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
UBR4	23352	broad.mit.edu	37	1	19510670	19510670	+	Splice_Site	SNP	C	T	T			TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr1:19510670C>T	uc001bbi.2	-	16	1943	c.1939_splice	c.e16-1	p.F647_splice		NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600						interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		GACCTAAGAACTGAAAGGAAC	0.378													6	51					0	0	0.038147	0	0
AKR7L	246181	broad.mit.edu	37	1	19595113	19595113	+	Missense_Mutation	SNP	T	G	G			TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr1:19595113T>G	uc010ocx.1	-	7	787	c.787A>C	c.(787-789)ATG>CTG	p.M263L	AKR7L_uc010ocy.1_Missense_Mutation_p.H197P	NM_201252	NP_957704			aflatoxin B1 aldehyde reductase 3 isoform 1												0						GCCGAGGTCATGCTGGGAGCG	0.632													19	51					0	0	0.076483	0	0
ARID1A	8289	broad.mit.edu	37	1	27087503	27087503	+	Nonsense_Mutation	SNP	C	T	T			TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr1:27087503C>T	uc001bmv.1	+	5	2450	c.2077C>T	c.(2077-2079)CGA>TGA	p.R693*	ARID1A_uc001bmt.1_Nonsense_Mutation_p.R693*|ARID1A_uc001bmu.1_Nonsense_Mutation_p.R693*|ARID1A_uc001bmw.1_Nonsense_Mutation_p.R310*	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	693					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			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)		GCCTGGCATCCGAGGCCCTTC	0.602			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								8	114					0	0	0.047766	0	0
LRP8	7804	broad.mit.edu	37	1	53736785	53736785	+	Silent	SNP	G	A	A			TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr1:53736785G>A	uc001cvi.1	-	8	1309	c.1167C>T	c.(1165-1167)ATC>ATT	p.I389I	LRP8_uc001cvh.1_Intron|LRP8_uc001cvk.1_Silent_p.I219I|LRP8_uc001cvj.1_Silent_p.I389I|LRP8_uc001cvl.1_Silent_p.I260I|LRP8_uc001cvm.1_5'Flank	NM_004631	NP_004622	Q14114	LRP8_HUMAN	low density lipoprotein receptor-related protein	389	EGF-like 2; calcium-binding (Potential).|Extracellular (Potential).				cytokine-mediated signaling pathway|endocytosis|lipid metabolic process|platelet activation|proteolysis	caveola	calcium ion binding|very-low-density lipoprotein particle receptor activity				0						AATTGACACAGATCTGGCTGC	0.532													3	99					0	0	0.115264	0	0
ZNF644	84146	broad.mit.edu	37	1	91405809	91405809	+	Missense_Mutation	SNP	C	T	T			TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr1:91405809C>T	uc001dnw.2	-	3	1244	c.1102G>A	c.(1102-1104)GAT>AAT	p.D368N	ZNF644_uc001dnv.2_Intron|ZNF644_uc001dnx.2_Intron|ZNF644_uc001dny.1_Missense_Mutation_p.D368N	NM_201269	NP_958357	Q9H582	ZN644_HUMAN	zinc finger protein 644 isoform 1	368					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)|skin(1)	3		all_lung(203;0.00206)|Lung NSC(277;0.0519)|Lung SC(238;0.101)		all cancers(265;0.00102)|Epithelial(280;0.00766)|KIRC - Kidney renal clear cell carcinoma(1967;0.147)|OV - Ovarian serous cystadenocarcinoma(397;0.173)		CCACACTTATCTGGGTTATAA	0.368													4	101					0	0	0.009096	0	0
ADAM30	11085	broad.mit.edu	37	1	120437550	120437550	+	Silent	SNP	G	A	A			TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr1:120437550G>A	uc001eij.2	-	1	1564	c.1410C>T	c.(1408-1410)TGC>TGT	p.C470C		NM_021794	NP_068566	Q9UKF2	ADA30_HUMAN	ADAM metallopeptidase domain 30 preproprotein	470	Disintegrin.|Extracellular (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			ovary(2)|lung(1)	3	all_cancers(5;7.07e-10)|all_epithelial(5;1.62e-10)|all_neural(166;0.153)|Breast(55;0.234)	all_lung(203;1.55e-06)|Lung NSC(69;1.04e-05)|all_epithelial(167;0.00138)		Lung(183;0.0204)|LUSC - Lung squamous cell carcinoma(189;0.117)		AATTCCCGTCGCAGTACTCTG	0.483													13	74					0	0	0.119110	0	0
IL10	3586	broad.mit.edu	37	1	206944736	206944736	+	Silent	SNP	A	G	G			TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr1:206944736A>G	uc001hen.1	-	2	249	c.190T>C	c.(190-192)TTG>CTG	p.L64L		NM_000572	NP_000563	P22301	IL10_HUMAN	interleukin 10 precursor	64					anti-apoptosis|B cell differentiation|B cell proliferation|cytoplasmic sequestering of NF-kappaB|inflammatory response|leukocyte chemotaxis|negative regulation of B cell proliferation|negative regulation of cytokine secretion involved in immune response|negative regulation of interferon-alpha biosynthetic process|negative regulation of interleukin-6 production|negative regulation of membrane protein ectodomain proteolysis|negative regulation of MHC class II biosynthetic process|negative regulation of T cell proliferation|positive regulation of B cell apoptosis|positive regulation of cytokine secretion|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|receptor biosynthetic process|regulation of isotype switching|response to glucocorticoid stimulus|type 2 immune response	extracellular space	cytokine activity|growth factor activity|interleukin-10 receptor binding				0	Breast(84;0.183)		BRCA - Breast invasive adenocarcinoma(75;0.211)			TTTAACAACAAGTtgtccagc	0.373													7	15					0	0	0.047766	0	0
WDR37	22884	broad.mit.edu	37	10	1170957	1170957	+	Missense_Mutation	SNP	G	T	T			TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr10:1170957G>T	uc001igf.1	+	13	1519	c.1346G>T	c.(1345-1347)AGC>ATC	p.S449I	WDR37_uc009xhm.1_Missense_Mutation_p.S450I|WDR37_uc009xhn.1_RNA|WDR37_uc001igg.1_RNA	NM_014023	NP_054742	Q9Y2I8	WDR37_HUMAN	WD repeat domain 37	449											0		all_epithelial(10;0.0449)|Colorectal(49;0.142)		Epithelial(11;0.134)		CCCCGGAGCAGCCGACAGGTA	0.502													9	54					1.12685e-05	1.21032e-05	0.047766	1	0
OIT3	170392	broad.mit.edu	37	10	74673065	74673065	+	Splice_Site	SNP	G	C	C			TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr10:74673065G>C	uc001jte.1	+	6	1009	c.791_splice	c.e6-1	p.V264_splice	OIT3_uc009xqs.1_Splice_Site	NM_152635	NP_689848	Q8WWZ8	OIT3_HUMAN	oncoprotein-induced transcript 3 precursor							nuclear envelope	calcium ion binding			ovary(2)	2	Prostate(51;0.0198)					TTTCTCTGCAGTCCCTGTGTT	0.502													5	232					0	0	0.021553	0	0
NELL1	4745	broad.mit.edu	37	11	20950023	20950023	+	Missense_Mutation	SNP	G	A	A			TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr11:20950023G>A	uc001mqe.2	+	9	1148	c.995G>A	c.(994-996)CGA>CAA	p.R332Q	NELL1_uc001mqf.2_Missense_Mutation_p.R332Q|NELL1_uc009yid.2_Missense_Mutation_p.R360Q|NELL1_uc010rdo.1_Missense_Mutation_p.R275Q|NELL1_uc010rdp.1_Missense_Mutation_p.R92Q	NM_006157	NP_006148	Q92832	NELL1_HUMAN	nel-like 1 isoform 1 precursor	332	VWFC 1.				cell adhesion|nervous system development	extracellular region	calcium ion binding|structural molecule activity			ovary(2)|large_intestine(1)	3						AAGGTCTGCCGACGTAAGTAC	0.488													31	54					0	0	0.045705	0	0
FGF23	8074	broad.mit.edu	37	12	4479524	4479524	+	Silent	SNP	G	A	A			TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr12:4479524G>A	uc001qmq.1	-	3	887	c.741C>T	c.(739-741)TTC>TTT	p.F247F		NM_020638	NP_065689	Q9GZV9	FGF23_HUMAN	fibroblast growth factor 23 precursor	247					cell differentiation|insulin receptor signaling pathway|negative regulation of bone mineralization|negative regulation of hormone secretion|negative regulation of osteoblast differentiation|positive regulation of vitamin D 24-hydroxylase activity|regulation of phosphate transport|vitamin D catabolic process	extracellular space	growth factor activity			ovary(2)|breast(1)|skin(1)	4			Colorectal(7;0.00165)|COAD - Colon adenocarcinoma(12;0.0229)|STAD - Stomach adenocarcinoma(119;0.206)			TGAACTTGGCGAAGGGGCGGC	0.627													6	121					0	0	0.047766	0	0
SLCO1A2	6579	broad.mit.edu	37	12	21422506	21422506	+	Silent	SNP	A	G	G			TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr12:21422506A>G	uc001rer.2	-	14	2240	c.1989T>C	c.(1987-1989)GAT>GAC	p.D663D	SLCO1A2_uc001res.2_Silent_p.D663D|SLCO1A2_uc010siq.1_Silent_p.D531D|SLCO1A2_uc010sio.1_Silent_p.D531D|SLCO1A2_uc010sip.1_Silent_p.D531D	NM_021094	NP_066580	P46721	SO1A2_HUMAN	organic anion transporting polypeptide A	663	Cytoplasmic (Potential).				bile acid metabolic process|sodium-independent organic anion transport	integral to membrane|plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(1)|pancreas(1)|ovary(1)|skin(1)	4						TCAATTCATCATCTTTCAAAA	0.308													37	56					0	0	0.092188	0	0
MLL2	8085	broad.mit.edu	37	12	49427265	49427265	+	Silent	SNP	T	C	C			TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr12:49427265T>C	uc001rta.3	-	39	11223	c.11223A>G	c.(11221-11223)CAA>CAG	p.Q3741Q		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	3741	Potential.|Gln-rich.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						gctgctgctgttgctgctgct	0.473			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			2	4					0	0	0.115264	0	0
ACACB	32	broad.mit.edu	37	12	109647094	109647094	+	Missense_Mutation	SNP	G	A	A			TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr12:109647094G>A	uc001tob.2	+	21	3304	c.3185G>A	c.(3184-3186)CGC>CAC	p.R1062H	ACACB_uc001toc.2_Missense_Mutation_p.R1062H	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta	1062					acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)	AAGTCTGTCCGCAGGGTGATG	0.667													3	51					0	0	0.014758	0	0
FAM124A	220108	broad.mit.edu	37	13	51825705	51825705	+	Missense_Mutation	SNP	G	A	A			TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr13:51825705G>A	uc001vfg.1	+	3	333	c.202G>A	c.(202-204)GTC>ATC	p.V68I	FAM124A_uc001vfe.2_Missense_Mutation_p.V68I|FAM124A_uc001vff.1_Missense_Mutation_p.V104I	NM_145019	NP_659456	Q86V42	F124A_HUMAN	hypothetical protein LOC220108	68										central_nervous_system(1)	1		Acute lymphoblastic leukemia(7;0.000334)|Breast(56;0.00156)|Prostate(109;0.00538)|Lung NSC(96;0.0216)|Hepatocellular(98;0.152)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(99;4.25e-07)		CATCGACAACGTCCTGGCGTG	0.682													9	15					0	0	0.047766	0	0
TPPP2	122664	broad.mit.edu	37	14	21498757	21498757	+	Missense_Mutation	SNP	A	C	C			TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr14:21498757A>C	uc001vzh.2	+	2	205	c.17A>C	c.(16-18)GAA>GCA	p.E6A	NDRG2_uc010tll.1_Intron	NM_173846	NP_776245	P59282	TPPP2_HUMAN	tubulin polymerization-promoting protein family	6						cytoplasm					0	all_cancers(95;0.000759)		OV - Ovarian serous cystadenocarcinoma(11;6.85e-11)|Epithelial(56;9.49e-09)|all cancers(55;3.84e-08)	GBM - Glioblastoma multiforme(265;0.0191)		TCAGAGGCAGAAAAAACATTC	0.522													3	21					0	0	0.009096	0	0
PLEKHG3	26030	broad.mit.edu	37	14	65198857	65198857	+	Missense_Mutation	SNP	G	C	C			TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr14:65198857G>C	uc001xho.1	+	10	1439	c.1170G>C	c.(1168-1170)AAG>AAC	p.K390N	PLEKHG3_uc001xhn.1_Missense_Mutation_p.K334N|PLEKHG3_uc001xhp.2_Missense_Mutation_p.K390N|PLEKHG3_uc010aqh.1_5'UTR	NM_015549	NP_056364	A1L390	PKHG3_HUMAN	pleckstrin homology domain containing, family G,	390	PH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(1)	1				all cancers(60;0.00802)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)|BRCA - Breast invasive adenocarcinoma(234;0.0485)		ACCACATCAAGAGGCTCATCC	0.557													7	77					0	0	0.058154	0	0
ATP6V1D	51382	broad.mit.edu	37	14	67807223	67807223	+	Missense_Mutation	SNP	C	T	T	rs144396308	byFrequency	TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr14:67807223C>T	uc001xjf.2	-	8	712	c.536G>A	c.(535-537)CGG>CAG	p.R179Q	ATP6V1D_uc001xje.2_RNA	NM_015994	NP_057078	Q9Y5K8	VATD_HUMAN	H(+)-transporting two-sector ATPase	179					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytosol|proton-transporting two-sector ATPase complex, catalytic domain|vacuolar proton-transporting V-type ATPase complex	protein binding|proton-transporting ATPase activity, rotational mechanism			ovary(1)|lung(1)	2				all cancers(60;0.000739)|OV - Ovarian serous cystadenocarcinoma(108;0.00597)|BRCA - Breast invasive adenocarcinoma(234;0.00957)		ACGTTCAATCCGGGGAATGAT	0.328													34	54					0	0	0.059317	0	0
RIN3	79890	broad.mit.edu	37	14	93043731	93043731	+	Silent	SNP	C	T	T			TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr14:93043731C>T	uc001yap.2	+	3	428	c.276C>T	c.(274-276)AGC>AGT	p.S92S	RIN3_uc010auk.2_5'UTR|RIN3_uc001yaq.2_Silent_p.S17S	NM_024832	NP_079108	Q8TB24	RIN3_HUMAN	Ras and Rab interactor 3	92	SH2.				endocytosis|signal transduction	cytoplasmic membrane-bounded vesicle|early endosome	GTPase activator activity|Ras GTPase binding			lung(2)|ovary(1)	3		all_cancers(154;0.0701)				GGGACAGCAGCTCGAAGCAGC	0.512													5	187					0	0	0.029380	0	0
Unknown	0	broad.mit.edu	37	15	20657760	20657760	+	Silent	SNP	C	T	T			TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr15:20657760C>T	uc001ytg.2	-	16	2218	c.1509G>A	c.(1507-1509)CCG>CCA	p.P503P	uc010tyx.1_RNA|uc001yth.3_Silent_p.P503P|uc010tyy.1_Silent_p.P503P|uc010tyz.1_3'UTR					RecName: Full=Putative HERC2-like protein 3;																		TCCCCAAGCTCGGTCCCGATG	0.547													3	31					0	0	0.115264	0	0
SPTBN5	51332	broad.mit.edu	37	15	42169508	42169508	+	Missense_Mutation	SNP	A	G	G			TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr15:42169508A>G	uc001zos.2	-	18	3745	c.3412T>C	c.(3412-3414)TGC>CGC	p.C1138R		NM_016642	NP_057726	Q9NRC6	SPTN5_HUMAN	spectrin, beta, non-erythrocytic 5	1173	Spectrin 8.				actin cytoskeleton organization|actin filament capping|axon guidance	cytosol|membrane|spectrin				ovary(1)|central_nervous_system(1)	2		all_cancers(109;1.84e-17)|all_epithelial(112;1.12e-15)|Lung NSC(122;7.6e-10)|all_lung(180;4.15e-09)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		all cancers(2;4.33e-34)|Epithelial(2;1.72e-25)|OV - Ovarian serous cystadenocarcinoma(18;8.32e-20)|GBM - Glioblastoma multiforme(94;4.69e-07)|Colorectal(2;0.00104)|COAD - Colon adenocarcinoma(120;0.0405)|READ - Rectum adenocarcinoma(92;0.0908)		GAGTCTGGGCAGTCCAAGGCT	0.632													7	10					0	0	0.029380	0	0
MYO5A	4644	broad.mit.edu	37	15	52646154	52646154	+	Silent	SNP	G	T	T			TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr15:52646154G>T	uc002aby.2	-	26	3725	c.3481C>A	c.(3481-3483)CGG>AGG	p.R1161R	MYO5A_uc002abx.3_Silent_p.R1161R|MYO5A_uc010ugd.1_5'Flank|MYO5A_uc002aca.1_5'Flank|MYO5A_uc002acb.1_5'Flank|MYO5A_uc002acc.1_5'Flank	NM_000259	NP_000250	Q9Y4I1	MYO5A_HUMAN	myosin VA isoform 1	1161	Potential.				actin filament-based movement|transport	cytoplasm|growth cone|myosin complex|ruffle	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(3)|central_nervous_system(1)	4				all cancers(107;0.0085)|Colorectal(133;0.077)|READ - Rectum adenocarcinoma(133;0.196)		TCTGTGACCCGCTTCTGGAGC	0.552													4	157					3.59834e-05	3.79461e-05	0.021553	1	0
IL16	3603	broad.mit.edu	37	15	81591938	81591938	+	Silent	SNP	C	T	T			TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr15:81591938C>T	uc002bgh.3	+	14	2647	c.2271C>T	c.(2269-2271)ACC>ACT	p.T757T	IL16_uc010blq.1_Silent_p.T711T|IL16_uc002bge.3_RNA|IL16_uc010unp.1_Silent_p.T799T|IL16_uc002bgg.2_Silent_p.T757T|IL16_uc002bgi.1_Silent_p.T147T|IL16_uc002bgj.2_Silent_p.T251T|IL16_uc002bgk.2_Silent_p.T56T|IL16_uc002bgl.1_Silent_p.T56T|IL16_uc010unq.1_Silent_p.T56T	NM_172217	NP_757366	Q14005	IL16_HUMAN	interleukin 16 isoform 2	757				T->A: Reduces phosphorylation. Enhances nuclear localization.	immune response|interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|extracellular space|nucleus|plasma membrane	cytokine activity			ovary(2)|lung(1)|skin(1)	4						CAGATGGGACCCCACCAAAGC	0.552													3	64					0	0	0.115264	0	0
LRRK1	79705	broad.mit.edu	37	15	101565120	101565120	+	Missense_Mutation	SNP	C	T	T			TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr15:101565120C>T	uc002bwr.2	+	16	2499	c.2180C>T	c.(2179-2181)GCG>GTG	p.A727V	LRRK1_uc010usb.1_RNA|LRRK1_uc010usc.1_RNA	NM_024652	NP_078928	Q38SD2	LRRK1_HUMAN	leucine-rich repeat kinase 1	727	Roc.				small GTPase mediated signal transduction	mitochondrion	ATP binding|GTP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|lung(4)|central_nervous_system(3)|large_intestine(1)	12	Melanoma(26;0.00505)|Lung NSC(78;0.00793)|all_lung(78;0.0094)		OV - Ovarian serous cystadenocarcinoma(32;0.000932)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			TGGAACCTGGCGCTGGGGGAG	0.622													6	233					0	0	0.029380	0	0
HAS3	3038	broad.mit.edu	37	16	69148261	69148261	+	Missense_Mutation	SNP	G	A	A			TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr16:69148261G>A	uc010cfh.2	+	4	978	c.754G>A	c.(754-756)GAC>AAC	p.D252N	HAS3_uc002ewk.2_Intron|HAS3_uc002ewl.2_Missense_Mutation_p.D252N	NM_005329	NP_005320	O00219	HAS3_HUMAN	hyaluronan synthase 3 isoform a	252	Cytoplasmic (Potential).				carbohydrate metabolic process	integral to plasma membrane	hyaluronan synthase activity				0		Ovarian(137;0.101)		OV - Ovarian serous cystadenocarcinoma(108;0.0694)		CAACAAGTACGACTCATGGAT	0.557													76	115					0	0	0.139131	0	0
TP53	7157	broad.mit.edu	37	17	7577121	7577121	+	Missense_Mutation	SNP	G	A	A	rs121913343		TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr17:7577121G>A	uc002gim.2	-	8	1011	c.817C>T	c.(817-819)CGT>TGT	p.R273C	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Missense_Mutation_p.R273C|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R141C|TP53_uc010cng.1_Missense_Mutation_p.R141C|TP53_uc002gii.1_Missense_Mutation_p.R141C|TP53_uc010cnh.1_Missense_Mutation_p.R273C|TP53_uc010cni.1_Missense_Mutation_p.R273C|TP53_uc002gij.2_Missense_Mutation_p.R273C	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	273	Interaction with DNA.||Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> N (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|R -> S (in a familial cancer not matching LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> L (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> C (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> G (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> Q (in sporadic cancers; somatic mutation).|R -> Y (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|R -> P (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.R273H(467)|p.R273C(396)|p.R273L(83)|p.R273P(24)|p.R273S(11)|p.R273G(9)|p.0?(7)|p.R273fs*72(3)|p.?(2)|p.R273fs*33(2)|p.F270fs*72(1)|p.R273_C275delRVC(1)|p.L265_K305del41(1)|p.S269fs*21(1)|p.R273R(1)|p.E258fs*71(1)|p.R273fs*71(1)|p.F270_D281del12(1)|p.E271_R273delEVR(1)|p.V272_K292del21(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)		GCACAAACACGCACCTCAAAG	0.542	R273C(SH10TC_STOMACH)|R273C(SUDHL4_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273C(8MGBA_CENTRAL_NERVOUS_SYSTEM)|R273C(SW1783_CENTRAL_NERVOUS_SYSTEM)|R273C(BL70_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273C(SW1710_URINARY_TRACT)|R273C(RH30_SOFT_TISSUE)|R273C(PANC0213_PANCREAS)|R273C(SJRH30_SOFT_TISSUE)|R273C(PF382_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273C(RDES_BONE)|R273C(TT2609C02_THYROID)|R273C(MFE319_ENDOMETRIUM)|R273C(RPMI8402_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273C(EFO27_OVARY)|R273C(NCIH1048_LUNG)|R273C(KARPAS299_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)	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)			22	15					0	0	0.083992	0	0
USP36	57602	broad.mit.edu	37	17	76832339	76832339	+	Missense_Mutation	SNP	A	G	G			TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr17:76832339A>G	uc002jvz.1	-	3	432	c.107T>C	c.(106-108)CTT>CCT	p.L36P	USP36_uc002jwa.1_Missense_Mutation_p.L36P|USP36_uc002jwd.1_Missense_Mutation_p.L36P	NM_025090	NP_079366	Q9P275	UBP36_HUMAN	ubiquitin specific peptidase 36	36					ubiquitin-dependent protein catabolic process	nucleolus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|ovary(1)|breast(1)|kidney(1)	5			BRCA - Breast invasive adenocarcinoma(99;0.000842)|OV - Ovarian serous cystadenocarcinoma(97;0.151)			TTTCTGTAAAAGGACCTTCTT	0.517													3	48					0	0	0.115264	0	0
PNPLA6	10908	broad.mit.edu	37	19	7606923	7606923	+	Missense_Mutation	SNP	C	T	T			TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr19:7606923C>T	uc010xjq.1	+	12	1444	c.1249C>T	c.(1249-1251)CGC>TGC	p.R417C	PNPLA6_uc002mgq.1_Missense_Mutation_p.R369C|PNPLA6_uc010xjp.1_Missense_Mutation_p.R369C|PNPLA6_uc002mgr.1_Missense_Mutation_p.R369C|PNPLA6_uc002mgs.2_Missense_Mutation_p.R408C	NM_006702	NP_006693	Q8IY17	PLPL6_HUMAN	neuropathy target esterase isoform b	408	Cytoplasmic (Potential).				cell death|lipid catabolic process|phosphatidylcholine metabolic process	endoplasmic reticulum membrane|integral to membrane	lysophospholipase activity			ovary(3)	3						TCTGCTGAGCCGCTGCGTCTC	0.642													26	41					0	0	0.064281	0	0
CPAMD8	27151	broad.mit.edu	37	19	17122404	17122404	+	Missense_Mutation	SNP	C	T	T			TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr19:17122404C>T	uc002nfb.2	-	4	604	c.572G>A	c.(571-573)CGA>CAA	p.R191Q		NM_015692	NP_056507	Q8IZJ3	CPMD8_HUMAN	C3 and PZP-like, alpha-2-macroglobulin domain	144						extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			ovary(4)|breast(4)|large_intestine(3)|pancreas(1)|skin(1)	13						CCACTCACCTCGGTGCTGGGG	0.602													9	158					0	0	0.093190	0	0
MIR373	442918	broad.mit.edu	37	19	54291978	54291978	+	RNA	SNP	C	T	T			TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr19:54291978C>T	hsa-mir-373|MI0000781	+			c.20C>T			uc010yee.1_RNA																	0						AAAATGGGGGCGCTTTCCTTT	0.522													2	1					0	0	0.115264	0	0
DAPL1	92196	broad.mit.edu	37	2	159660849	159660849	+	Silent	SNP	A	G	G			TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr2:159660849A>G	uc002uaf.2	+	2	170	c.114A>G	c.(112-114)AGA>AGG	p.R38R		NM_001017920	NP_001017920	A0PJW8	DAPL1_HUMAN	death associated protein-like 1	38					apoptosis|cell differentiation						0						CCTTGGAAAGACATACCAAAA	0.378													8	8					0	0	0.047766	0	0
TTN	7273	broad.mit.edu	37	2	179592377	179592377	+	Missense_Mutation	SNP	T	C	C			TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr2:179592377T>C	uc010zfg.1	-	65	16420	c.16196A>G	c.(16195-16197)CAG>CGG	p.Q5399R	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.Q2060R	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	6326							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GCAAGTATACTGTCCAGTCTT	0.418													12	239					0	0	0.132662	0	0
IDH1	3417	broad.mit.edu	37	2	209113113	209113113	+	Missense_Mutation	SNP	G	C	C	rs121913499		TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr2:209113113G>C	uc002vcs.2	-	4	640	c.394C>G	c.(394-396)CGT>GGT	p.R132G	IDH1_uc002vct.2_Missense_Mutation_p.R132G|IDH1_uc002vcu.2_Missense_Mutation_p.R132G	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)		TAAGCATGACGACCTATGATG	0.398			Mis		gliobastoma 								35	59					0	0	0.086207	0	0
SP140	11262	broad.mit.edu	37	2	231108509	231108509	+	Missense_Mutation	SNP	C	T	T			TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr2:231108509C>T	uc002vql.2	+	5	669	c.554C>T	c.(553-555)TCG>TTG	p.S185L	SP140_uc010zma.1_RNA|SP140_uc002vqk.2_Missense_Mutation_p.S185L|SP140_uc002vqn.2_Missense_Mutation_p.S185L|SP140_uc002vqm.2_Missense_Mutation_p.S185L|SP140_uc010fxl.2_Missense_Mutation_p.S185L	NM_007237	NP_009168	Q13342	LY10_HUMAN	SP140 nuclear body protein isoform 1	185					defense response	cytoplasm|nuclear envelope|nucleolus|nucleoplasm	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Renal(207;0.0112)|all_lung(227;0.0221)|Lung NSC(271;0.0977)|all_hematologic(139;0.103)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;1.13e-12)|all cancers(144;2.71e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00942)		TTGAGCTCCTCGCCAAGGTGT	0.488													8	74					0	0	0.038147	0	0
PRNT	149830	broad.mit.edu	37	20	4713271	4713271	+	RNA	SNP	G	A	A			TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr20:4713271G>A	uc002wlb.2	-	2		c.753C>T			PRNT_uc010zqp.1_RNA|PRNT_uc010zqq.1_RNA	NR_024268				Homo sapiens mRNA for putative M8 protein, isoform 2.												0						aggtggagaagatgggaaaga	0													7	5					0	0	0.029380	0	0
FRG1B	284802	broad.mit.edu	37	20	29628245	29628245	+	Missense_Mutation	SNP	G	A	A			TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr20:29628245G>A	uc010ztl.1	+	3	189	c.157G>A	c.(157-159)GCC>ACC	p.A53T	FRG1B_uc002wvm.1_RNA|FRG1B_uc010ztj.1_RNA|FRG1B_uc010gdr.1_RNA|FRG1B_uc010ztk.1_Missense_Mutation_p.A5T					Homo sapiens cDNA FLJ32537 fis, clone SMINT2000400, highly similar to Homo sapiens FRG1 mRNA.												0						GGCTTTGTTGGCCTCAAATAG	0.353													5	151					0	0	0.058154	0	0
CBY1	25776	broad.mit.edu	37	22	39067165	39067165	+	Missense_Mutation	SNP	G	A	A	rs140554782		TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr22:39067165G>A	uc003awb.2	+	5	551	c.275G>A	c.(274-276)CGG>CAG	p.R92Q	CBY1_uc011any.1_3'UTR|CBY1_uc003awc.2_Missense_Mutation_p.R92Q|uc003awd.2_RNA	NM_001002880	NP_001002880	Q9Y3M2	CBY1_HUMAN	PKD2 interactor, golgi and endoplasmic reticulum	92	Minimal region for the interaction with PKD2.|Potential.				cardiac muscle cell differentiation|fat cell differentiation|negative regulation of transcription, DNA-dependent|protein localization	nuclear speck|trans-Golgi network	beta-catenin binding|identical protein binding			ovary(1)	1	Melanoma(58;0.04)					AATCTCTTGCGGCTGAAAGTG	0.552													7	122					0	0	0.038147	0	0
CAND2	23066	broad.mit.edu	37	3	12858002	12858002	+	Missense_Mutation	SNP	C	T	T			TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr3:12858002C>T	uc003bxk.2	+	10	1620	c.1571C>T	c.(1570-1572)CCA>CTA	p.P524L	CAND2_uc003bxj.2_Missense_Mutation_p.P431L	NM_001162499	NP_001155971	O75155	CAND2_HUMAN	TBP-interacting protein isoform 1	524	HEAT 11.				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			skin(3)|pancreas(1)	4						ATCCTCCTGCCACCTGTGATG	0.642													7	103					0	0	0.058154	0	0
C3orf35	339883	broad.mit.edu	37	3	37458782	37458782	+	Missense_Mutation	SNP	A	G	G			TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr3:37458782A>G	uc003cha.3	+	5	689	c.25A>G	c.(25-27)AGG>GGG	p.R9G	C3orf35_uc003chb.2_Missense_Mutation_p.R9G	NM_178339	NP_848029	Q8IVJ8	APRG1_HUMAN	AP20 region protein isoform B	9						integral to membrane				central_nervous_system(1)	1						AACAAGAAAAAGGTGTAAACT	0.368													3	101					0	0	0.014758	0	0
GRM2	2912	broad.mit.edu	37	3	51749936	51749936	+	Missense_Mutation	SNP	T	G	G			TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr3:51749936T>G	uc010hlv.2	+	4	2386	c.2147T>G	c.(2146-2148)GTG>GGG	p.V716G	GRM2_uc003dbo.3_Missense_Mutation_p.V98G|GRM2_uc010hlu.2_RNA	NM_000839	NP_000830	Q14416	GRM2_HUMAN	glutamate receptor, metabotropic 2 isoform a	716	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Acamprosate(DB00659)|Nicotine(DB00184)	CGGCGGGAGGTGGTGACACTG	0.627													5	50					0	0	0.116897	0	0
ITIH1	3697	broad.mit.edu	37	3	52819072	52819072	+	Missense_Mutation	SNP	C	G	G			TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr3:52819072C>G	uc003dfs.2	+	12	1444	c.1420C>G	c.(1420-1422)CAG>GAG	p.Q474E	ITIH1_uc010hmn.1_RNA|ITIH1_uc003dft.2_Missense_Mutation_p.Q75E|ITIH1_uc010hmo.1_Missense_Mutation_p.Q28E|ITIH1_uc003dfu.2_5'Flank	NM_002215	NP_002206	P19827	ITIH1_HUMAN	inter-alpha (globulin) inhibitor H1	474	Hyaluronan-binding.				hyaluronan metabolic process|leukocyte activation	extracellular region	calcium ion binding|serine-type endopeptidase inhibitor activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;7.04e-05)|Kidney(197;0.000659)|KIRC - Kidney renal clear cell carcinoma(197;0.000795)|OV - Ovarian serous cystadenocarcinoma(275;0.0498)		TTTCTACAGCCAGGTAGCCAA	0.547													4	104					0	0	0.009096	0	0
ARGFX	503582	broad.mit.edu	37	3	121303779	121303779	+	Missense_Mutation	SNP	A	G	G			TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr3:121303779A>G	uc003eef.2	+	4	331	c.236A>G	c.(235-237)CAT>CGT	p.H79R		NM_001012659	NP_001012677	A6NJG6	ARGFX_HUMAN	arginine-fifty homeobox	79	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(2)|ovary(1)	3				GBM - Glioblastoma multiforme(114;0.152)		CGGAGAAGGCATAAAGAACGT	0.418													4	200					0	0	0.038147	0	0
ACPP	55	broad.mit.edu	37	3	132051045	132051045	+	Nonsense_Mutation	SNP	C	T	T			TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr3:132051045C>T	uc010htp.2	+	4	403	c.313C>T	c.(313-315)CGA>TGA	p.R105*	ACPP_uc003eon.3_Nonsense_Mutation_p.R105*|ACPP_uc003eop.3_Nonsense_Mutation_p.R105*	NM_001099	NP_001090	P15309	PPAP_HUMAN	acid phosphatase, prostate short isoform	105						extracellular region|lysosomal membrane	5'-nucleotidase activity|acid phosphatase activity			ovary(1)	1						GGTTTATATTCGAAGCACAGA	0.458													7	139					0	0	0.069234	0	0
C3orf58	205428	broad.mit.edu	37	3	143708579	143708579	+	Missense_Mutation	SNP	G	C	C			TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr3:143708579G>C	uc003evo.2	+	3	1724	c.1189G>C	c.(1189-1191)GCC>CCC	p.A397P	C3orf58_uc011bnl.1_Missense_Mutation_p.A188P	NM_173552	NP_775823	Q8NDZ4	CC058_HUMAN	hypothetical protein LOC205428 isoform a	397						COPI vesicle coat|extracellular region				ovary(1)	1						CCGGCTCGAGGCCTTGCTGGA	0.507													29	55					0	0	0.054565	0	0
LRRC31	79782	broad.mit.edu	37	3	169572755	169572755	+	Silent	SNP	C	T	T			TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr3:169572755C>T	uc003fgc.1	-	6	914	c.837G>A	c.(835-837)AGG>AGA	p.R279R	LRRC31_uc010hwp.1_Silent_p.R223R	NM_024727	NP_079003	Q6UY01	LRC31_HUMAN	leucine rich repeat containing 31	279										ovary(2)|skin(1)	3	all_cancers(22;2.76e-22)|all_epithelial(15;4.73e-27)|all_lung(20;9.24e-17)|Lung NSC(18;3.85e-16)|Ovarian(172;0.000223)|Breast(254;0.197)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.00943)			CACCCAAATACCTAAAAGCAG	0.313													3	38					0	0	0.115264	0	0
MAP3K1	4214	broad.mit.edu	37	5	56181765	56181765	+	Missense_Mutation	SNP	C	T	T			TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr5:56181765C>T	uc003jqw.3	+	17	4490	c.3989C>T	c.(3988-3990)TCG>TTG	p.S1330L		NM_005921	NP_005912	Q13233	M3K1_HUMAN	mitogen-activated protein kinase kinase kinase	1330	Protein kinase.				cellular response to mechanical stimulus|innate immune response|MyD88-dependent toll-like receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	ATP binding|zinc ion binding			ovary(1)|skin(1)	2		Lung NSC(810;4.65e-05)|Prostate(74;0.0132)|Breast(144;0.0321)|Ovarian(174;0.223)		OV - Ovarian serous cystadenocarcinoma(10;6.08e-40)		ATAGGGGGATCGGTGGCTCAT	0.343													22	36					0	0	0.116897	0	0
KIF6	221458	broad.mit.edu	37	6	39353431	39353431	+	Missense_Mutation	SNP	T	C	C			TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr6:39353431T>C	uc003oot.2	-	16	1923	c.1828A>G	c.(1828-1830)ATC>GTC	p.I610V	KIF6_uc003oos.2_Missense_Mutation_p.I61V|KIF6_uc010jwz.1_5'UTR|KIF6_uc010jxa.1_Missense_Mutation_p.I401V|KIF6_uc011dua.1_Intron|KIF6_uc010jxb.1_Missense_Mutation_p.I554V	NM_145027	NP_659464	Q6ZMV9	KIF6_HUMAN	kinesin family member 6	610	Potential.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein binding			breast(2)|central_nervous_system(1)	3						CGCTGGGTGATTTCTTCCTTC	0.463													3	69					0	0	0.115264	0	0
ATG5	9474	broad.mit.edu	37	6	106727551	106727551	+	Missense_Mutation	SNP	T	C	C			TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr6:106727551T>C	uc003prf.2	-	5	816	c.463A>G	c.(463-465)ATG>GTG	p.M155V	ATG5_uc010kdb.2_Missense_Mutation_p.M155V|ATG5_uc003prg.2_Missense_Mutation_p.M77V|ATG5_uc010kdc.2_Intron	NM_004849	NP_004840	Q9H1Y0	ATG5_HUMAN	APG5 autophagy 5-like	155					apoptosis|autophagic vacuole assembly|negative regulation of type I interferon production|post-translational protein modification	autophagic vacuole|pre-autophagosomal structure membrane	protein binding			large_intestine(1)	1	Breast(9;0.0296)	all_cancers(87;0.000301)|Acute lymphoblastic leukemia(125;2.15e-07)|all_hematologic(75;5.28e-06)|all_epithelial(87;0.0612)|Lung NSC(302;0.216)	BRCA - Breast invasive adenocarcinoma(8;0.00802)	OV - Ovarian serous cystadenocarcinoma(136;0.128)|Epithelial(106;0.159)|all cancers(137;0.18)		TGCAATCCCATCCAGAGTTGC	0.303													19	24					0	0	0.069288	0	0
RAPGEF1	2889	broad.mit.edu	37	9	134501730	134501730	+	Silent	SNP	G	A	A			TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr9:134501730G>A	uc004cbc.2	-	10	1360	c.1230C>T	c.(1228-1230)AAC>AAT	p.N410N	RAPGEF1_uc004cbb.2_Silent_p.N428N|RAPGEF1_uc010mzm.2_RNA|RAPGEF1_uc010mzn.2_Silent_p.N415N|RAPGEF1_uc004cbd.2_Silent_p.N415N	NM_005312	NP_005303	Q13905	RPGF1_HUMAN	guanine nucleotide-releasing factor 2 isoform a	410					activation of MAPKK activity|nerve growth factor receptor signaling pathway|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|endosome	guanyl-nucleotide exchange factor activity|SH3 domain binding			lung(3)|ovary(2)|breast(1)|skin(1)	7		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;2.19e-05)|Epithelial(140;0.000364)		ACGGGCTAAGGTTCCAGGCCG	0.567													6	69					0	0	0.038147	0	0
RAPGEF1	2889	broad.mit.edu	37	9	134501807	134501807	+	Missense_Mutation	SNP	G	A	A			TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr9:134501807G>A	uc004cbc.2	-	10	1283	c.1153C>T	c.(1153-1155)CAC>TAC	p.H385Y	RAPGEF1_uc004cbb.2_Missense_Mutation_p.H403Y|RAPGEF1_uc010mzm.2_RNA|RAPGEF1_uc010mzn.2_Missense_Mutation_p.H390Y|RAPGEF1_uc004cbd.2_Missense_Mutation_p.H390Y	NM_005312	NP_005303	Q13905	RPGF1_HUMAN	guanine nucleotide-releasing factor 2 isoform a	385					activation of MAPKK activity|nerve growth factor receptor signaling pathway|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|endosome	guanyl-nucleotide exchange factor activity|SH3 domain binding			lung(3)|ovary(2)|breast(1)|skin(1)	7		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;2.19e-05)|Epithelial(140;0.000364)		GGATCATAGTGGTCTGCAGTT	0.592													6	104					0	0	0.058154	0	0
MECP2	4204	broad.mit.edu	37	X	153297774	153297774	+	Silent	SNP	G	A	A			TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chrX:153297774G>A	uc004fjv.2	-	3	487	c.261C>T	c.(259-261)ATC>ATT	p.I87I	MECP2_uc004fjw.2_Silent_p.I99I	NM_004992	NP_004983	P51608	MECP2_HUMAN	methyl CpG binding protein 2 isoform 1	87					negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	heterochromatin|nucleus	double-stranded methylated DNA binding|protein domain specific binding|protein N-terminus binding|transcription corepressor activity				0	all_cancers(53;3.7e-16)|all_epithelial(53;3.44e-10)|all_lung(58;2.06e-07)|Lung NSC(58;2.72e-07)|all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GGTCACGGATGATGGAGCGCC	0.617													45	12					0	0	0.139131	0	0
PCSK9	255738	broad.mit.edu	37	1	55525160	55525160	+	Frame_Shift_Del	DEL	C	-	-			TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr1:55525160delC	uc001cyf.1	+	10	1796	c.1505delC	c.(1504-1506)GCCfs	p.A502fs	PCSK9_uc010oom.1_RNA	NM_174936	NP_777596	Q8NBP7	PCSK9_HUMAN	proprotein convertase subtilisin/kexin type 9	502					cellular response to insulin stimulus|cellular response to starvation|cholesterol homeostasis|cholesterol metabolic process|kidney development|liver development|low-density lipoprotein particle receptor catabolic process|lysosomal transport|negative regulation of catalytic activity|negative regulation of low-density lipoprotein particle clearance|negative regulation of receptor recycling|neuron differentiation|positive regulation of neuron apoptosis|positive regulation of receptor internalization|protein autoprocessing|regulation of receptor activity	extracellular space|late endosome|lysosome|perinuclear region of cytoplasm	apolipoprotein receptor binding|identical protein binding|low-density lipoprotein particle receptor binding|serine-type endopeptidase activity|very-low-density lipoprotein particle receptor binding			ovary(2)|central_nervous_system(1)|skin(1)	4						GACTCTAAGGCCCAAGGGGGC	0.517													2	4	---	---	---	---					
NR4A1	3164	broad.mit.edu	37	12	52451162	52451164	+	In_Frame_Del	DEL	TCT	-	-			TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr12:52451162_52451164delTCT	uc001rzs.2	+	7	1702_1704	c.1388_1390delTCT	c.(1387-1392)ATCTTC>ATC	p.F464del	NR4A1_uc010sno.1_In_Frame_Del_p.F477del|NR4A1_uc001rzt.2_In_Frame_Del_p.F464del|NR4A1_uc009zmc.2_In_Frame_Del_p.S78del	NM_002135	NP_002126	P22736	NR4A1_HUMAN	nuclear receptor subfamily 4, group A, member 1	464					nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor		steroid hormone receptor activity|zinc ion binding				0				BRCA - Breast invasive adenocarcinoma(357;0.0967)		GGCAAGCTCATCTTCTGCTCAGG	0.611													38	77	---	---	---	---					
MESP2	145873	broad.mit.edu	37	15	90320121	90320144	+	In_Frame_Del	DEL	AGGGGCAGGGGCAAGGGCAGGGGC	-	-	rs66601910		TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr15:90320121_90320144delAGGGGCAGGGGCAAGGGCAGGGGC	uc002bon.2	+	1	533_556	c.533_556delAGGGGCAGGGGCAAGGGCAGGGGC	c.(532-558)GAGGGGCAGGGGCAAGGGCAGGGGCAG>GAG	p.GQGQGQGQ195del	MESP2_uc010uqa.1_Intron	NM_001039958	NP_001035047	Q0VG99	MESP2_HUMAN	mesoderm posterior 2 homolog	195_202	13 X 2 AA tandem repeats of G-Q.|12.			Missing (in Ref. 2; AAI11414).	Notch signaling pathway	nucleus	DNA binding				0	Lung NSC(78;0.0221)|all_lung(78;0.0448)		BRCA - Breast invasive adenocarcinoma(143;0.0146)|KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)			ACGCaggcggaggggcaggggcaagggcaggggcaggggcaggg	0.473													3	5	---	---	---	---					
TP53	7157	broad.mit.edu	37	17	7579311	7579311	+	Splice_Site	DEL	C	-	-			TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr17:7579311delC	uc002gim.2	-	4	569	c.375_splice	c.e4+1	p.T125_splice	TP53_uc002gig.1_Splice_Site_p.T125_splice|TP53_uc002gih.2_Splice_Site_p.T125_splice|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_5'Flank|TP53_uc010cng.1_5'Flank|TP53_uc002gii.1_5'Flank|TP53_uc010cnh.1_Splice_Site_p.T125_splice|TP53_uc010cni.1_Splice_Site_p.T125_splice|TP53_uc002gij.2_Splice_Site_p.T125_splice|TP53_uc010cnj.1_5'Flank|TP53_uc002gin.2_Intron|TP53_uc002gio.2_Intron|TP53_uc010vug.1_Splice_Site_p.T86_splice	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a						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.?(11)|p.0?(7)|p.V73fs*9(1)|p.Y126fs*11(1)|p.P13fs*18(1)|p.T125_Y126insX(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)		GGGCAACTGACCGTGCAAGTC	0.532		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)			47	60	---	---	---	---					
MARCKS	4082	broad.mit.edu	37	6	114181209	114181210	+	Frame_Shift_Ins	INS	-	A	A			TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chr6:114181209_114181210insA	uc003pvy.3	+	2	848_849	c.453_454insA	c.(451-456)CCGAAAfs	p.P151fs		NM_002356	NP_002347	P29966	MARCS_HUMAN	myristoylated alanine-rich protein kinase C	151_152	Calmodulin-binding (PSD).				energy reserve metabolic process|regulation of insulin secretion	actin cytoskeleton|plasma membrane	actin filament binding|calmodulin binding				0		all_cancers(87;7.65e-05)|all_epithelial(87;0.000296)|all_hematologic(75;0.0172)|Colorectal(196;0.0317)|all_lung(197;0.198)		Epithelial(106;1.59e-07)|all cancers(137;9.85e-07)|OV - Ovarian serous cystadenocarcinoma(136;0.000322)		ACGAGACCCCGAAAAAAAAAAA	0.614													3	6	---	---	---	---					
ATRX	546	broad.mit.edu	37	X	76889091	76889091	+	Frame_Shift_Del	DEL	T	-	-			TCGA-DU-7304-01A-12D-2086-08	TCGA-DU-7304-10A-01D-2086-08									Somatic	Phase_I	Capture				Illumina GAIIx	14f6d3a9-9f7d-4ac3-bef2-23a6ca0413fc	b95bb15a-325a-459a-aadc-d4f68cee6a65	g.chrX:76889091delT	uc004ecp.3	-	18	5151	c.4919delA	c.(4918-4920)AAGfs	p.K1640fs	ATRX_uc004ecq.3_Frame_Shift_Del_p.K1602fs|ATRX_uc004eco.3_Frame_Shift_Del_p.K1425fs	NM_000489	NP_000480	P46100	ATRX_HUMAN	transcriptional regulator ATRX isoform 1	1640	Helicase ATP-binding.				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)	CTCTTGCCACTTCTCAAATTC	0.318			Mis|F|N		Pancreatic neuroendocrine tumors		ATR-X (alpha thalassemia/mental retardation) syndrome						46	14	---	---	---	---					
