesenchymal transition|histone H3 acetylation|histone H4 acetylation|negative regulation of apoptosis in bone marrow|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cell-cell adhesion|negative regulation of DNA binding|negative regulation of estrogen receptor binding|negative regulation of interleukin-13 production|negative regulation of interleukin-4 production|negative regulation of interleukin-5 production|negative regulation of transcription, DNA-dependent|neutrophil differentiation|osteoblast differentiation|palate development|positive regulation by host of viral transcription|positive regulation of cell cycle process|positive regulation of cell growth|positive regulation of cell migration|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of cell proliferation in bone marrow|positive regulation of cell-cell adhesion|positive regulation of epithelial to mesenchymal transition|positive regulation of granulocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|T-helper 1 cell differentiation	cytoplasm|protein-DNA complex|transcription factor complex	armadillo repeat domain binding|beta-catenin binding|C2H2 zinc finger domain binding|caspase inhibitor activity|DNA bending activity|enhancer binding|estrogen receptor activity|estrogen receptor binding|gamma-catenin binding|histone binding|sequence-specific DNA binding|transcription regulatory region DNA binding			large_intestine(1)	1				OV - Ovarian serous cystadenocarcinoma(123;0.000224)		CGGGAATCATATGATGGGAAA	0.468000													28	67					0	0	0.054565	0	0
RASA1	5921	broad.mit.edu	37	5	86659176	86659176	+	Missense_Mutation	SNP	C	T	T			TCGA-DB-5270-01A-02D-1468-08	TCGA-DB-5270-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	27da0280-b7dc-43ba-a50a-2e9a2c6b1bcf	a52afc7f-a694-44cb-8235-ef78e8c30fa2	g.chr5:86659176C>T	uc003kiw.2	+	11	1583	c.1465C>T	c.(1465-1467)CGT>TGT	p.R489C	RASA1_uc010jav.2_RNA|RASA1_uc003kix.2_Missense_Mutation_p.R312C|RASA1_uc011ctv.1_Missense_Mutation_p.R322C|RASA1_uc011ctw.1_Missense_Mutation_p.R323C|RASA1_uc010jaw.2_Missense_Mutation_p.R311C	NM_002890	NP_002881	P20936	RASA1_HUMAN	RAS p21 protein activator 1 isoform 1	489	PH.				cytokinesis|embryo development|intracellular signal transduction|negative regulation of cell-matrix adhesion|negative regulation of neuron apoptosis|negative regulation of Ras protein signal transduction|positive regulation of anti-apoptosis|regulation of actin filament polymerization|regulation of cell shape|regulation of RNA metabolic process|vasculogenesis	cytosol|intrinsic to internal side of plasma membrane	glycoprotein binding|GTPase binding|potassium channel inhibitor activity|Ras GTPase activator activity|receptor binding			upper_aerodigestive_tract(3)|ovary(1)|lung(1)	5		all_cancers(142;8.25e-07)|Lung NSC(167;0.000185)|all_lung(232;0.000222)|Colorectal(57;0.00542)|Ovarian(174;0.0423)		OV - Ovarian serous cystadenocarcinoma(54;4.72e-41)|Epithelial(54;1.51e-36)|all cancers(79;3.76e-31)		CAAAGGAAAACGTTGGAAAAA	0.274000													16	75					0	0	0.033300	0	0
TFR2	7036	broad.mit.edu	37	7	100229562	100229562	+	Silent	SNP	G	A	A			TCGA-DB-5270-01A-02D-1468-08	TCGA-DB-5270-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	27da0280-b7dc-43ba-a50a-2e9a2c6b1bcf	a52afc7f-a694-44cb-8235-ef78e8c30fa2	g.chr7:100229562G>A	uc003uvv.1	-	8	1014	c.973C>T	c.(973-975)CTG>TTG	p.L325L	TFR2_uc010lhc.1_5'UTR|TFR2_uc003uvu.1_Silent_p.L154L	NM_003227	NP_003218	Q9UP52	TFR2_HUMAN	transferrin receptor 2	325	Extracellular (Potential).				cellular iron ion homeostasis|iron ion transport|proteolysis	cytoplasm|integral to plasma membrane	peptidase activity|transferrin receptor activity			ovary(1)|pancreas(1)	2	Lung NSC(181;0.0261)|all_lung(186;0.0392)|Esophageal squamous(72;0.0439)					CCAGTTCCCAGGTGCACCTGC	0.577000													3	104					0	0	0.004672	0	0
Unknown	0	broad.mit.edu	37	9	21278317	21278317	+	RNA	SNP	T	G	G			TCGA-DB-5270-01A-02D-1468-08	TCGA-DB-5270-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	27da0280-b7dc-43ba-a50a-2e9a2c6b1bcf	a52afc7f-a694-44cb-8235-ef78e8c30fa2	g.chr9:21278317T>G	uc003zou.1	-	1		c.246A>C								Messenger RNA for human leukocyte (alpha) interferon.																		AAGGGTCGCATCCCAAGTATC	0.473000													3	58					0	0	0.004672	0	0
AQP7	364	broad.mit.edu	37	9	33395107	33395107	+	Missense_Mutation	SNP	A	G	G			TCGA-DB-5270-01A-02D-1468-08	TCGA-DB-5270-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	27da0280-b7dc-43ba-a50a-2e9a2c6b1bcf	a52afc7f-a694-44cb-8235-ef78e8c30fa2	g.chr9:33395107A>G	uc003zst.2	-	3	285	c.113T>C	c.(112-114)CTG>CCG	p.L38P	SUGT1P1_uc010mjq.1_Intron|AQP7_uc003zsu.1_Intron|AQP7_uc010mjs.2_5'Flank|AQP7_uc010mjt.2_5'UTR|AQP7_uc011lnx.1_Missense_Mutation_p.L38P|AQP7_uc011lny.1_Missense_Mutation_p.L37P|AQP7_uc003zss.3_5'UTR|AQP7_uc011lnz.1_5'UTR|AQP7_uc011loa.1_5'UTR	NM_001170	NP_001161	O14520	AQP7_HUMAN	aquaporin 7	38	Helical; (Potential).				excretion|generation of precursor metabolites and energy	cell-cell junction|cytoplasm|integral to plasma membrane	glycerol channel activity|water channel activity				0			LUSC - Lung squamous cell carcinoma(29;0.00788)	GBM - Glioblastoma multiforme(74;0.191)		GAACTCGGCCAGGAACTCTCG	0.587000													10	62					0	0	0.058154	0	0
TRPM6	140803	broad.mit.edu	37	9	77457155	77457155	+	Missense_Mutation	SNP	T	C	C			TCGA-DB-5270-01A-02D-1468-08	TCGA-DB-5270-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	27da0280-b7dc-43ba-a50a-2e9a2c6b1bcf	a52afc7f-a694-44cb-8235-ef78e8c30fa2	g.chr9:77457155T>C	uc004ajl.1	-	4	495	c.257A>G	c.(256-258)CAC>CGC	p.H86R	TRPM6_uc004ajk.1_Missense_Mutation_p.H81R|TRPM6_uc010mpb.1_RNA|TRPM6_uc010mpc.1_Missense_Mutation_p.H86R|TRPM6_uc010mpd.1_Missense_Mutation_p.H86R|TRPM6_uc010mpe.1_Missense_Mutation_p.H86R|TRPM6_uc004ajn.1_Missense_Mutation_p.H86R	NM_017662	NP_060132	Q9BX84	TRPM6_HUMAN	transient receptor potential cation channel,	86	Cytoplasmic (Potential).				response to toxin	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|stomach(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	8						TTTCGTTGTGTGCTTTTCAAC	0.443000													6	158					0	0	0.029380	0	0
TCF12	6938	broad.mit.edu	37	15	57524958	57524962	+	Frame_Shift_Del	DEL	CCACC	-	-			TCGA-DB-5270-01A-02D-1468-08	TCGA-DB-5270-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	27da0280-b7dc-43ba-a50a-2e9a2c6b1bcf	a52afc7f-a694-44cb-8235-ef78e8c30fa2	g.chr15:57524958_57524962delCCACC	uc002aec.2	+	11	1158_1162	c.874_878delCCACC	c.(874-879)CCACCAfs	p.P292fs	TCF12_uc010ugm.1_Frame_Shift_Del_p.P344fs|TCF12_uc010ugn.1_Frame_Shift_Del_p.P288fs|TCF12_uc002aea.2_Frame_Shift_Del_p.P292fs|TCF12_uc010bfs.2_Intron|TCF12_uc002aeb.2_Frame_Shift_Del_p.P292fs|TCF12_uc002aed.2_Frame_Shift_Del_p.P292fs|TCF12_uc002aee.2_Frame_Shift_Del_p.P122fs|TCF12_uc010bft.2_Frame_Shift_Del_p.P122fs|TCF12_uc010ugo.1_Frame_Shift_Del_p.P56fs	NM_207038	NP_996921	Q99081	HTF4_HUMAN	transcription factor 12 isoform b	292_293					immune response|muscle organ development|regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(5)|ovary(2)|lung(1)	8		Colorectal(260;0.0907)		all cancers(107;0.000313)|GBM - Glioblastoma multiforme(80;0.00878)|STAD - Stomach adenocarcinoma(283;0.239)		CACGAGTCTTCCACCAATGTCCAGC	0.424			T	TEC	extraskeletal myxoid chondrosarcoma								14	91	---	---	---	---					
FOXK1	221937	broad.mit.edu	37	7	4800775	4800776	+	Frame_Shift_Ins	INS	-	C	C			TCGA-DB-5270-01A-02D-1468-08	TCGA-DB-5270-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	27da0280-b7dc-43ba-a50a-2e9a2c6b1bcf	a52afc7f-a694-44cb-8235-ef78e8c30fa2	g.chr7:4800775_4800776insC	uc003snc.1	+	8	1787_1788	c.1777_1778insC	c.(1777-1779)GCCfs	p.A593fs	FOXK1_uc003sna.1_Frame_Shift_Ins_p.A430fs	NM_001037165	NP_001032242	P85037	FOXK1_HUMAN	forkhead box K1	593					cell differentiation|embryo development|muscle organ development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|magnesium ion binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			upper_aerodigestive_tract(1)|skin(1)	2		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.101)|OV - Ovarian serous cystadenocarcinoma(56;7.43e-15)		CAGCCAGATGGCCCCCGGGGTC	0.673													8	150	---	---	---	---					
MIR550-2	693134	broad.mit.edu	37	7	32772637	32772639	+	RNA	DEL	TGT	-	-	rs113464681		TCGA-DB-5270-01A-02D-1468-08	TCGA-DB-5270-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	27da0280-b7dc-43ba-a50a-2e9a2c6b1bcf	a52afc7f-a694-44cb-8235-ef78e8c30fa2	g.chr7:32772637_32772639delTGT	hsa-mir-550-2|MI0003601	+			c.45_47delTGT			AVL9_uc011kai.1_Intron|LOC441208_uc003tcy.3_Intron																	0						GTAAGAGCCCTGTTGTTGTCAGA	0.502													8	149	---	---	---	---					
ATRX	546	broad.mit.edu	37	X	76939371	76939372	+	Frame_Shift_Ins	INS	-	T	T			TCGA-DB-5270-01A-02D-1468-08	TCGA-DB-5270-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	27da0280-b7dc-43ba-a50a-2e9a2c6b1bcf	a52afc7f-a694-44cb-8235-ef78e8c30fa2	g.chrX:76939371_76939372insT	uc004ecp.3	-	9	1608_1609	c.1376_1377insA	c.(1375-1377)AAGfs	p.K459fs	ATRX_uc004ecq.3_Frame_Shift_Ins_p.K421fs|ATRX_uc004eco.3_Frame_Shift_Ins_p.K244fs|ATRX_uc004ecr.2_Frame_Shift_Ins_p.K420fs|ATRX_uc010nlx.1_Frame_Shift_Ins_p.K459fs|ATRX_uc010nly.1_Frame_Shift_Ins_p.K404fs	NM_000489	NP_000480	P46100	ATRX_HUMAN	transcriptional regulator ATRX isoform 1	459					DNA methylation|DNA recombination|DNA repair|regulation of transcription, DNA-dependent	nuclear heterochromatin	ATP binding|chromo shadow domain binding|DNA binding|DNA helicase activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(14)|pancreas(12)|lung(1)|breast(1)|skin(1)|kidney(1)	30					Phosphatidylserine(DB00144)	TAGCTTCTGACTTTGAAATATC	0.361			Mis|F|N		Pancreatic neuroendocrine tumors		ATR-X (alpha thalassemia/mental retardation) syndrome						80	343	---	---	---	---					
