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
CLCA1	1179	broad.mit.edu	37	1	86954794	86954794	+	Missense_Mutation	SNP	A	A	G			TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr1:86954794A>G	uc001dlt.3	+	7	1558	c.1298A>G	c.(1297-1299)cAc>cGc	p.H433R	CLCA1_uc001dls.1_Missense_Mutation_p.H372R	NM_001285	NP_001276	A8K7I4	CLCA1_HUMAN	Homo sapiens chloride channel accessory 1 (CLCA1), mRNA.	433	VWFA.				calcium ion transport	extracellular space|integral to plasma membrane	chloride channel activity	p.I432I(1)		NS(1)|breast(3)|endometrium(1)|kidney(3)|large_intestine(9)|lung(14)|ovary(2)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	38		Lung NSC(277;0.239)		all cancers(265;0.0249)|Epithelial(280;0.0476)		GCCATCATCCACACAGTCGCT	0.498												
DCLRE1B	64858	broad.mit.edu	37	1	114454356	114454356	+	Nonsense_Mutation	SNP	G	G	A			TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr1:114454356G>A	uc001eeg.3	+	3	1436	c.1142G>A	c.(1141-1143)tGg>tAg	p.W381*	DCLRE1B_uc001eeh.3_Nonsense_Mutation_p.W255*|DCLRE1B_uc001eei.3_Nonsense_Mutation_p.W255*	NM_022836	NP_073747	Q9H816	DCR1B_HUMAN	Homo sapiens DNA cross-link repair 1B (DCLRE1B), mRNA.	381					cell cycle checkpoint|DNA repair|protection from non-homologous end joining at telomere|telomeric 3' overhang formation|telomeric loop formation	centrosome|chromosome, telomeric region|nucleus	5'-3' exonuclease activity|protein binding			breast(1)|endometrium(4)|kidney(2)|large_intestine(2)|liver(2)|lung(6)|stomach(1)	18	Lung SC(450;0.184)	all_cancers(81;1.46e-05)|all_epithelial(167;2.42e-05)|all_lung(203;0.000353)|Lung NSC(69;0.000518)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		CTTTCTCCCTGGCCTGCGGAC	0.483								Other identified genes with known or suspected DNA repair function				
HMCN1	83872	broad.mit.edu	37	1	186120829	186120829	+	Silent	SNP	C	C	A			TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr1:186120829C>A	uc001grq.1	+	94	15079	c.14850C>A	c.(14848-14850)ctC>ctA	p.L4950L	MIR548F1_uc021pgf.1_Intron|HMCN1_uc001grs.1_Silent_p.L519L	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	Homo sapiens hemicentin 1 (HMCN1), mRNA.	4950	Nidogen G2 beta-barrel.				response to stimulus|visual perception	basement membrane	calcium ion binding			NS(2)|autonomic_ganglia(1)|breast(10)|central_nervous_system(2)|cervix(1)|endometrium(28)|haematopoietic_and_lymphoid_tissue(4)|kidney(13)|large_intestine(58)|liver(3)|lung(101)|ovary(23)|pancreas(4)|prostate(20)|skin(8)|stomach(1)|upper_aerodigestive_tract(11)|urinary_tract(18)	308						GCTTTACCCTCACCAATGCAG	0.348												
PLA2G4A	5321	broad.mit.edu	37	1	186948519	186948519	+	Missense_Mutation	SNP	T	T	G			TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr1:186948519T>G	uc001gsc.3	+	16	2238	c.2033T>G	c.(2032-2034)tTt>tGt	p.F678C	PLA2G4A_uc010pos.2_Missense_Mutation_p.F618C	NM_024420	NP_077734	P47712	PA24A_HUMAN	Homo sapiens phospholipase A2, group IVA (cytosolic, calcium-dependent) (PLA2G4A), mRNA.	678	PLA2c.				phospholipid catabolic process|platelet activating factor biosynthetic process|platelet activation	cytosol|endoplasmic reticulum membrane	calcium ion binding|calcium-dependent phospholipid binding|lysophospholipase activity			breast(3)|central_nervous_system(1)|cervix(1)|endometrium(5)|kidney(3)|large_intestine(9)|lung(22)|ovary(1)|prostate(3)|skin(4)|stomach(1)	53					Flunisolide(DB00180)|Fluocinolone Acetonide(DB00591)|Fluocinonide(DB01047)|Fluorometholone(DB00324)|Flurandrenolide(DB00846)|Fluticasone Propionate(DB00588)|Medrysone(DB00253)|Quinacrine(DB01103)	GAATCACCATTTTCAACCTTC	0.358												
ALX4	60529	broad.mit.edu	37	11	44297101	44297101	+	Frame_Shift_Del	DEL	C	C	-			TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr11:44297101delC	uc001myb.3	-	1	678	c.574delG	c.(574-576)gacfs	p.D192fs		NM_021926	NP_068745	Q9H161	ALX4_HUMAN	Homo sapiens ALX homeobox 4 (ALX4), mRNA.	192					hair follicle development					central_nervous_system(1)|endometrium(2)|large_intestine(1)|lung(10)|prostate(1)|upper_aerodigestive_tract(1)	16						CTGGCCCGGTCCTGGGGCCCC	0.632												
LOC440040	440040	broad.mit.edu	37	11	49598156	49598156	+	Missense_Mutation	SNP	C	C	T			TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr11:49598156C>T	uc010rhy.2	+	1	747	c.269C>T	c.(268-270)tCg>tTg	p.S90L	LOC440040_uc009ymb.3_Missense_Mutation_p.S90L					Homo sapiens glutamate receptor, metabotropic 5 pseudogene (LOC440040), non-coding RNA.																		CTCATTTCTTCGGAAGAGGAA	0.532												
NCAM1	4684	broad.mit.edu	37	11	113076266	113076266	+	Missense_Mutation	SNP	C	C	T			TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr11:113076266C>T	uc021qqp.1	+	3	734	c.362C>T	c.(361-363)gCg>gTg	p.A121V	NCAM1_uc001pno.3_Missense_Mutation_p.A5V|NCAM1_uc001pnp.3_Missense_Mutation_p.A121V|NCAM1_uc021qqo.1_Missense_Mutation_p.A121V|NCAM1_uc001pnq.3_Missense_Mutation_p.A121V|NCAM1_uc001pnr.3_Missense_Mutation_p.A121V	NM_001242607	NP_001229536	P13591	NCAM1_HUMAN	Homo sapiens neural cell adhesion molecule 1 (NCAM1), transcript variant 5, mRNA.	123	Ig-like C2-type 2.				axon guidance|interferon-gamma-mediated signaling pathway	anchored to membrane|extracellular region|Golgi membrane|integral to membrane				breast(1)|endometrium(3)|kidney(1)|large_intestine(11)|lung(27)|ovary(3)|prostate(2)|upper_aerodigestive_tract(1)	49		all_cancers(61;5.82e-19)|all_epithelial(67;6.87e-12)|Melanoma(852;1.99e-05)|all_hematologic(158;3.66e-05)|Acute lymphoblastic leukemia(157;0.00119)|Breast(348;0.0109)|all_neural(223;0.0299)|Medulloblastoma(222;0.0458)|Renal(330;0.198)|Prostate(24;0.207)		BRCA - Breast invasive adenocarcinoma(274;1.78e-05)|Epithelial(105;0.000114)|all cancers(92;0.000467)|OV - Ovarian serous cystadenocarcinoma(223;0.212)		TTCAAGAATGCGCCAACCCCA	0.522												
FAM55A	120400	broad.mit.edu	37	11	114400948	114400948	+	Missense_Mutation	SNP	C	C	T	rs150857743	byFrequency	TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr11:114400948C>T	uc001ppa.3	-	2	773	c.356G>A	c.(355-357)cGg>cAg	p.R119Q	FAM55A_uc010rxd.2_5'UTR|FAM55A_uc001ppb.1_Missense_Mutation_p.R261Q	NM_152315	NP_689528	Q8N323	FA55A_HUMAN	Homo sapiens family with sequence similarity 55, member A (FAM55A), mRNA.	261						extracellular region				breast(1)|endometrium(1)|large_intestine(2)|lung(10)|stomach(1)|upper_aerodigestive_tract(2)	17		all_cancers(61;8.53e-16)|all_epithelial(67;1.71e-08)|all_hematologic(158;3.05e-05)|Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0194)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.0906)		BRCA - Breast invasive adenocarcinoma(274;3.02e-06)|Epithelial(105;0.000144)|all cancers(92;0.00106)		CTCTCTATTCCGGGTGGTCAT	0.458												
CD163L1	283316	broad.mit.edu	37	12	7531814	7531814	+	Missense_Mutation	SNP	C	C	T			TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr12:7531814C>T	uc010sge.2	-	8	2187	c.2161G>A	c.(2161-2163)Gtg>Atg	p.V721M	CD163L1_uc001qsy.3_Missense_Mutation_p.V711M	NM_174941	NP_777601	Q9NR16	C163B_HUMAN	Homo sapiens CD163 molecule-like 1 (CD163L1), mRNA.	711	SRCR 7.					extracellular region|integral to membrane|plasma membrane	scavenger receptor activity			breast(5)|central_nervous_system(3)|endometrium(8)|kidney(3)|large_intestine(18)|lung(37)|ovary(8)|prostate(3)|skin(6)|stomach(1)|urinary_tract(4)	96						AGAATTCCCACGGCACCCTGG	0.502												
PPM1H	57460	broad.mit.edu	37	12	63195712	63195712	+	Missense_Mutation	SNP	C	C	T			TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr12:63195712C>T	uc001srk.3	-	2	789	c.640G>A	c.(640-642)Gga>Aga	p.G214R		NM_020700	NP_065751	Q9ULR3	PPM1H_HUMAN	Homo sapiens protein phosphatase, Mg2+/Mn2+ dependent, 1H (PPM1H), mRNA.	214	PP2C-like.						phosphoprotein phosphatase activity			breast(1)|endometrium(2)|kidney(1)|large_intestine(4)|lung(9)|ovary(1)	18			GBM - Glioblastoma multiforme(1;0.000443)|BRCA - Breast invasive adenocarcinoma(9;0.209)	GBM - Glioblastoma multiforme(28;0.0126)		CCCACCCCTCCGCGCAGGGAG	0.682												
ATP11A	23250	broad.mit.edu	37	13	113527920	113527920	+	Missense_Mutation	SNP	A	A	T			TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr13:113527920A>T	uc001vsj.4	+	26	3179	c.3091A>T	c.(3091-3093)Aac>Tac	p.N1031Y	ATP11A_uc001vsi.4_Missense_Mutation_p.N1031Y|ATP11A_uc010ago.3_Non-coding_Transcript	NM_032189	NP_115565	P98196	AT11A_HUMAN	Homo sapiens ATPase, class VI, type 11A (ATP11A), transcript variant 2, mRNA.	1031					ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			NS(1)|central_nervous_system(3)|cervix(1)|endometrium(6)|kidney(4)|large_intestine(12)|lung(17)|ovary(4)|skin(1)|stomach(1)|urinary_tract(1)	51	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_lung(25;0.134)|all_epithelial(44;0.141)				GACTTGGATCAACCATTTTGT	0.448											OREG0003854	type=REGULATORY REGION|Gene=ATP11A|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay
TRAV13-1	28671	broad.mit.edu	37	14	22337438	22337438	+	Frame_Shift_Del	DEL	A	A	-			TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr14:22337438delA	uc021rpg.1	+	1	292	c.229delA	c.(229-231)aaafs	p.K77fs	TRA_uc021rpa.1_Intron|TCRA_uc001wbw.2_Intron|TCRA_uc021rpe.1_Intron					Homo sapiens mRNA for T cell receptor alpha variable 13, partial cds, clone: SEB 85.																		GGGCGAAAAGAAAGACCAACG	0.433												
AK7	122481	broad.mit.edu	37	14	96953242	96953242	+	Missense_Mutation	SNP	G	G	A			TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr14:96953242G>A	uc001yfn.2	+	16	2026	c.1982G>A	c.(1981-1983)cGa>cAa	p.R661Q		NM_152327	NP_689540	Q96M32	KAD7_HUMAN	Homo sapiens adenylate kinase 7 (AK7), mRNA.	661	Glu-rich.				cell projection organization	cytosol	adenylate kinase activity|ATP binding|cytidylate kinase activity			breast(2)|cervix(2)|endometrium(3)|large_intestine(8)|lung(11)|ovary(1)|prostate(2)|skin(1)|urinary_tract(1)	31		all_cancers(154;0.0482)|all_epithelial(191;0.128)|Melanoma(154;0.155)		Epithelial(152;0.134)|COAD - Colon adenocarcinoma(157;0.228)		TAGAATAAACGACTGGAGGAA	0.393												
RYR3	6263	broad.mit.edu	37	15	33944995	33944995	+	Missense_Mutation	SNP	G	G	A			TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr15:33944995G>A	uc001zhi.3	+	31	4289	c.4219G>A	c.(4219-4221)Gtg>Atg	p.V1407M	RYR3_uc010bar.3_Missense_Mutation_p.V1407M	NM_001036	NP_001027	Q15413	RYR3_HUMAN	Homo sapiens ryanodine receptor 3 (RYR3), transcript variant 1, mRNA.	1407	4 X approximate repeats.|B30.2/SPRY 3.				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			NS(3)|breast(9)|central_nervous_system(8)|cervix(2)|endometrium(29)|haematopoietic_and_lymphoid_tissue(2)|kidney(18)|large_intestine(55)|lung(148)|ovary(7)|pancreas(1)|prostate(13)|skin(4)|stomach(1)|upper_aerodigestive_tract(8)|urinary_tract(3)	311		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		TCGGAGCAACGTGGACCTGGA	0.557												
ZSCAN29	146050	broad.mit.edu	37	15	43658464	43658464	+	Missense_Mutation	SNP	C	C	T			TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr15:43658464C>T	uc001zrk.1	-	2	1213	c.1066G>A	c.(1066-1068)Gat>Aat	p.D356N	ZSCAN29_uc001zrj.1_Missense_Mutation_p.D236N|ZSCAN29_uc010bdg.1_Intron|ZSCAN29_uc010bdf.1_Missense_Mutation_p.D355N|ZSCAN29_uc001zrl.1_Non-coding_Transcript|ZSCAN29_uc001zrm.3_Missense_Mutation_p.D355N	NM_152455	NP_689668	Q8IWY8	ZSC29_HUMAN	Homo sapiens zinc finger and SCAN domain containing 29 (ZSCAN29), mRNA.	356					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			cervix(1)|endometrium(2)|kidney(3)|large_intestine(9)|lung(7)|skin(2)	24		all_cancers(109;2.12e-14)|all_epithelial(112;1.99e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;8.97e-07)		GTCTCAGCATCGCTGCCTACC	0.572												
SLC28A2	9153	broad.mit.edu	37	15	45555359	45555359	+	Silent	SNP	G	G	A			TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr15:45555359G>A	uc001zva.2	+	4	428	c.363G>A	c.(361-363)tcG>tcA	p.S121S		NM_004212	NP_004203	O43868	S28A2_HUMAN	Homo sapiens solute carrier family 28 (sodium-coupled nucleoside transporter), member 2 (SLC28A2), mRNA.	121					nucleobase, nucleoside and nucleotide metabolic process	integral to plasma membrane|membrane fraction	nucleoside binding|nucleoside:sodium symporter activity|purine nucleoside transmembrane transporter activity			NS(1)|endometrium(3)|kidney(2)|large_intestine(3)|lung(12)|ovary(4)|skin(1)	26		all_cancers(109;8.53e-07)|all_epithelial(112;1.39e-05)|Lung NSC(122;8.3e-05)|all_lung(180;0.000547)|Melanoma(134;0.0417)		all cancers(107;3.77e-16)|GBM - Glioblastoma multiforme(94;2.71e-06)		TGGTTCACTCGTTTTTGAAAA	0.458												
WASH3P	374666	broad.mit.edu	37	15	102515299	102515299	+	Missense_Mutation	SNP	G	G	A			TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr15:102515299G>A	uc002cdi.3	+	8	1943	c.523G>A	c.(523-525)Ggc>Agc	p.G175S	WASH3P_uc010bpo.3_Non-coding_Transcript|WASH3P_uc002cdq.3_Non-coding_Transcript|WASH3P_uc002cdr.3_Non-coding_Transcript					Homo sapiens WAS protein family homolog 3 pseudogene (WASH3P), non-coding RNA.									p.G374S(10)		central_nervous_system(1)|endometrium(6)|kidney(11)|prostate(5)|stomach(1)|urinary_tract(1)	25						TGGGGGCATCGGCAAGGCCAA	0.652												
GRIN2A	2903	broad.mit.edu	37	16	10273879	10273879	+	Silent	SNP	G	G	A			TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr16:10273879G>A	uc010uym.2	-	2	700	c.390C>T	c.(388-390)ggC>ggT	p.G130G	GRIN2A_uc002czo.4_Silent_p.G130G|GRIN2A_uc002czr.4_Silent_p.G130G|GRIN2A_uc010buk.3_Silent_p.G130G	NM_000833	NP_001127879	Q12879	NMDE1_HUMAN	Homo sapiens glutamate receptor, ionotropic, N-methyl D-aspartate 2A (GRIN2A), transcript variant 2, mRNA.	130					response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding	p.G130C(1)		NS(7)|breast(5)|cervix(1)|endometrium(11)|kidney(6)|large_intestine(36)|lung(71)|ovary(4)|prostate(9)|skin(45)|upper_aerodigestive_tract(2)|urinary_tract(1)	198					Felbamate(DB00949)|Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	TCATAGATGCGCCCCCATGAA	0.597												
HS3ST3A1	9955	broad.mit.edu	37	17	13400088	13400088	+	Missense_Mutation	SNP	G	G	A			TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr17:13400088G>A	uc002gob.1	-	1	1445	c.647C>T	c.(646-648)aCg>aTg	p.T216M		NM_006042	NP_006033	Q9Y663	HS3SA_HUMAN	Homo sapiens heparan sulfate (glucosamine) 3-O-sulfotransferase 3A1 (HS3ST3A1), mRNA.	216	Substrate binding.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine 3-sulfotransferase 3 activity	p.T216T(1)		central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(3)|lung(5)|ovary(1)|pancreas(1)|prostate(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	16		all_lung(20;0.114)		UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		GTAACTGGGCGTCTTCTCCAT	0.622												
HEXIM1	10614	broad.mit.edu	37	17	43226653	43226653	+	Frame_Shift_Del	DEL	C	C	-			TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr17:43226653delC	uc002iig.3	+	0	1970	c.96delC	c.(94-96)cgcfs	p.R32fs		NM_006460	NP_006451	O94992	HEXI1_HUMAN	Homo sapiens hexamethylene bis-acetamide inducible 1 (HEXIM1), mRNA.	32					negative regulation of cyclin-dependent protein kinase activity|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|nucleus	cyclin-dependent protein kinase inhibitor activity|protein binding|snRNA binding			breast(1)|kidney(2)|lung(3)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	11						ACCCTGAGCGCCCCCCAGGCG	0.632											OREG0024474	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)
ABCA9	10350	broad.mit.edu	37	17	67016638	67016638	+	Missense_Mutation	SNP	C	C	T			TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr17:67016638C>T	uc002jhu.3	-	18	2634	c.2491G>A	c.(2491-2493)Gaa>Aaa	p.E831K	ABCA9_uc010dez.3_Missense_Mutation_p.E831K	NM_080283	NP_525022	Q8IUA7	ABCA9_HUMAN	Homo sapiens ATP-binding cassette, sub-family A (ABC1), member 9 (ABCA9), mRNA.	831					transport	integral to membrane	ATP binding|ATPase activity			NS(2)|breast(4)|central_nervous_system(3)|endometrium(8)|kidney(3)|large_intestine(21)|lung(35)|ovary(4)|prostate(5)|skin(1)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	91	Breast(10;1.47e-12)					TTCCTTGTTTCGTGGAAGGAA	0.413												
LIPG	9388	broad.mit.edu	37	18	47101837	47101837	+	Missense_Mutation	SNP	C	C	T			TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr18:47101837C>T	uc002ldv.3	+	4	922	c.670C>T	c.(670-672)Cgt>Tgt	p.R224C	LIPG_uc002ldu.1_Missense_Mutation_p.R224C|LIPG_uc010xdh.2_Intron	NM_006033	NP_006024	Q9Y5X9	LIPE_HUMAN	Homo sapiens lipase, endothelial (LIPG), mRNA.	224					cholesterol homeostasis|high-density lipoprotein particle remodeling|phospholipid catabolic process|phospholipid homeostasis|positive regulation of cholesterol transport|positive regulation of high-density lipoprotein particle clearance|reverse cholesterol transport	extracellular space	heparin binding|lipoprotein lipase activity|phospholipase A1 activity|protein binding|triglyceride lipase activity			autonomic_ganglia(1)|breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|lung(6)|ovary(1)|prostate(2)|skin(2)	18						CACCTACACGCGTTCCTTCGG	0.557												
TUBB4A	10382	broad.mit.edu	37	19	6495585	6495585	+	Missense_Mutation	SNP	G	G	A			TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr19:6495585G>A	uc002mfg.1	-	3	1032	c.925C>T	c.(925-927)Cgc>Tgc	p.R309C	TUBB4A_uc002mff.1_Missense_Mutation_p.R237C|JA429441_uc021unq.1_5'Flank	NM_006087	NP_006078	P04350	TBB4_HUMAN	Homo sapiens tubulin, beta 4A class IVa (TUBB4A), mRNA.	309					'de novo' posttranslational protein folding|G2/M transition of mitotic cell cycle|microtubule-based movement|protein polymerization	cytosol|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity	p.R309C(1)									GTCAGGTAGCGGCCGTGGCGC	0.662												
MUC16	94025	broad.mit.edu	37	19	9073488	9073488	+	Missense_Mutation	SNP	G	G	T			TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr19:9073488G>T	uc002mkp.3	-	2	14162	c.13958C>A	c.(13957-13959)aCa>aAa	p.T4653K		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	Homo sapiens mucin 16, cell surface associated (MUC16), mRNA.	4655	Thr-rich.				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			NS(9)|autonomic_ganglia(1)|breast(26)|central_nervous_system(11)|cervix(1)|endometrium(46)|haematopoietic_and_lymphoid_tissue(5)|kidney(35)|large_intestine(91)|liver(1)|lung(278)|ovary(17)|pancreas(2)|prostate(17)|skin(18)|soft_tissue(1)|stomach(8)|upper_aerodigestive_tract(16)|urinary_tract(7)	590						TGGGAACTTTGTTGACTGAGC	0.458												
GRAMD1A	57655	broad.mit.edu	37	19	35500871	35500871	+	Missense_Mutation	SNP	T	T	C			TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr19:35500871T>C	uc010xsf.1	+	3	335	c.335T>C	c.(334-336)aTt>aCt	p.I112T	GRAMD1A_uc002nxi.1_Missense_Mutation_p.I194T|GRAMD1A_uc010xse.1_Missense_Mutation_p.I107T|GRAMD1A_uc002nxk.2_Missense_Mutation_p.I100T|GRAMD1A_uc002nxl.2_5'UTR	NM_020895	NP_065946	Q96CP6	GRM1A_HUMAN	Homo sapiens GRAM domain containing 1A (GRAMD1A), transcript variant 1, mRNA.	107	GRAM.					integral to membrane				NS(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(1)|lung(10)|prostate(1)|upper_aerodigestive_tract(1)	19	all_lung(56;2.66e-08)|Lung NSC(56;4.13e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0849)			GAACGCCTCATTGTGGGTGAG	0.607												
ZNF610	162963	broad.mit.edu	37	19	52868955	52868955	+	Silent	SNP	G	G	A			TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr19:52868955G>A	uc002pyx.4	+	5	730	c.324G>A	c.(322-324)agG>agA	p.R108R	ZNF610_uc002pyy.4_Silent_p.R108R|ZNF610_uc002pyz.4_Silent_p.R65R|ZNF610_uc002pza.3_Silent_p.R108R	NM_001161426	NP_775801	Q8N9Z0	ZN610_HUMAN	Homo sapiens zinc finger protein 610 (ZNF610), transcript variant 2, mRNA.	108					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			NS(1)|autonomic_ganglia(1)|breast(1)|endometrium(3)|kidney(3)|large_intestine(8)|liver(2)|lung(9)|ovary(2)|stomach(2)|upper_aerodigestive_tract(2)	34				OV - Ovarian serous cystadenocarcinoma(262;0.00396)|GBM - Glioblastoma multiforme(134;0.00434)		TTCTAGGGAGGAGCTGTGTAT	0.453												
PTPRH	5794	broad.mit.edu	37	19	55693262	55693262	+	Missense_Mutation	SNP	C	C	T	rs140496718		TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr19:55693262C>T	uc002qjq.3	-	19	3281	c.3208G>A	c.(3208-3210)Gta>Ata	p.V1070I	PTPRH_uc010esv.3_Missense_Mutation_p.V892I|SYT5_uc002qjm.1_5'Flank|SYT5_uc002qjp.2_5'Flank|SYT5_uc002qjn.1_5'Flank|SYT5_uc002qjo.1_5'Flank	NM_002842	NP_002833	Q9HD43	PTPRH_HUMAN	Homo sapiens protein tyrosine phosphatase, receptor type, H (PTPRH), transcript variant 1, mRNA.	1070	Tyrosine-protein phosphatase.				apoptosis	cytoplasm|integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			breast(2)|central_nervous_system(3)|endometrium(4)|kidney(3)|large_intestine(8)|lung(27)|ovary(2)|prostate(5)|skin(10)|upper_aerodigestive_tract(1)|urinary_tract(2)	67		Renal(1328;0.245)	BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0479)		TGCAGGAATACGTACTGAGCC	0.622												
NT5C1B-RDH14	93034	broad.mit.edu	37	2	18766137	18766137	+	Silent	SNP	C	C	T			TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr2:18766137C>T	uc010exr.3	-	3	484	c.372G>A	c.(370-372)tcG>tcA	p.S124S	NT5C1B-RDH14_uc002rcy.3_Silent_p.S182S|NT5C1B-RDH14_uc010yju.2_Silent_p.S122S|NT5C1B-RDH14_uc002rcz.3_Silent_p.S182S|NT5C1B-RDH14_uc010yjw.2_Silent_p.S165S|NT5C1B-RDH14_uc010yjv.2_Silent_p.S199S|NT5C1B-RDH14_uc010exs.3_Silent_p.S184S|NT5C1B-RDH14_uc002rda.3_Silent_p.S122S|U6_uc021vej.1_5'Flank|NT5C1B-RDH14_uc002rdb.1_5'UTR	NM_001199103	NP_001186032	Q96P26	5NT1B_HUMAN	Homo sapiens NT5C1B-RDH14 readthrough (NT5C1B-RDH14), transcript variant 1, mRNA.	182	Ser-rich.				purine base metabolic process|purine nucleotide catabolic process	cytosol	5'-nucleotidase activity|magnesium ion binding|nucleotide binding										GCAGCTGGGGCGACGCGGGTG	0.716												
IL18R1	8809	broad.mit.edu	37	2	102988458	102988459	+	Frame_Shift_Del	DEL	AC	AC	-			TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr2:102988458_102988459delAC	uc002tbw.4	+	3	498_499	c.348_349delAC	c.(346-351)aaacacfs	p.K116fs	IL18R1_uc010ywb.1_Frame_Shift_Del_p.K116fs|IL18R1_uc010ywd.2_5'UTR|IL18R1_uc010fiy.3_Frame_Shift_Del_p.K116fs|IL18R1_uc010ywc.2_Frame_Shift_Del_p.K116fs	NM_003855	NP_003846	Q13478	IL18R_HUMAN	Homo sapiens interleukin 18 receptor 1 (IL18R1), mRNA.	116	Ig-like C2-type 1.				innate immune response	integral to membrane|plasma membrane	interleukin-1 receptor activity			breast(1)|endometrium(3)|large_intestine(11)|lung(12)|ovary(2)|pancreas(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	34						GAAGAAATAAACACAGCTGTTT	0.277												
DDX11L2	84771	broad.mit.edu	37	2	114357557	114357557	+	Nonstop_Mutation	SNP	A	A	G	rs115341812	by1000genomes	TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr2:114357557A>G	uc010yxx.1	-	2	709	c.382T>C	c.(382-384)Tag>Cag	p.*128Q						Homo sapiens DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 11 like 2 (DDX11L2), transcript variant 2, non-coding RNA.																		GCCTACTTCTAGTGAAACTGG	0.567												
CALCRL	10203	broad.mit.edu	37	2	188223966	188223966	+	Missense_Mutation	SNP	A	A	T			TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr2:188223966A>T	uc010frt.3	-	9	1198	c.815T>A	c.(814-816)aTt>aAt	p.I272N	CALCRL_uc002upv.4_Missense_Mutation_p.I272N	NM_005795	NP_005786	Q16602	CALRL_HUMAN	Homo sapiens calcitonin receptor-like (CALCRL), mRNA.	272						integral to plasma membrane				endometrium(1)|large_intestine(7)|lung(21)|ovary(1)|prostate(1)|skin(1)	32			OV - Ovarian serous cystadenocarcinoma(117;0.0554)|Epithelial(96;0.227)			GCTTCTAGCAATGGCATGTAT	0.244												
BMPR2	659	broad.mit.edu	37	2	203397336	203397336	+	Missense_Mutation	SNP	A	A	G			TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr2:203397336A>G	uc002uzf.4	+	8	2305	c.1157A>G	c.(1156-1158)gAa>gGa	p.E386G	BMPR2_uc010ftr.3_Missense_Mutation_p.E386G	NM_001204	NP_001195	Q13873	BMPR2_HUMAN	Homo sapiens bone morphogenetic protein receptor, type II (serine/threonine kinase) (BMPR2), mRNA.	386	Protein kinase.				anterior/posterior pattern formation|BMP signaling pathway|cellular response to starvation|lung alveolus development|mesoderm formation|negative regulation of cell growth|negative regulation of systemic arterial blood pressure|negative regulation of vasoconstriction|positive regulation of BMP signaling pathway|positive regulation of bone mineralization|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of epithelial cell migration|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|regulation of lung blood pressure|transcription from RNA polymerase II promoter|vascular endothelial growth factor receptor signaling pathway	integral to plasma membrane	ATP binding|metal ion binding|transforming growth factor beta receptor activity			autonomic_ganglia(1)|breast(4)|central_nervous_system(1)|cervix(1)|endometrium(2)|kidney(6)|large_intestine(11)|lung(7)|ovary(4)|pancreas(1)|skin(1)|stomach(1)|urinary_tract(2)	42						ATGGCACCAGAAGTGCTAGAA	0.383												
SCG2	7857	broad.mit.edu	37	2	224463759	224463759	+	Missense_Mutation	SNP	T	T	C			TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr2:224463759T>C	uc021vxk.1	-	0	242	c.242A>G	c.(241-243)tAc>tGc	p.Y81C	SCG2_uc002vnm.3_Missense_Mutation_p.Y81C	NM_003469	NP_003460	P13521	SCG2_HUMAN	Homo sapiens secretogranin II (SCG2), mRNA.	81					angiogenesis|endothelial cell migration|eosinophil chemotaxis|induction of positive chemotaxis|inflammatory response|MAPKKK cascade|negative regulation of apoptosis|negative regulation of endothelial cell proliferation|positive regulation of endothelial cell proliferation|protein secretion	extracellular space|stored secretory granule	chemoattractant activity|cytokine activity			NS(1)|breast(1)|endometrium(1)|kidney(6)|large_intestine(10)|liver(1)|lung(16)|ovary(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(4)	44		Renal(207;0.0112)|Lung NSC(271;0.0185)|all_lung(227;0.0271)		Epithelial(121;8.16e-11)|all cancers(144;4.66e-08)|Lung(261;0.00714)|LUSC - Lung squamous cell carcinoma(224;0.008)		GACACCTTGGTAGGGATTATA	0.448												
ANGPT4	51378	broad.mit.edu	37	20	853677	853677	+	Missense_Mutation	SNP	G	G	A			TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr20:853677G>A	uc002wei.3	-	8	1541	c.1438C>T	c.(1438-1440)Cgc>Tgc	p.R480C	ANGPT4_uc010zpn.2_3'UTR	NM_015985	NP_057069	Q9Y264	ANGP4_HUMAN	Homo sapiens angiopoietin 4 (ANGPT4), mRNA.	480	Fibrinogen C-terminal.				anti-apoptosis|blood coagulation|cellular response to hypoxia|leukocyte migration|negative regulation of angiogenesis|negative regulation of blood vessel endothelial cell migration|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of peptidyl-tyrosine phosphorylation|signal transduction	extracellular space	receptor tyrosine kinase binding|transmembrane receptor protein tyrosine kinase activator activity			breast(1)|cervix(1)|endometrium(3)|kidney(2)|large_intestine(5)|lung(12)|ovary(2)|prostate(1)	27						TAGTGCCAGCGGATGCCGTCC	0.587												
MOCS3	27304	broad.mit.edu	37	20	49576424	49576424	+	Missense_Mutation	SNP	G	G	C			TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr20:49576424G>C	uc002xvy.1	+	0	1062	c.1045G>C	c.(1045-1047)Gca>Cca	p.A349P	DPM1_uc002xvw.1_5'Flank|DPM1_uc002xvx.1_5'Flank	NM_014484	NP_055299	O95396	MOCS3_HUMAN	Homo sapiens molybdenum cofactor synthesis 3 (MOCS3), mRNA.	349	Rhodanese.				enzyme active site formation via L-cysteine persulfide|Mo-molybdopterin cofactor biosynthetic process|tRNA thio-modification|tRNA wobble uridine modification|water-soluble vitamin metabolic process	cytosol	ATP binding|metal ion binding|nucleotidyltransferase activity|protein binding|thiosulfate sulfurtransferase activity|URM1 activating enzyme activity			NS(1)|endometrium(1)|kidney(1)|large_intestine(2)|liver(2)|lung(8)|ovary(2)|prostate(1)|skin(2)|upper_aerodigestive_tract(4)	24						GGATTCTGGGGCATTCCACCT	0.552												
SCAF4	57466	broad.mit.edu	37	21	33044257	33044259	+	In_Frame_Del	DEL	GCT	GCT	-			TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr21:33044257_33044259delGCT	uc002ypd.2	-	19	3323_3325	c.2897_2899delAGC	c.(2896-2901)cagcca>cca	p.Q966del	SCAF4_uc002ype.2_In_Frame_Del_p.Q944del|SCAF4_uc010glu.2_In_Frame_Del_p.Q951del	NM_020706	NP_065757	O95104	SFR15_HUMAN	Homo sapiens SR-related CTD-associated factor 4 (SCAF4), transcript variant 1, mRNA.	966	Poly-Gln.					nucleus	nucleotide binding|RNA binding			NS(1)|breast(2)|endometrium(9)|kidney(9)|large_intestine(11)|lung(15)|prostate(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	54						GATGGTGgtggctgctgctgctg	0.581												
TRPM2	7226	broad.mit.edu	37	21	45798938	45798938	+	Missense_Mutation	SNP	G	G	A			TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr21:45798938G>A	uc010gpt.1	+	7	1173	c.1073G>A	c.(1072-1074)cGc>cAc	p.R358H	TRPM2_uc002zet.1_Missense_Mutation_p.R358H|TRPM2_uc002zeu.1_Missense_Mutation_p.R358H|TRPM2_uc021wjr.1_Non-coding_Transcript|TRPM2_uc002zew.1_Missense_Mutation_p.R358H|TRPM2_uc002zex.1_Missense_Mutation_p.R144H	NM_003307	NP_003298	O94759	TRPM2_HUMAN	Homo sapiens transient receptor potential cation channel, subfamily M, member 2 (TRPM2), transcript variant 1, mRNA.	358						integral to plasma membrane	ADP-ribose diphosphatase activity|calcium channel activity|sodium channel activity			breast(3)|central_nervous_system(2)|endometrium(4)|kidney(3)|large_intestine(15)|lung(29)|ovary(3)|pancreas(1)|prostate(5)|skin(7)|upper_aerodigestive_tract(3)|urinary_tract(1)	76						GGCTCGGGCCGCGTGGCCGAC	0.622												
OR5K4	403278	broad.mit.edu	37	3	98072818	98072818	+	Missense_Mutation	SNP	G	G	A			TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr3:98072818G>A	uc011bgv.2	+	0	121	c.121G>A	c.(121-123)Ggg>Agg	p.G41R		NM_001005517	NP_001005517	A6NMS3	OR5K4_HUMAN	Homo sapiens olfactory receptor, family 5, subfamily K, member 4 (OR5K4), mRNA.	41					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity	p.G41W(2)|p.V40V(1)		breast(1)|central_nervous_system(1)|kidney(1)|large_intestine(4)|lung(13)|upper_aerodigestive_tract(1)	21						CACCATGGTGGGGAATCTTGG	0.458												
ADAM29	11086	broad.mit.edu	37	4	175897608	175897608	+	Missense_Mutation	SNP	G	G	A			TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr4:175897608G>A	uc003iuc.3	+	4	1602	c.932G>A	c.(931-933)cGt>cAt	p.R311H	ADAM29_uc003iud.3_Missense_Mutation_p.R311H|ADAM29_uc010irr.3_Missense_Mutation_p.R311H|ADAM29_uc011cki.2_Missense_Mutation_p.R311H|ADAM29_uc021xuo.1_Missense_Mutation_p.R311H	NM_014269	NP_055084	Q9UKF5	ADA29_HUMAN	Homo sapiens ADAM metallopeptidase domain 29 (ADAM29), transcript variant 1, mRNA.	311	Peptidase M12B.				proteolysis|spermatogenesis	integral to plasma membrane	metalloendopeptidase activity|zinc ion binding			NS(1)|breast(1)|central_nervous_system(3)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(16)|lung(25)|ovary(3)|pancreas(1)|prostate(7)|skin(24)|urinary_tract(2)	93		Breast(14;0.00908)|Melanoma(52;0.00951)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;3.08e-19)|Epithelial(43;6.24e-18)|OV - Ovarian serous cystadenocarcinoma(60;1.78e-09)|STAD - Stomach adenocarcinoma(60;0.00303)|GBM - Glioblastoma multiforme(59;0.0106)|LUSC - Lung squamous cell carcinoma(193;0.0286)		ACACCACACCGTAGTTGTGCA	0.428												
SLC6A3	6531	broad.mit.edu	37	5	1409844	1409844	+	Missense_Mutation	SNP	C	C	T	rs140401978		TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr5:1409844C>T	uc003jck.3	-	9	1516	c.1390G>A	c.(1390-1392)Gtc>Atc	p.V464I		NM_001044	NP_001035	Q01959	SC6A3_HUMAN	Homo sapiens solute carrier family 6 (neurotransmitter transporter, dopamine), member 3 (SLC6A3), mRNA.	464					cell death|neurotransmitter biosynthetic process	axon|cytoplasm|integral to plasma membrane|neuronal cell body				breast(2)|endometrium(4)|kidney(1)|large_intestine(3)|lung(19)|ovary(4)|pancreas(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	38			OV - Ovarian serous cystadenocarcinoma(19;0.00928)|all cancers(22;0.0262)		Amphetamine(DB00182)|Benztropine(DB00245)|Bupropion(DB01156)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dextroamphetamine(DB01576)|Diethylpropion(DB00937)|Duloxetine(DB00476)|Fencamfamine(DB01463)|Mazindol(DB00579)|Methylphenidate(DB00422)|Modafinil(DB00745)|Phenmetrazine(DB00830)|Phentermine(DB00191)|Procaine(DB00721)	ACGTTGGTGACGCAGAACAGG	0.612												
ZFYVE16	9765	broad.mit.edu	37	5	79768699	79768699	+	Missense_Mutation	SNP	G	G	A			TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr5:79768699G>A	uc003kgr.4	+	15	4446	c.4144G>A	c.(4144-4146)Gtg>Atg	p.V1382M	ZFYVE16_uc003kgq.4_Missense_Mutation_p.V1382M|ZFYVE16_uc003kgs.4_Missense_Mutation_p.V1382M|ZFYVE16_uc003kgt.4_Missense_Mutation_p.V470M|ZFYVE16_uc003kgu.4_Missense_Mutation_p.V134M	NM_001105251	NP_055548	Q7Z3T8	ZFY16_HUMAN	Homo sapiens zinc finger, FYVE domain containing 16 (ZFYVE16), transcript variant 2, mRNA.	1382					BMP signaling pathway|endosome transport|protein targeting to lysosome|regulation of endocytosis|vesicle organization	early endosome membrane	1-phosphatidylinositol binding|metal ion binding|phosphatidylinositol-3,4,5-trisphosphate binding|protein binding|protein transporter activity			breast(4)|cervix(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(4)|kidney(5)|large_intestine(14)|liver(1)|lung(6)|ovary(2)|prostate(2)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	51		Lung NSC(167;0.00428)|all_lung(232;0.00455)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;1.6e-46)|Epithelial(54;2.02e-41)|all cancers(79;5.05e-36)		GAGAGAATACGTGGATATCTG	0.368												
ACOT12	134526	broad.mit.edu	37	5	80643625	80643625	+	Silent	SNP	C	C	T	rs150238683	byFrequency	TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr5:80643625C>T	uc003khl.4	-	5	676	c.621G>A	c.(619-621)gcG>gcA	p.A207A	RNU5E-1_uc011cto.1_Intron	NM_130767	NP_570123	Q8WYK0	ACO12_HUMAN	Homo sapiens acyl-CoA thioesterase 12 (ACOT12), mRNA.	207	Acyl coenzyme A hydrolase 2.				acyl-CoA metabolic process|fatty acid metabolic process	cytosol	acetyl-CoA hydrolase activity|carboxylesterase activity			cervix(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(10)|lung(7)|ovary(2)	23		Lung NSC(167;0.0176)|all_lung(232;0.0205)|Ovarian(174;0.135)		OV - Ovarian serous cystadenocarcinoma(54;1.37e-45)|Epithelial(54;1.25e-39)|all cancers(79;5.01e-34)		TCTCCATCCACGCCATAATCT	0.502												
PCSK1	5122	broad.mit.edu	37	5	95735874	95735874	+	Nonsense_Mutation	SNP	G	G	A			TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr5:95735874G>A	uc003kls.2	-	9	1452	c.1213C>T	c.(1213-1215)Cga>Tga	p.R405*	PCSK1_uc010jbi.2_Nonsense_Mutation_p.R95*|PCSK1_uc021ybq.1_Nonsense_Mutation_p.R358*	NM_000439	NP_000430	P29120	NEC1_HUMAN	Homo sapiens proprotein convertase subtilisin/kexin type 1 (PCSK1), transcript variant 1, mRNA.	405	Catalytic.				cell-cell signaling|cellular nitrogen compound metabolic process|energy reserve metabolic process|hormone biosynthetic process|peptide biosynthetic process|peptide hormone processing|regulation of insulin secretion	extracellular space|stored secretory granule|transport vesicle	serine-type endopeptidase activity	p.R405Q(1)		NS(1)|endometrium(3)|kidney(3)|large_intestine(5)|lung(14)|ovary(2)|prostate(3)|skin(3)|urinary_tract(2)	36		all_cancers(142;2.67e-06)|all_epithelial(76;6.92e-09)|all_lung(232;0.00307)|Lung NSC(167;0.00452)|Ovarian(225;0.0112)|Colorectal(57;0.0341)|Breast(839;0.244)		all cancers(79;3.44e-16)	Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	TGCATATCTCGCCAGGTGAGA	0.478												
PCDHAC2	9752	broad.mit.edu	37	5	140230084	140230084	+	Silent	SNP	G	G	A			TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr5:140230084G>A	uc003lhu.2	+	0	2728	c.2004G>A	c.(2002-2004)tcG>tcA	p.S668S	PCDHAC2_uc003lha.2_Intron|PCDHAC2_uc003lhb.2_Intron|PCDHAC2_uc003lhd.2_Intron|PCDHAC2_uc003lhf.2_Intron|PCDHAC2_uc003lhh.1_Intron|PCDHAC2_uc003lhi.2_Intron|PCDHAC2_uc003lhl.2_Intron|PCDHAC2_uc003lhk.1_Intron|PCDHAC2_uc003lho.2_Intron|PCDHAC2_uc003lhn.2_Intron|PCDHAC2_uc003lhq.2_Intron|PCDHAC2_uc003lhs.2_Intron|PCDHAC2_uc003lht.1_Silent_p.S668S	NM_031857	NP_114063	Q9Y5I4	PCDC2_HUMAN	Homo sapiens protocadherin alpha 9 (PCDHA9), transcript variant 1, mRNA.	679	Cadherin 6.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			NS(1)|breast(1)|endometrium(4)|kidney(4)|large_intestine(10)|liver(2)|lung(9)|ovary(2)|prostate(1)|skin(7)|upper_aerodigestive_tract(3)|urinary_tract(1)	45			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGCTGGTGTCGCTGGTGGAGA	0.677												
PCDHGC5	26025	broad.mit.edu	37	5	140811313	140811313	+	Silent	SNP	G	G	A			TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr5:140811313G>A	uc003lkt.2	+	0	1156	c.987G>A	c.(985-987)gcG>gcA	p.A329A	PCDHGC5_uc003lji.2_Intron|PCDHGC5_uc003ljk.2_Intron|PCDHGC5_uc003ljm.2_Intron|PCDHGC5_uc003ljo.2_Intron|PCDHGC5_uc003ljq.2_Intron|PCDHGC5_uc003ljs.2_Intron|PCDHGC5_uc003lju.2_Intron|PCDHGC5_uc003ljw.2_Intron|PCDHGC5_uc003ljy.2_Intron|PCDHGC5_uc003lka.2_Intron|PCDHGC5_uc003lkc.2_Intron|PCDHGC5_uc003lkd.2_Intron|PCDHGC5_uc003lkf.2_Intron|PCDHGC5_uc003lkh.2_Intron|PCDHGC5_uc003lkj.2_Intron|PCDHGC5_uc003lkl.2_Intron|PCDHGC5_uc003lkn.2_Intron|PCDHGC5_uc003lkq.2_Intron|PCDHGC5_uc003lkp.2_Intron|PCDHGC5_uc011dba.2_Silent_p.A329A	NM_003735	NP_003726	Q9Y5F6	PCDGM_HUMAN	Homo sapiens protocadherin gamma subfamily A, 12 (PCDHGA12), transcript variant 1, mRNA.	332	Cadherin 3.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(2)|central_nervous_system(2)|endometrium(6)|kidney(4)|large_intestine(4)|lung(10)|ovary(4)|prostate(1)|urinary_tract(2)	35			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GATATTCTGCGCGAGCCAAAG	0.512												
FAM50B	26240	broad.mit.edu	37	6	3850733	3850733	+	Missense_Mutation	SNP	G	G	A			TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr6:3850733G>A	uc003mvu.3	+	1	800	c.688G>A	c.(688-690)Gcc>Acc	p.A230T	FAM50B_uc021ykt.1_Missense_Mutation_p.A230T	NM_012135	NP_036267	Q9Y247	FA50B_HUMAN	Homo sapiens family with sequence similarity 50, member B (FAM50B), mRNA.	230						nucleus		p.A230A(1)|p.S229F(1)		cervix(1)|endometrium(2)|kidney(1)|large_intestine(4)|lung(2)|pancreas(1)|prostate(3)|urinary_tract(3)	17	Ovarian(93;0.0925)	all_hematologic(90;0.108)				GCTGCGCTCCGCCGGCGTGGA	0.652												
GPX5	2880	broad.mit.edu	37	6	28497327	28497327	+	Missense_Mutation	SNP	C	C	T			TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr6:28497327C>T	uc003nll.2	+	1	189	c.187C>T	c.(187-189)Cac>Tac	p.H63Y	GPX5_uc003nlm.2_Missense_Mutation_p.H63Y|GPX5_uc003nln.2_Non-coding_Transcript	NM_001509	NP_001500	O75715	GPX5_HUMAN	Homo sapiens glutathione peroxidase 5 (epididymal androgen-related protein) (GPX5), transcript variant 1, mRNA.	63					lipid metabolic process|response to oxidative stress	extracellular region	glutathione peroxidase activity			endometrium(2)|large_intestine(4)|lung(7)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	16					Glutathione(DB00143)	TGTGGGCAAGCACATCCTCTT	0.443												
FAM83B	222584	broad.mit.edu	37	6	54805279	54805279	+	Missense_Mutation	SNP	C	C	T	rs115872183	byFrequency	TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr6:54805279C>T	uc003pck.3	+	4	1626	c.1510C>T	c.(1510-1512)Cat>Tat	p.H504Y		NM_001010872	NP_001010872	Q5T0W9	FA83B_HUMAN	Homo sapiens family with sequence similarity 83, member B (FAM83B), mRNA.	504										autonomic_ganglia(1)|breast(2)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(6)|lung(28)|ovary(6)|prostate(6)|skin(6)|upper_aerodigestive_tract(1)	71	Lung NSC(77;0.0178)|Renal(3;0.122)					CTTAAATGATCATTCAGAAGC	0.408												
DNAH11	8701	broad.mit.edu	37	7	21658736	21658736	+	Missense_Mutation	SNP	G	G	A			TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr7:21658736G>A	uc003svc.3	+	23	4319	c.4288G>A	c.(4288-4290)Gaa>Aaa	p.E1430K		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	Homo sapiens dynein, axonemal, heavy chain 11 (DNAH11), mRNA.	1430	Stem (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			NS(1)|autonomic_ganglia(1)|breast(13)|central_nervous_system(3)|cervix(4)|endometrium(18)|haematopoietic_and_lymphoid_tissue(1)|kidney(9)|large_intestine(50)|lung(101)|ovary(10)|pancreas(4)|prostate(7)|skin(3)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	230						TTTAATAAATGAAGCCACAAC	0.418									Kartagener syndrome			
EGFR	1956	broad.mit.edu	37	7	55211079	55211079	+	Missense_Mutation	SNP	A	A	G			TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr7:55211079A>G	uc003tqk.3	+	2	568	c.322A>G	c.(322-324)Aga>Gga	p.R108G	EGFR_uc003tqh.3_Missense_Mutation_p.R108G|EGFR_uc003tqi.3_Missense_Mutation_p.R108G|EGFR_uc003tqj.3_Missense_Mutation_p.R108G|EGFR_uc022adm.1_Missense_Mutation_p.R108G|EGFR_uc010kzg.2_Missense_Mutation_p.R108G|EGFR_uc022adn.1_Missense_Mutation_p.R108G|EGFR_uc011kco.2_Missense_Mutation_p.R55G	NM_005228	NP_005219	P00533	EGFR_HUMAN	Homo sapiens epidermal growth factor receptor (EGFR), transcript variant 1, mRNA.	108					activation of phospholipase A2 activity by calcium-mediated signaling|activation of phospholipase C activity|axon guidance|cell proliferation|cell-cell adhesion|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|ossification|positive regulation of catenin import into nucleus|positive regulation of cell migration|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|positive regulation of nitric oxide biosynthetic process|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|protein autophosphorylation|protein insertion into membrane|regulation of nitric-oxide synthase activity|regulation of peptidyl-tyrosine phosphorylation|response to stress|response to UV-A	basolateral plasma membrane|endoplasmic reticulum membrane|endosome|extracellular space|Golgi membrane|integral to membrane|nuclear membrane|Shc-EGFR complex	actin filament binding|ATP binding|double-stranded DNA binding|epidermal growth factor receptor activity|identical protein binding|MAP/ERK kinase kinase activity|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity	p.R108K(7)|p.V30_R297>G(5)		NS(2)|adrenal_gland(5)|biliary_tract(8)|bone(3)|breast(18)|central_nervous_system(106)|endometrium(26)|eye(3)|haematopoietic_and_lymphoid_tissue(9)|kidney(11)|large_intestine(85)|liver(2)|lung(13575)|oesophagus(21)|ovary(38)|pancreas(3)|peritoneum(11)|pleura(2)|prostate(35)|salivary_gland(11)|skin(9)|small_intestine(1)|soft_tissue(4)|stomach(41)|thymus(2)|thyroid(14)|upper_aerodigestive_tract(59)|urinary_tract(6)	14110	all_cancers(1;1.57e-46)|all_epithelial(1;5.62e-37)|Lung NSC(1;9.29e-25)|all_lung(1;4.39e-23)|Esophageal squamous(2;7.55e-08)|Breast(14;0.0318)		GBM - Glioblastoma multiforme(1;0)|all cancers(1;2.19e-314)|Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00164)|Epithelial(13;0.0607)		Cetuximab(DB00002)|Erlotinib(DB00530)|Gefitinib(DB00317)|Lapatinib(DB01259)|Lidocaine(DB00281)|Panitumumab(DB01269)|Trastuzumab(DB00072)	GCAGATCATCAGAGGAAATAT	0.418		8	"""A, O, Mis"""		"""glioma, NSCLC"""	NSCLC			Lung Cancer, Familial Clustering of	TCGA GBM(3;<1E-08)|TSP Lung(4;<1E-08)		
EGFR	1956	broad.mit.edu	37	7	55223543	55223543	+	Missense_Mutation	SNP	C	C	T			TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr7:55223543C>T	uc003tqk.3	+	7	1156	c.910C>T	c.(910-912)Cac>Tac	p.H304Y	EGFR_uc003tqh.3_Missense_Mutation_p.H304Y|EGFR_uc003tqi.3_Missense_Mutation_p.H304Y|EGFR_uc003tqj.3_Missense_Mutation_p.H304Y|EGFR_uc022adm.1_Missense_Mutation_p.H304Y|EGFR_uc010kzg.2_Missense_Mutation_p.H259Y|EGFR_uc022adn.1_Missense_Mutation_p.H259Y|EGFR_uc011kco.2_Missense_Mutation_p.H251Y|EGFR_uc011kcp.1_5'Flank|EGFR_uc011kcq.1_5'Flank	NM_005228	NP_005219	P00533	EGFR_HUMAN	Homo sapiens epidermal growth factor receptor (EGFR), transcript variant 1, mRNA.	304					activation of phospholipase A2 activity by calcium-mediated signaling|activation of phospholipase C activity|axon guidance|cell proliferation|cell-cell adhesion|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|ossification|positive regulation of catenin import into nucleus|positive regulation of cell migration|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|positive regulation of nitric oxide biosynthetic process|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|protein autophosphorylation|protein insertion into membrane|regulation of nitric-oxide synthase activity|regulation of peptidyl-tyrosine phosphorylation|response to stress|response to UV-A	basolateral plasma membrane|endoplasmic reticulum membrane|endosome|extracellular space|Golgi membrane|integral to membrane|nuclear membrane|Shc-EGFR complex	actin filament binding|ATP binding|double-stranded DNA binding|epidermal growth factor receptor activity|identical protein binding|MAP/ERK kinase kinase activity|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity	p.D303H(1)		NS(2)|adrenal_gland(5)|biliary_tract(8)|bone(3)|breast(18)|central_nervous_system(106)|endometrium(26)|eye(3)|haematopoietic_and_lymphoid_tissue(9)|kidney(11)|large_intestine(85)|liver(2)|lung(13575)|oesophagus(21)|ovary(38)|pancreas(3)|peritoneum(11)|pleura(2)|prostate(35)|salivary_gland(11)|skin(9)|small_intestine(1)|soft_tissue(4)|stomach(41)|thymus(2)|thyroid(14)|upper_aerodigestive_tract(59)|urinary_tract(6)	14110	all_cancers(1;1.57e-46)|all_epithelial(1;5.62e-37)|Lung NSC(1;9.29e-25)|all_lung(1;4.39e-23)|Esophageal squamous(2;7.55e-08)|Breast(14;0.0318)		GBM - Glioblastoma multiforme(1;0)|all cancers(1;2.19e-314)|Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00164)|Epithelial(13;0.0607)		Cetuximab(DB00002)|Erlotinib(DB00530)|Gefitinib(DB00317)|Lapatinib(DB01259)|Lidocaine(DB00281)|Panitumumab(DB01269)|Trastuzumab(DB00072)	GGTGACAGATCACGGCTCGTG	0.592		8	"""A, O, Mis"""		"""glioma, NSCLC"""	NSCLC			Lung Cancer, Familial Clustering of	TCGA GBM(3;<1E-08)|TSP Lung(4;<1E-08)		
EGFR	1956	broad.mit.edu	37	7	55233043	55233043	+	Missense_Mutation	SNP	G	G	T	rs139236063		TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr7:55233043G>T	uc003tqk.3	+	14	2039	c.1793G>T	c.(1792-1794)gGa>gTa	p.G598V	EGFR_uc003tqi.3_Missense_Mutation_p.G598V|EGFR_uc003tqj.3_Missense_Mutation_p.G598V|EGFR_uc022adm.1_Missense_Mutation_p.G598V|EGFR_uc010kzg.2_Missense_Mutation_p.G553V|EGFR_uc022adn.1_Missense_Mutation_p.G553V|EGFR_uc011kco.2_Missense_Mutation_p.G545V|EGFR_uc011kcp.1_Intron|EGFR_uc011kcq.1_Non-coding_Transcript|EGFR_uc003tqn.3_Non-coding_Transcript	NM_005228	NP_005219	P00533	EGFR_HUMAN	Homo sapiens epidermal growth factor receptor (EGFR), transcript variant 1, mRNA.	598					activation of phospholipase A2 activity by calcium-mediated signaling|activation of phospholipase C activity|axon guidance|cell proliferation|cell-cell adhesion|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|ossification|positive regulation of catenin import into nucleus|positive regulation of cell migration|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|positive regulation of nitric oxide biosynthetic process|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|protein autophosphorylation|protein insertion into membrane|regulation of nitric-oxide synthase activity|regulation of peptidyl-tyrosine phosphorylation|response to stress|response to UV-A	basolateral plasma membrane|endoplasmic reticulum membrane|endosome|extracellular space|Golgi membrane|integral to membrane|nuclear membrane|Shc-EGFR complex	actin filament binding|ATP binding|double-stranded DNA binding|epidermal growth factor receptor activity|identical protein binding|MAP/ERK kinase kinase activity|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity	p.G598V(31)|p.A597T(1)|p.A597P(1)		NS(2)|adrenal_gland(5)|biliary_tract(8)|bone(3)|breast(18)|central_nervous_system(106)|endometrium(26)|eye(3)|haematopoietic_and_lymphoid_tissue(9)|kidney(11)|large_intestine(85)|liver(2)|lung(13575)|oesophagus(21)|ovary(38)|pancreas(3)|peritoneum(11)|pleura(2)|prostate(35)|salivary_gland(11)|skin(9)|small_intestine(1)|soft_tissue(4)|stomach(41)|thymus(2)|thyroid(14)|upper_aerodigestive_tract(59)|urinary_tract(6)	14110	all_cancers(1;1.57e-46)|all_epithelial(1;5.62e-37)|Lung NSC(1;9.29e-25)|all_lung(1;4.39e-23)|Esophageal squamous(2;7.55e-08)|Breast(14;0.0318)		GBM - Glioblastoma multiforme(1;0)|all cancers(1;2.19e-314)|Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00164)|Epithelial(13;0.0607)		Cetuximab(DB00002)|Erlotinib(DB00530)|Gefitinib(DB00317)|Lapatinib(DB01259)|Lidocaine(DB00281)|Panitumumab(DB01269)|Trastuzumab(DB00072)	TGCCCGGCAGGAGTCATGGGA	0.567		8	"""A, O, Mis"""		"""glioma, NSCLC"""	NSCLC			Lung Cancer, Familial Clustering of	TCGA GBM(3;<1E-08)|TSP Lung(4;<1E-08)		
PCLO	27445	broad.mit.edu	37	7	82585035	82585035	+	Missense_Mutation	SNP	G	G	A			TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr7:82585035G>A	uc003uhx.2	-	4	5523	c.5234C>T	c.(5233-5235)cCg>cTg	p.P1745L	PCLO_uc003uhv.2_Missense_Mutation_p.P1745L	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	Homo sapiens piccolo (presynaptic cytomatrix protein) (PCLO), transcript variant 1, mRNA.	1676					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			breast(3)|central_nervous_system(3)|cervix(5)|endometrium(19)|haematopoietic_and_lymphoid_tissue(3)|kidney(19)|large_intestine(35)|lung(145)|ovary(7)|prostate(4)|upper_aerodigestive_tract(14)|urinary_tract(2)	259						TTTGTGACTCGGGCTACTGTC	0.488												
DYNC1I1	1780	broad.mit.edu	37	7	95442583	95442583	+	Missense_Mutation	SNP	C	C	T			TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr7:95442583C>T	uc003uoc.4	+	3	576	c.299C>T	c.(298-300)tCg>tTg	p.S100L	DYNC1I1_uc003uod.4_Missense_Mutation_p.S83L|DYNC1I1_uc003uob.3_Missense_Mutation_p.S83L|DYNC1I1_uc003uoe.4_Missense_Mutation_p.S100L|DYNC1I1_uc010lfl.3_Missense_Mutation_p.S89L	NM_004411	NP_004402	O14576	DC1I1_HUMAN	Homo sapiens dynein, cytoplasmic 1, intermediate chain 1 (DYNC1I1), transcript variant 1, mRNA.	100	Interaction with DCTN1 (By similarity).				vesicle transport along microtubule	condensed chromosome kinetochore|cytoplasmic dynein complex|microtubule|perinuclear region of cytoplasm|spindle pole|vesicle	microtubule binding|microtubule motor activity	p.S100S(1)		NS(2)|autonomic_ganglia(1)|breast(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(10)|lung(27)|ovary(3)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	54	all_cancers(62;9.39e-10)|all_epithelial(64;2.28e-09)|Lung NSC(181;0.165)|all_lung(186;0.191)		STAD - Stomach adenocarcinoma(171;0.0957)			TCTCCCTCCTCGAAATCAGTG	0.468												
OR2A7	401427	broad.mit.edu	37	7	143956670	143956670	+	Missense_Mutation	SNP	C	C	T			TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr7:143956670C>T	uc011kuc.2	-	0	52	c.52G>A	c.(52-54)Gtt>Att	p.V18I	OR2A9P_uc003wec.1_Intron|OR2A7_uc003wef.3_Non-coding_Transcript	NM_001005328	NP_001005328	Q96R45	OR2A7_HUMAN	Homo sapiens olfactory receptor, family 2, subfamily A, member 7 (OR2A7), mRNA.	18					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity	p.P17S(1)		endometrium(1)|large_intestine(1)|lung(3)|ovary(1)	6	Melanoma(164;0.14)					CTTGGGCCAACGGGAAATCCC	0.498												
MTUS1	57509	broad.mit.edu	37	8	17503489	17503489	+	Missense_Mutation	SNP	C	C	A			TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr8:17503489C>A	uc003wxv.3	-	14	4233	c.3759G>T	c.(3757-3759)ttG>ttT	p.L1253F	MTUS1_uc003wxt.3_Missense_Mutation_p.L500F|MTUS1_uc011kyg.2_Missense_Mutation_p.L398F|MTUS1_uc010lsy.3_Non-coding_Transcript|MTUS1_uc003wxw.3_Missense_Mutation_p.L1199F|MTUS1_uc003wxs.3_Missense_Mutation_p.L419F	NM_001001924	NP_001001924	Q9ULD2	MTUS1_HUMAN	Homo sapiens microtubule associated tumor suppressor 1 (MTUS1), transcript variant 1, mRNA.	1253						Golgi apparatus|microtubule|microtubule organizing center|mitochondrion|nucleus|plasma membrane|spindle				breast(1)|central_nervous_system(1)|endometrium(4)|kidney(4)|large_intestine(14)|lung(8)|ovary(1)|skin(2)|urinary_tract(1)	36				Colorectal(111;0.0778)		TTGGTGACTGCAAAGGGATGG	0.537												
TG	7038	broad.mit.edu	37	8	133925395	133925395	+	Silent	SNP	C	C	T			TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr8:133925395C>T	uc003ytw.3	+	19	4304	c.4263C>T	c.(4261-4263)acC>acT	p.T1421T	TG_uc010mdw.3_Silent_p.T180T	NM_003235	NP_003226	P01266	THYG_HUMAN	Homo sapiens thyroglobulin (TG), mRNA.	1421					hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			NS(1)|breast(11)|central_nervous_system(3)|endometrium(12)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(34)|liver(2)|lung(59)|ovary(9)|pancreas(2)|prostate(6)|skin(7)|stomach(4)|upper_aerodigestive_tract(4)|urinary_tract(8)	168	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		CAGCGGAAACCATCCGCTTCC	0.562												
AKNA	80709	broad.mit.edu	37	9	117099371	117099371	+	Missense_Mutation	SNP	C	C	T			TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr9:117099371C>T	uc004biq.3	-	20	4418	c.4283G>A	c.(4282-4284)cGc>cAc	p.R1428H	AKNA_uc004bin.3_Missense_Mutation_p.R675H|AKNA_uc004bio.3_Missense_Mutation_p.R888H|AKNA_uc004bip.3_Missense_Mutation_p.R1347H|AKNA_uc004bir.3_Missense_Mutation_p.R1428H|AKNA_uc004bis.3_Missense_Mutation_p.R1428H|AKNA_uc010mve.2_Missense_Mutation_p.R1309H	NM_030767	NP_110394	Q7Z591	AKNA_HUMAN	Homo sapiens AT-hook transcription factor (AKNA), mRNA.	1428					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			breast(3)|central_nervous_system(4)|cervix(1)|endometrium(2)|kidney(4)|large_intestine(7)|liver(2)|lung(22)|ovary(4)|stomach(2)	51						GTGAGCCTGGCGCAGGTCGGC	0.682												
AK8	158067	broad.mit.edu	37	9	135702270	135702270	+	Missense_Mutation	SNP	T	T	G			TCGA-28-1747-01C-01D-1494-08	TCGA-28-1747-10B-01D-1494-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7c746081-ac14-4ae2-9564-d67d52f2627c	53b59edd-ae02-4865-8ee3-d8a0da64e9e9	g.chr9:135702270T>G	uc004cbu.1	-	7	1284	c.728A>C	c.(727-729)gAc>gCc	p.D243A	AK8_uc010mzx.1_Non-coding_Transcript|AK8_uc004cbv.1_Missense_Mutation_p.D39A	NM_152572	NP_689785	Q96MA6	KAD8_HUMAN	Homo sapiens adenylate kinase 8 (AK8), mRNA.	243						cytosol	adenylate kinase activity|ATP binding|cytidylate kinase activity	p.D243A(6)		NS(1)|kidney(2)|large_intestine(4)|lung(11)|pancreas(2)|prostate(1)|urinary_tract(2)	23						ACATGGCTGGTCAGCACTGAT	0.557												
