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	isArtifactMode	oxoGCut
NBPF1	55672	broad.mit.edu	37	1	16918653	16918653	+	Splice_Site	SNP	C	T	T			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr1:16918653C>T	uc009vos.1	-	6	853	c.-35_splice	c.e6+1		NBPF1_uc010oce.1_Intron	NM_017940	NP_060410	Q3BBV0	NBPF1_HUMAN	hypothetical protein LOC55672							cytoplasm					0				UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.52e-06)|COAD - Colon adenocarcinoma(227;1.05e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.179)		TCTTAACTTACTGTTGTGAAA	0.418													4	67					0	0	0	0
PABPC4	8761	broad.mit.edu	37	1	40036937	40036937	+	Missense_Mutation	SNP	T	C	C			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr1:40036937T>C	uc010oiv.1	-	3	1370	c.472A>G	c.(472-474)ATG>GTG	p.M158V	PABPC4_uc001cdl.2_Missense_Mutation_p.M158V|PABPC4_uc001cdm.2_Missense_Mutation_p.M158V	NM_003819	NP_003810	Q13310	PABP4_HUMAN	poly A binding protein, cytoplasmic 4 isoform 2	158	RRM 2.				blood coagulation|RNA catabolic process|RNA processing|translation	cytoplasm|ribonucleoprotein complex	nucleotide binding|poly(A) RNA binding|poly(U) RNA binding|protein binding				0	Lung NSC(20;1.55e-06)|Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;2.89e-18)|Epithelial(16;6.17e-17)|all cancers(16;1.18e-15)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			ATGCCATTCATCTTCTCGATG	0.552													21	160					0	0	0	0
MYCL1	4610	broad.mit.edu	37	1	40366859	40366859	+	Missense_Mutation	SNP	C	A	A			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr1:40366859C>A	uc001cer.1	-	2	465	c.248G>T	c.(247-249)GGC>GTC	p.G83V	MYCL1_uc001ces.1_Missense_Mutation_p.G83V|MYCL1_uc001cet.1_Missense_Mutation_p.G83V	NM_001033082	NP_001028254	P12524	MYCL1_HUMAN	l-myc-1 proto-oncogene isoform 1	83						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			lung(1)|liver(1)	2	all_cancers(7;1.73e-14)|all_lung(5;2.77e-17)|all_epithelial(6;6.81e-17)|Lung SC(1;2.85e-13)|Lung NSC(20;7.03e-07)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1.51e-19)|Epithelial(16;3.36e-18)|all cancers(16;8.43e-17)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			GTAGTTCCTGCCCCAGCCTTT	0.711			A		small cell lung 								5	28					0.00116845	0.00143034	1	0
KANK4	163782	broad.mit.edu	37	1	62740512	62740512	+	Silent	SNP	G	A	A			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr1:62740512G>A	uc001dah.3	-	3	641	c.264C>T	c.(262-264)CTC>CTT	p.L88L	KANK4_uc001dai.3_Intron|KANK4_uc001dag.3_5'Flank	NM_181712	NP_859063	Q5T7N3	KANK4_HUMAN	ankyrin repeat domain 38	88										ovary(3)|skin(2)|lung(1)	6						ACCAGTTTTGGAGGGGCGGGG	0.602													6	153					0	0	0	0
ZNF326	284695	broad.mit.edu	37	1	90459479	90459479	+	5'Flank	SNP	C	T	T			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr1:90459479C>T	uc001dnq.2	+						GEMIN8P4_uc001dno.2_RNA|ZNF326_uc001dnp.3_5'Flank|ZNF326_uc009wda.1_5'Flank|ZNF326_uc001dnr.2_5'Flank	NM_182976	NP_892021	Q5BKZ1	ZN326_HUMAN	zinc finger protein 326 isoform 1						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear matrix	DNA binding			ovary(1)	1		all_lung(203;0.0116)|Lung NSC(277;0.0417)		all cancers(265;0.00728)|Epithelial(280;0.0265)		CCATATTGCTCAGGTCACATG	0.542													11	100					0	0	0	0
HRNR	388697	broad.mit.edu	37	1	152191918	152191918	+	Silent	SNP	G	A	A	rs146453724	byFrequency	TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr1:152191918G>A	uc001ezt.1	-	3	2263	c.2187C>T	c.(2185-2187)CAC>CAT	p.H729H		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	729	7.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			ACCTAGAGCCGTGTTTTCTGT	0.537													20	248					0	0	0	0
COPA	1314	broad.mit.edu	37	1	160276272	160276272	+	Silent	SNP	C	T	T			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr1:160276272C>T	uc009wti.2	-	15	1708	c.1314G>A	c.(1312-1314)AAG>AAA	p.K438K	COPA_uc001fvv.3_Silent_p.K438K|COPA_uc009wtj.1_Silent_p.K384K	NM_004371	NP_004362	P53621	COPA_HUMAN	coatomer protein complex, subunit alpha isoform	438					COPI coating of Golgi vesicle|intracellular protein transport|pancreatic juice secretion|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol|extracellular space|microsome|soluble fraction	hormone activity|structural molecule activity			ovary(1)|skin(1)	2	all_cancers(52;8.15e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			TCTTCAGATTCTTGATCAGAA	0.413													7	59					0	0	0	0
ARHGAP30	257106	broad.mit.edu	37	1	161017681	161017681	+	Missense_Mutation	SNP	G	A	A			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr1:161017681G>A	uc001fxl.2	-	12	3476	c.3130C>T	c.(3130-3132)CCT>TCT	p.P1044S	USF1_uc001fxi.2_5'Flank|USF1_uc001fxj.2_5'Flank|ARHGAP30_uc001fxk.2_Missense_Mutation_p.P833S|ARHGAP30_uc001fxm.2_Missense_Mutation_p.P890S|ARHGAP30_uc009wtx.2_Missense_Mutation_p.P717S	NM_001025598	NP_001020769	Q7Z6I6	RHG30_HUMAN	Rho GTPase activating protein 30 isoform 1	1044					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(2)|upper_aerodigestive_tract(1)	3	all_cancers(52;8.05e-20)|Breast(13;0.00188)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00122)			AGGGGCCGAGGAGAATGGGCA	0.592													12	62					0	0	0	0
TSPAN14	81619	broad.mit.edu	37	10	82264528	82264528	+	Silent	SNP	C	T	T			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr10:82264528C>T	uc001kcj.3	+	3	233	c.126C>T	c.(124-126)AGC>AGT	p.S42S	TSPAN14_uc009xss.2_Intron|TSPAN14_uc001kci.3_Intron	NM_030927	NP_112189	Q8NG11	TSN14_HUMAN	tetraspanin 14 isoform 1	42						integral to membrane				ovary(1)|central_nervous_system(1)	2			Colorectal(32;0.229)			GGGCATGGAGCGAAAAGGTAG	0.517													16	86					0	0	0	0
MICALCL	84953	broad.mit.edu	37	11	12313774	12313774	+	Missense_Mutation	SNP	C	T	T			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr11:12313774C>T	uc001mkg.1	+	2	350	c.59C>T	c.(58-60)TCA>TTA	p.S20L		NM_032867	NP_116256	Q6ZW33	MICLK_HUMAN	MICAL C-terminal like	20	Ser-rich.				cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm	mitogen-activated protein kinase binding			skin(1)	1				Epithelial(150;0.00177)		tcttcccattcatcttcccca	0.363													10	49					0	0	0	0
ABTB2	25841	broad.mit.edu	37	11	34182611	34182611	+	Missense_Mutation	SNP	G	A	A			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr11:34182611G>A	uc001mvl.1	-	11	1908	c.1678C>T	c.(1678-1680)CAC>TAC	p.H560Y		NM_145804	NP_665803	Q8N961	ABTB2_HUMAN	ankyrin repeat and BTB (POZ) domain containing	560							DNA binding			central_nervous_system(1)|skin(1)	2		Acute lymphoblastic leukemia(5;0.0508)|all_hematologic(20;0.0691)				ATCCAGATGTGCAGCTTCCAG	0.622													4	17					0	0	0	0
SIDT2	51092	broad.mit.edu	37	11	117056884	117056884	+	Missense_Mutation	SNP	A	G	G			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr11:117056884A>G	uc001pqh.1	+	9	948	c.907A>G	c.(907-909)ATA>GTA	p.I303V	SIDT2_uc010rxe.1_Missense_Mutation_p.I303V|SIDT2_uc001pqg.2_Missense_Mutation_p.I303V|SIDT2_uc001pqi.1_Missense_Mutation_p.I303V	NM_001040455	NP_001035545	Q8NBJ9	SIDT2_HUMAN	SID1 transmembrane family, member 2 precursor	303	Helical; (Potential).					integral to membrane|lysosomal membrane					0	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.69e-05)|Epithelial(105;0.000219)|all cancers(92;0.00144)		TTGCCTGGGTATATTTCTCTC	0.557													18	93					0	0	0	0
HIST4H4	121504	broad.mit.edu	37	12	14923813	14923813	+	Missense_Mutation	SNP	T	C	C			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr12:14923813T>C	uc001rcf.3	-	1	253	c.206A>G	c.(205-207)GAC>GGC	p.D69G	HIST4H4_uc001rce.2_RNA	NM_175054	NP_778224	P62805	H4_HUMAN	histone cluster 4, H4	69					CenH3-containing nucleosome assembly at centromere|negative regulation of megakaryocyte differentiation|phosphatidylinositol-mediated signaling|telomere maintenance	nucleoplasm|nucleosome	DNA binding|protein binding			ovary(2)	2						AGTCACCGCGTCACGGATCAC	0.617											OREG0021698	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	85					0	0	0	0
KRT6A	3853	broad.mit.edu	37	12	52886867	52886867	+	Missense_Mutation	SNP	C	T	T			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr12:52886867C>T	uc001sam.2	-	1	315	c.106G>A	c.(106-108)GTC>ATC	p.V36I		NM_005554	NP_005545	P02538	K2C6A_HUMAN	keratin 6A	36	Head.				cell differentiation|ectoderm development|positive regulation of cell proliferation	keratin filament	protein binding|structural constituent of cytoskeleton			ovary(4)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(357;0.189)		GACACGGAGACGCTGCTGAAG	0.667													5	105					0	0	0	0
COG3	83548	broad.mit.edu	37	13	46070356	46070356	+	Missense_Mutation	SNP	A	T	T			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr13:46070356A>T	uc001vak.2	+	13	1498	c.1397A>T	c.(1396-1398)TAC>TTC	p.Y466F	COG3_uc001vaj.1_Missense_Mutation_p.Y466F|COG3_uc010tfv.1_Missense_Mutation_p.Y303F|COG3_uc010aci.2_Missense_Mutation_p.Y242F	NM_031431	NP_113619	Q96JB2	COG3_HUMAN	component of golgi transport complex 3	466					ER to Golgi vesicle-mediated transport|intra-Golgi vesicle-mediated transport|intracellular protein transport|protein glycosylation|protein localization to organelle|protein stabilization|retrograde vesicle-mediated transport, Golgi to ER	cis-Golgi network|Golgi cisterna membrane|Golgi transport complex	protein binding|protein transporter activity			breast(1)|skin(1)	2		Lung NSC(96;0.000145)|Breast(56;0.000596)|Prostate(109;0.00438)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;0.000124)		CGGCTCGTCTACCGAACCCAC	0.468													6	30					0	0	0	0
RPGRIP1	57096	broad.mit.edu	37	14	21795832	21795832	+	Missense_Mutation	SNP	G	A	A			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr14:21795832G>A	uc001wag.2	+	17	2761	c.2761G>A	c.(2761-2763)GTG>ATG	p.V921M	RPGRIP1_uc001wah.2_Missense_Mutation_p.V563M|RPGRIP1_uc001wai.2_Missense_Mutation_p.V247M|RPGRIP1_uc001wak.2_Missense_Mutation_p.V396M|RPGRIP1_uc010aim.2_Missense_Mutation_p.V304M|RPGRIP1_uc001wal.2_Missense_Mutation_p.V280M|RPGRIP1_uc001wam.2_Missense_Mutation_p.V238M	NM_020366	NP_065099	Q96KN7	RPGR1_HUMAN	retinitis pigmentosa GTPase regulator	921					response to stimulus|visual perception	cilium				ovary(4)|breast(2)|pancreas(1)	7	all_cancers(95;0.0017)	all_cancers(140;0.0973)	Epithelial(56;6.24e-07)|all cancers(55;6.56e-06)	GBM - Glioblastoma multiforme(265;0.00888)		ATCTATTCAAGTGCAACTGGA	0.433													12	55					0	0	0	0
ATP5S	27109	broad.mit.edu	37	14	50798919	50798919	+	Silent	SNP	C	G	G			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr14:50798919C>G	uc010ant.1	+	5	666	c.666C>G	c.(664-666)CTC>CTG	p.L222L	CDKL1_uc001wxz.2_Intron	NM_001003803	NP_001003803	Q99766	ATP5S_HUMAN	ATP synthase, H+ transporting, mitochondrial F0	Error:Variant_position_missing_in_Q99766_after_alignment					ATP biosynthetic process	mitochondrial inner membrane|proton-transporting ATP synthase complex, coupling factor F(o)	hydrogen ion transmembrane transporter activity			ovary(1)|skin(1)	2	all_epithelial(31;0.000636)|Breast(41;0.0102)			OV - Ovarian serous cystadenocarcinoma(311;0.0685)		CTGCCATCCTCAAGTCTAGAT	0.483													4	71					0	0	0	0
EML5	161436	broad.mit.edu	37	14	89124674	89124674	+	Missense_Mutation	SNP	C	T	T			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr14:89124674C>T	uc001xxg.2	-	27	3920	c.3734G>A	c.(3733-3735)CGC>CAC	p.R1245H	EML5_uc001xxf.2_Missense_Mutation_p.R40H|EML5_uc001xxh.1_Missense_Mutation_p.R384H	NM_183387	NP_899243	Q05BV3	EMAL5_HUMAN	echinoderm microtubule associated protein like	1245	WD 19.					cytoplasm|microtubule				ovary(3)	3						ATAAGTCCAGCGAACATTTGT	0.398													7	135					0	0	0	0
ADAM6	8755	broad.mit.edu	37	14	107062402	107062402	+	RNA	SNP	G	C	C			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr14:107062402G>C	uc010tyt.1	-	131		c.6193C>G								Parts of antibodies, mostly variable regions.												0						TCCTGGGCCCGACTCCTGCAG	0.597													3	53					0	0	0	0
KLHL25	64410	broad.mit.edu	37	15	86312762	86312762	+	Missense_Mutation	SNP	G	T	T			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr15:86312762G>T	uc002bly.2	-	2	483	c.280C>A	c.(280-282)CAC>AAC	p.H94N		NM_022480	NP_071925	Q9H0H3	ENC2_HUMAN	BTB/POZ KELCH domain protein	94	BTB.					cytoplasm				ovary(2)	2						ACCTCCGGGTGCAGGTTGTCC	0.612													4	73					0.00024832	0.000309311	1	0
MEFV	4210	broad.mit.edu	37	16	3293648	3293648	+	Missense_Mutation	SNP	G	C	C			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr16:3293648G>C	uc002cun.1	-	10	1879	c.1839C>G	c.(1837-1839)TTC>TTG	p.F613L		NM_000243	NP_000234	O15553	MEFV_HUMAN	Mediterranean fever protein	613	B30.2/SPRY.				inflammatory response	cytoplasm|microtubule|microtubule associated complex|nucleus	actin binding|zinc ion binding			central_nervous_system(2)|skin(2)|ovary(1)|lung(1)	6					Colchicine(DB01394)	GATCATCAGAGAAGATGAGGT	0.473													42	282					0	0	0	0
BTBD12	84464	broad.mit.edu	37	16	3640079	3640079	+	Missense_Mutation	SNP	C	A	A			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr16:3640079C>A	uc002cvp.2	-	12	4187	c.3560G>T	c.(3559-3561)AGG>ATG	p.R1187M		NM_032444	NP_115820	Q8IY92	SLX4_HUMAN	BTB (POZ) domain containing 12	1187	Interaction with PLK1 and TERF2-TERF2IP.				DNA double-strand break processing involved in repair via single-strand annealing|double-strand break repair via homologous recombination|nucleotide-excision repair	Slx1-Slx4 complex	enzyme activator activity|protein binding				0						CTCACAGGACCTAGGGCTAAT	0.483								Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia				15	117					2.31682e-05	2.9374e-05	1	0
TRAP1	10131	broad.mit.edu	37	16	3724418	3724418	+	Silent	SNP	G	A	A			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr16:3724418G>A	uc002cvt.3	-	9	1055	c.966C>T	c.(964-966)CAC>CAT	p.H322H	TRAP1_uc002cvs.2_Silent_p.H113H|TRAP1_uc010uxf.1_Silent_p.H269H	NM_016292	NP_057376	Q12931	TRAP1_HUMAN	TNF receptor-associated protein 1 precursor	322					cellular response to oxidative stress|protein folding	mitochondrion	ATP binding|tumor necrosis factor receptor binding|unfolded protein binding			central_nervous_system(1)	1		Ovarian(90;0.0261)				GGGGCTTGTCGTGAGCCTGCG	0.602													5	61					0	0	0	0
LOC283922	283922	broad.mit.edu	37	16	74372683	74372683	+	Silent	SNP	C	T	T			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr16:74372683C>T	uc002fcr.2	-	9	1622	c.276G>A	c.(274-276)GAG>GAA	p.E92E	LOC283922_uc010vms.1_RNA					Homo sapiens cDNA FLJ39449 fis, clone PROST2008360, highly similar to Homo sapiens pyruvate dehydrogenase phosphatase regulatory subunit (PDPR), mRNA.												0						ATCCATGTTTCTCCATCCACC	0.488													8	36					0	0	0	0
CDT1	81620	broad.mit.edu	37	16	88871192	88871192	+	Missense_Mutation	SNP	C	T	T			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr16:88871192C>T	uc002flu.2	+	3	428	c.374C>T	c.(373-375)TCA>TTA	p.S125L		NM_030928	NP_112190	Q9H211	CDT1_HUMAN	chromatin licensing and DNA replication factor	125					DNA replication|DNA replication checkpoint|M/G1 transition of mitotic cell cycle|regulation of DNA-dependent DNA replication initiation|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle	cytosol|nucleoplasm	DNA binding|protein binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.0476)		GAGCTTGCGTCATGCCTGCAA	0.706													4	32					0	0	0	0
RPA1	6117	broad.mit.edu	37	17	1782859	1782859	+	Missense_Mutation	SNP	A	G	G			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr17:1782859A>G	uc002fto.2	+	11	1073	c.958A>G	c.(958-960)ATC>GTC	p.I320V		NM_002945	NP_002936	P27694	RFA1_HUMAN	replication protein A1	320					cell cycle checkpoint|DNA recombinase assembly|DNA strand elongation involved in DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	actin cytoskeleton|cytoplasm|DNA replication factor A complex|PML body	metal ion binding|protein binding|single-stranded DNA binding				0						TTTAGACATCATCGGGATCTG	0.493								NER					52	91					0	0	0	0
TP53	7157	broad.mit.edu	37	17	7578211	7578211	+	Missense_Mutation	SNP	C	G	G			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr17:7578211C>G	uc002gim.2	-	6	832	c.638G>C	c.(637-639)CGA>CCA	p.R213P	TP53_uc002gig.1_Missense_Mutation_p.R213P|TP53_uc002gih.2_Missense_Mutation_p.R213P|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R81P|TP53_uc010cng.1_Missense_Mutation_p.R81P|TP53_uc002gii.1_Missense_Mutation_p.R81P|TP53_uc010cnh.1_Missense_Mutation_p.R213P|TP53_uc010cni.1_Missense_Mutation_p.R213P|TP53_uc002gij.2_Missense_Mutation_p.R213P|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_Missense_Mutation_p.R120P|TP53_uc002gio.2_Missense_Mutation_p.R81P|TP53_uc010vug.1_Missense_Mutation_p.R174P	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	213	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> L (in sporadic cancers; somatic mutation).|R -> W (in sporadic cancers; somatic mutation).|R -> Q (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> G (in sporadic cancers; somatic mutation).|R -> P (in LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R213*(182)|p.R213L(25)|p.R213Q(22)|p.R213fs*34(10)|p.0?(7)|p.R213P(5)|p.R213G(2)|p.K164_P219del(1)|p.D208_V216delDRNTFRHSV(1)|p.D207_R213delDDRNTFR(1)|p.T211_S215delTFRHS(1)|p.R213*33(1)|p.D208fs*1(1)|p.R213>L(1)|p.R209_R213delRNTFR(1)|p.R213fs*2(1)|p.T211fs*28(1)|p.R213_S215>X(1)|p.D207_V216del10(1)|p.R213R(1)|p.R213fs*32(1)|p.R209fs*6(1)|p.R213W(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)		CACACTATGTCGAAAAGTGTT	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)			12	31					0	0	0	0
FLII	2314	broad.mit.edu	37	17	18156755	18156755	+	Silent	SNP	C	G	G			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr17:18156755C>G	uc002gsr.1	-	9	924	c.873G>C	c.(871-873)CTG>CTC	p.L291L	FLII_uc002gsq.1_Silent_p.L163L|FLII_uc010cpy.1_Silent_p.L280L|FLII_uc010vxn.1_Silent_p.L260L|FLII_uc010vxo.1_Silent_p.L237L|FLII_uc002gss.1_Silent_p.L291L	NM_002018	NP_002009	Q13045	FLII_HUMAN	flightless I homolog	291	LRR 12.|Interaction with LRRFIP1 and LRRFIP2.				multicellular organismal development|muscle contraction|regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|nucleus	actin binding			central_nervous_system(1)|skin(1)	2	all_neural(463;0.228)					TCAGCTTGCTCAGCTTGCAAA	0.602													3	102					0	0	0	0
Unknown	0	broad.mit.edu	37	17	19091465	19091465	+	IGR	SNP	G	A	A			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr17:19091465G>A								GRAPL (29317 upstream) : EPN2 (49225 downstream)																							gcgttgcttggctgcaactgc	0.04													7	209					0	0	0	0
FLJ36000	284124	broad.mit.edu	37	17	21904204	21904204	+	RNA	SNP	G	T	T			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr17:21904204G>T	uc002gza.2	+	1		c.143G>T				NR_027084				Homo sapiens cDNA FLJ36000 fis, clone TESTI2015180.												0						ctgccaggacggtgttcgggt	0													5	103					0.00116845	0.00143034	1	0
MYO1D	4642	broad.mit.edu	37	17	31099821	31099821	+	Missense_Mutation	SNP	G	T	T	rs140725997		TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr17:31099821G>T	uc002hho.1	-	5	616	c.604C>A	c.(604-606)CAT>AAT	p.H202N	MYO1D_uc002hhp.1_Missense_Mutation_p.H202N|MYO1D_uc010wcb.1_Missense_Mutation_p.H202N	NM_015194	NP_056009	O94832	MYO1D_HUMAN	myosin ID	202	Myosin head-like.					myosin complex	actin binding|ATP binding|calmodulin binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3			BRCA - Breast invasive adenocarcinoma(9;0.0362)			TAGAAAGAATGAAAGCTTCTT	0.388													19	157					1.40151e-16	1.84273e-16	1	0
ACACA	31	broad.mit.edu	37	17	35545260	35545260	+	Missense_Mutation	SNP	T	C	C			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr17:35545260T>C	uc002hnm.2	-	39	4813	c.4622A>G	c.(4621-4623)GAT>GGT	p.D1541G	ACACA_uc002hnk.2_Missense_Mutation_p.D1463G|ACACA_uc002hnl.2_Missense_Mutation_p.D1483G|ACACA_uc002hnn.2_Missense_Mutation_p.D1541G|ACACA_uc002hno.2_Missense_Mutation_p.D1578G|ACACA_uc010cuy.2_Missense_Mutation_p.D235G	NM_198836	NP_942133	Q13085	ACACA_HUMAN	acetyl-Coenzyme A carboxylase alpha isoform 2	1541					acetyl-CoA metabolic process|energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|triglyceride biosynthetic process	cytosol	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			large_intestine(1)|ovary(1)	2		Breast(25;0.00157)|Ovarian(249;0.15)			Biotin(DB00121)	TAGGCTGATATCCAAGTAATA	0.468													3	46					0	0	0	0
MED1	5469	broad.mit.edu	37	17	37571363	37571363	+	Nonsense_Mutation	SNP	G	C	C	rs1139821		TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr17:37571363G>C	uc002hrv.3	-	16	1627	c.1415C>G	c.(1414-1416)TCA>TGA	p.S472*	MED1_uc010wee.1_Nonsense_Mutation_p.S300*|MED1_uc002hru.2_Nonsense_Mutation_p.S472*	NM_004774	NP_004765	Q15648	MED1_HUMAN	mediator complex subunit 1	472	Interaction with ESR1.|Interaction with THRA.|Interaction with the Mediator complex and THRA.			DS -> GL (in Ref. 1; CAA73867).	androgen biosynthetic process|androgen receptor signaling pathway|cellular lipid metabolic process|fat cell differentiation|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription initiation from RNA polymerase II promoter	mediator complex	DNA binding|estrogen receptor binding|ligand-dependent nuclear receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|peroxisome proliferator activated receptor binding|receptor activity|retinoic acid receptor binding|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			lung(2)|ovary(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	8		Ovarian(249;1.78e-06)|Lung SC(565;0.0262)	Lung(15;0.0178)|LUAD - Lung adenocarcinoma(14;0.146)	UCEC - Uterine corpus endometrioid carcinoma (308;6.64e-05)|BRCA - Breast invasive adenocarcinoma(366;0.00136)|READ - Rectum adenocarcinoma(1115;0.0649)		CACATGTGTTGAGTCCTGCAC	0.418										HNSCC(31;0.082)			23	286					0	0	0	0
HOXB2	3212	broad.mit.edu	37	17	46622170	46622170	+	Missense_Mutation	SNP	G	A	A			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr17:46622170G>A	uc002inm.2	-	1	224	c.104C>T	c.(103-105)TCA>TTA	p.S35L		NM_002145	NP_002136	P14652	HXB2_HUMAN	homeobox B2	35					blood circulation	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						CTTGATTGATGAAGTTTGAAA	0.527													13	86					0	0	0	0
TBC1D3P2	440452	broad.mit.edu	37	17	60342363	60342363	+	RNA	SNP	C	G	G			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr17:60342363C>G	uc010woz.1	-	14		c.1766G>C				NR_027486				Homo sapiens cDNA FLJ60189 complete cds, highly similar to TBC1 domain family member 3.												0						GCCATGAGCCCTGGCCCAGAT	0.493													13	76					0	0	0	0
BPTF	2186	broad.mit.edu	37	17	65889610	65889610	+	Missense_Mutation	SNP	A	G	G			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr17:65889610A>G	uc002jgf.2	+	6	2241	c.2180A>G	c.(2179-2181)AAT>AGT	p.N727S	BPTF_uc002jge.2_Missense_Mutation_p.N853S|BPTF_uc010wqm.1_Missense_Mutation_p.N790S	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	853	Interaction with MAZ.				brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			ovary(2)|skin(2)	4	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)			GTCTACCACAATCAATACTCC	0.393													5	55					0	0	0	0
KCNJ2	3759	broad.mit.edu	37	17	68172279	68172279	+	Missense_Mutation	SNP	A	G	G			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr17:68172279A>G	uc010dfg.2	+	2	1500	c.1099A>G	c.(1099-1101)ATC>GTC	p.I367V	KCNJ2_uc002jir.2_Missense_Mutation_p.I367V	NM_000891	NP_000882	P63252	IRK2_HUMAN	potassium inwardly-rectifying channel J2	367	Cytoplasmic (By similarity).				synaptic transmission	integral to plasma membrane	inward rectifier potassium channel activity|protein binding				0	Breast(10;1.64e-08)					AAAGAAATATATCCTCTCAAA	0.413													20	123					0	0	0	0
RNF157	114804	broad.mit.edu	37	17	74161588	74161588	+	Missense_Mutation	SNP	C	G	G			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr17:74161588C>G	uc002jqz.2	-	7	736	c.667G>C	c.(667-669)GAG>CAG	p.E223Q	RNF157_uc002jra.2_Missense_Mutation_p.E223Q	NM_052916	NP_443148	Q96PX1	RN157_HUMAN	ring finger protein 157	223							zinc ion binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(166;0.187)			CTCACCTTCTCAAAAGTACCC	0.483													12	144					0	0	0	0
DLGAP1	9229	broad.mit.edu	37	18	3879519	3879519	+	Missense_Mutation	SNP	T	G	G			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr18:3879519T>G	uc002kmf.2	-	1	617	c.550A>C	c.(550-552)AGC>CGC	p.S184R	DLGAP1_uc010wyz.1_Missense_Mutation_p.S184R|DLGAP1_uc002kmk.2_Missense_Mutation_p.S184R|uc002kml.1_Intron	NM_004746	NP_004737	O14490	DLGP1_HUMAN	discs large homolog-associated protein 1 isoform	184					synaptic transmission	cell junction|postsynaptic density|postsynaptic membrane				ovary(2)|pancreas(1)|skin(1)	4		Colorectal(8;0.0257)				CGCTCCTTGCTCTTGCTGCGT	0.697													12	120					0	0	0	0
ANKRD12	23253	broad.mit.edu	37	18	9257921	9257921	+	Silent	SNP	A	T	T			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr18:9257921A>T	uc002knv.2	+	9	4913	c.4656A>T	c.(4654-4656)GGA>GGT	p.G1552G	ANKRD12_uc002knw.2_Silent_p.G1529G|ANKRD12_uc002knx.2_Silent_p.G1529G|ANKRD12_uc010dkx.1_Silent_p.G1259G	NM_015208	NP_056023	Q6UB98	ANR12_HUMAN	ankyrin repeat domain 12 isoform 1	1552						nucleus				ovary(2)|central_nervous_system(1)	3						TTGTCCTAGGAGATGTTCAAA	0.338													10	30					0	0	0	0
MALT1	10892	broad.mit.edu	37	18	56400691	56400691	+	Missense_Mutation	SNP	G	A	A			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr18:56400691G>A	uc002lhm.1	+	11	1543	c.1285G>A	c.(1285-1287)GAT>AAT	p.D429N	MALT1_uc002lhn.1_Missense_Mutation_p.D418N	NM_006785	NP_006776	Q9UDY8	MALT1_HUMAN	mucosa associated lymphoid tissue lymphoma	429	Caspase-like.				activation of NF-kappaB-inducing kinase activity|anti-apoptosis|nuclear export|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-2 production|positive regulation of NF-kappaB transcription factor activity|positive regulation of phosphorylation|positive regulation of protein ubiquitination|positive regulation of T cell cytokine production|protein oligomerization|proteolysis|T cell receptor signaling pathway	CBM complex|cytosol|nucleus|perinuclear region of cytoplasm	cysteine-type endopeptidase activity|protein self-association|signal transducer activity|ubiquitin-protein ligase activity			ovary(2)|lung(1)|central_nervous_system(1)	4						GGTCCCCGTTGATGCTCCAAA	0.343			T	BIRC3	MALT								7	85					0	0	0	0
INSR	3643	broad.mit.edu	37	19	7184590	7184590	+	Silent	SNP	G	A	A			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr19:7184590G>A	uc002mgd.1	-	3	820	c.711C>T	c.(709-711)AGC>AGT	p.S237S	INSR_uc002mge.1_Silent_p.S237S|INSR_uc002mgf.2_Silent_p.S237S	NM_000208	NP_000199	P06213	INSR_HUMAN	insulin receptor isoform Long precursor	237	Cys-rich.				activation of MAPK activity|activation of protein kinase B activity|carbohydrate metabolic process|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|glucose homeostasis|heart morphogenesis|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of developmental growth|positive regulation of DNA replication|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of glycolysis|positive regulation of MAPKKK cascade|positive regulation of mitosis|positive regulation of nitric oxide biosynthetic process|positive regulation of protein kinase B signaling cascade|positive regulation of protein phosphorylation|positive regulation of respiratory burst|protein autophosphorylation|protein heterotetramerization|regulation of embryonic development|regulation of transcription, DNA-dependent|transformation of host cell by virus	caveola|endosome membrane|insulin receptor complex|microsome	ATP binding|GTP binding|insulin binding|insulin receptor activity|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor II binding|insulin-like growth factor receptor binding|metal ion binding|phosphatidylinositol 3-kinase binding|PTB domain binding|receptor signaling protein tyrosine kinase activity|SH2 domain binding			ovary(4)|lung(3)|central_nervous_system(2)|large_intestine(1)|stomach(1)|skin(1)	12					Insulin Glargine recombinant(DB00047)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	CCAGGCACTCGCTGTGGCAAC	0.522													4	42					0	0	0	0
CCDC130	81576	broad.mit.edu	37	19	13873753	13873753	+	Silent	SNP	G	C	C			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr19:13873753G>C	uc002mxb.1	+	11	1565	c.1062G>C	c.(1060-1062)GGG>GGC	p.G354G	CCDC130_uc002mxc.1_Silent_p.G354G|CCDC130_uc002mxd.1_Silent_p.G209G|CCDC130_uc010dzf.1_Silent_p.G248G|MRI1_uc002mxe.2_5'Flank|MRI1_uc002mxf.2_5'Flank	NM_030818	NP_110445	P13994	CC130_HUMAN	coiled-coil domain containing 130	354					response to virus		protein binding				0			OV - Ovarian serous cystadenocarcinoma(19;6.02e-23)|Epithelial(5;2.58e-18)			GGCAGGAAGGGAGCCGTCAGG	0.692													6	21					0	0	0	0
MRI1	84245	broad.mit.edu	37	19	13879659	13879659	+	Missense_Mutation	SNP	G	A	A			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr19:13879659G>A	uc002mxe.2	+	5	812	c.746G>A	c.(745-747)CGC>CAC	p.R249H	MRI1_uc002mxf.2_Missense_Mutation_p.R202H	NM_001031727	NP_001026897	Q9BV20	MTNA_HUMAN	translation initiation factor eIF-2B subunit	249					L-methionine salvage from methylthioadenosine	cell projection|cytoplasm|nucleus	identical protein binding|S-methyl-5-thioribose-1-phosphate isomerase activity			ovary(1)	1						GGAGCTGACCGCGTGGTTGCC	0.652													6	33					0	0	0	0
ZNF430	80264	broad.mit.edu	37	19	21239599	21239599	+	Missense_Mutation	SNP	A	T	T			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr19:21239599A>T	uc002npj.2	+	5	595	c.485A>T	c.(484-486)TAT>TTT	p.Y162F	ZNF430_uc002npk.2_Missense_Mutation_p.Y161F	NM_025189	NP_079465	Q9H8G1	ZN430_HUMAN	zinc finger protein 430	162					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)	2						AAAGAATGTTATGATGAACTA	0.303													4	31					0	0	0	0
NBAS	51594	broad.mit.edu	37	2	15374713	15374713	+	Silent	SNP	C	T	T			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr2:15374713C>T	uc002rcc.1	-	46	6128	c.6102G>A	c.(6100-6102)AAG>AAA	p.K2034K	NBAS_uc002rcb.1_5'UTR|NBAS_uc010exl.1_Silent_p.K1106K|NBAS_uc002rcd.1_RNA	NM_015909	NP_056993	A2RRP1	NBAS_HUMAN	neuroblastoma-amplified protein	2034										ovary(2)|liver(1)|skin(1)	4						GCACTATATCCTTGGGTGAGA	0.443													5	69					0	0	0	0
NT5C1B	93034	broad.mit.edu	37	2	18736913	18736913	+	Silent	SNP	G	A	A			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr2:18736913G>A	uc010exr.2	-	9	1601	c.1497C>T	c.(1495-1497)AGC>AGT	p.S499S	NT5C1B_uc002rcy.2_3'UTR|RDH14_uc002rcx.3_Silent_p.S185S	NM_033253	NP_150278	Q96P26	5NT1B_HUMAN	5' nucleotidase, cytosolic IB isoform 2	Error:Variant_position_missing_in_Q96P26_after_alignment					purine base metabolic process|purine nucleotide catabolic process	cytosol	5'-nucleotidase activity|magnesium ion binding|nucleotide binding			skin(2)|ovary(1)	3	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.177)	Ovarian(717;0.208)				CCACAATCCTGCTGGGAGCTG	0.408													6	68					0	0	0	0
CTNNA2	1496	broad.mit.edu	37	2	80085227	80085227	+	Silent	SNP	T	G	G			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr2:80085227T>G	uc010ysh.1	+	3	392	c.387T>G	c.(385-387)GCT>GCG	p.A129A	CTNNA2_uc010yse.1_Silent_p.A129A|CTNNA2_uc010ysf.1_Silent_p.A129A|CTNNA2_uc010ysg.1_Silent_p.A129A	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	129					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						CGGCAAGGGCTTTGCTCTCCG	0.532													7	97					0	0	0	0
WASH2P	375260	broad.mit.edu	37	2	114355998	114355998	+	Missense_Mutation	SNP	C	G	G			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr2:114355998C>G	uc002tkh.2	+	5	674	c.616C>G	c.(616-618)CAC>GAC	p.H206D	WASH2P_uc002tka.2_RNA|WASH2P_uc002tkb.2_RNA|WASH2P_uc002tkd.2_RNA	NM_182905	NP_878908			WAS protein family homolog 1												0						CCAAGGTGGGCACTTGATGTC	0.612													5	8					0	0	0	0
DDX11L2	84771	broad.mit.edu	37	2	114357557	114357557	+	Nonstop_Mutation	SNP	A	G	G	rs115341812	by1000genomes	TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr2:114357557A>G	uc010yxx.1	-	3	709	c.382T>C	c.(382-384)TAG>CAG	p.*128Q						SubName: Full=DEAD/H box polypeptide 11 like 2;												0						GCCTACTTCTAGTGAAACTGG	0.567													3	21					0	0	0	0
RIF1	55183	broad.mit.edu	37	2	152319685	152319685	+	Silent	SNP	G	A	A			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr2:152319685G>A	uc002txm.2	+	30	3781	c.3651G>A	c.(3649-3651)CGG>CGA	p.R1217R	RIF1_uc002txl.2_Silent_p.R1217R|RIF1_uc002txn.2_Silent_p.R1217R|RIF1_uc002txo.2_Silent_p.R1217R|RIF1_uc002txp.2_RNA	NM_018151	NP_060621	Q5UIP0	RIF1_HUMAN	RAP1 interacting factor 1	1217					cell cycle|response to DNA damage stimulus	chromosome, telomeric region|cytoplasm|nucleus|spindle	binding			ovary(5)|breast(4)|skin(3)|lung(2)|kidney(1)	15				BRCA - Breast invasive adenocarcinoma(221;0.0429)		CTACAAGTCGGAGGCAAACCT	0.388													11	64					0	0	0	0
KCNJ3	3760	broad.mit.edu	37	2	155566303	155566303	+	Silent	SNP	C	T	T			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr2:155566303C>T	uc002tyv.1	+	2	1086	c.891C>T	c.(889-891)GTC>GTT	p.V297V	KCNJ3_uc010zce.1_Intron	NM_002239	NP_002230	P48549	IRK3_HUMAN	potassium inwardly-rectifying channel J3	297	Cytoplasmic (By similarity).				synaptic transmission	voltage-gated potassium channel complex	G-protein activated inward rectifier potassium channel activity|protein binding			upper_aerodigestive_tract(1)|pancreas(1)	2					Halothane(DB01159)	AGATTGTCGTCATCCTAGAAG	0.413													4	55					0	0	0	0
ITGAV	3685	broad.mit.edu	37	2	187529348	187529348	+	Missense_Mutation	SNP	G	A	A			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr2:187529348G>A	uc002upq.2	+	20	2329	c.2053G>A	c.(2053-2055)GGG>AGG	p.G685R	ITGAV_uc010frs.2_Missense_Mutation_p.G649R|ITGAV_uc010zfv.1_Missense_Mutation_p.G639R	NM_002210	NP_002201	P06756	ITAV_HUMAN	integrin alpha-V isoform 1 precursor	685	Extracellular (Potential).				angiogenesis|axon guidance|blood coagulation|cell-matrix adhesion|entry of bacterium into host cell|entry of symbiont into host cell by promotion of host phagocytosis|entry of virus into host cell|ERK1 and ERK2 cascade|integrin-mediated signaling pathway|leukocyte migration|negative regulation of apoptosis|negative regulation of lipid storage|negative regulation of lipid transport|negative regulation of lipoprotein metabolic process|negative regulation of low-density lipoprotein particle receptor biosynthetic process|negative regulation of macrophage derived foam cell differentiation|positive regulation of cell adhesion|positive regulation of cell proliferation|regulation of apoptotic cell clearance	integrin complex	receptor activity|transforming growth factor beta binding			ovary(2)|kidney(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0185)|Epithelial(96;0.072)|all cancers(119;0.189)	STAD - Stomach adenocarcinoma(3;0.106)|COAD - Colon adenocarcinoma(31;0.108)		TGATTTCATCGGGGTTGTCCG	0.433													14	137					0	0	0	0
PLCL1	5334	broad.mit.edu	37	2	198948736	198948736	+	Missense_Mutation	SNP	G	T	T			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr2:198948736G>T	uc010fsp.2	+	2	786	c.495G>T	c.(493-495)GAG>GAT	p.E165D	PLCL1_uc002uuv.3_Missense_Mutation_p.E86D	NM_001114661	NP_001108133	Q15111	PLCL1_HUMAN	RecName: Full=Inactive phospholipase C-like protein 1;          Short=PLC-L1; AltName: Full=Phospholipase C-deleted in lung carcinoma; AltName: Full=Phospholipase C-related but catalytically inactive protein;          Short=PRIP;	165	PH.|Interaction with PPP1C.				intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|skin(1)	2					Quinacrine(DB01103)	CCATAAAAGAGATCAGACTGG	0.453													23	67					2.70639e-06	3.46223e-06	1	0
PAX3	5077	broad.mit.edu	37	2	223066811	223066811	+	Silent	SNP	C	T	T			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr2:223066811C>T	uc010fwo.2	-	8	1638	c.1272G>A	c.(1270-1272)ACG>ACA	p.T424T	PAX3_uc002vmt.1_Silent_p.T424T|PAX3_uc002vmy.1_Silent_p.T423T|PAX3_uc002vmv.1_Silent_p.T424T|PAX3_uc002vmw.1_Intron|PAX3_uc002vmx.1_Intron	NM_181457	NP_852122	P23760	PAX3_HUMAN	paired box 3 isoform PAX3	424					apoptosis|organ morphogenesis|positive regulation of transcription from RNA polymerase II promoter|sensory perception of sound|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		PAX3/FOXO1(749)|PAX3/NCOA1(8)|PAX3/NCOA2(4)	soft_tissue(761)|ovary(4)|skin(1)	766		Renal(207;0.0183)		Epithelial(121;4.13e-10)|all cancers(144;1.85e-07)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TGGCCGACACCGTGGTGGTAG	0.577			T	FOXO1A|NCOA1	alveolar rhabdomyosarcoma		Waardenburg syndrome; craniofacial-deafness-hand syndrome						6	40					0	0	0	0
TRIP12	9320	broad.mit.edu	37	2	230650483	230650483	+	Missense_Mutation	SNP	T	A	A			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr2:230650483T>A	uc002vpw.1	-	33	4968	c.4859A>T	c.(4858-4860)TAT>TTT	p.Y1620F	TRIP12_uc002vpx.1_Missense_Mutation_p.Y1668F|TRIP12_uc002vpy.1_Missense_Mutation_p.Y1350F	NM_004238	NP_004229	Q14669	TRIPC_HUMAN	thyroid hormone receptor interactor 12	1620					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	proteasome complex	thyroid hormone receptor binding|ubiquitin-protein ligase activity			ovary(4)|lung(2)|breast(1)|central_nervous_system(1)|skin(1)	9		Renal(207;0.025)|all_hematologic(139;0.122)|all_lung(227;0.126)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;4.76e-13)|all cancers(144;4.34e-10)|LUSC - Lung squamous cell carcinoma(224;0.00864)|Lung(119;0.0116)		CTCATTTTCATACTGGATTTC	0.438													7	89					0	0	0	0
PAK7	57144	broad.mit.edu	37	20	9520158	9520158	+	Missense_Mutation	SNP	C	A	A			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr20:9520158C>A	uc002wnl.2	-	11	2656	c.2111G>T	c.(2110-2112)GGT>GTT	p.G704V	PAK7_uc002wnk.2_Missense_Mutation_p.G704V|PAK7_uc002wnj.2_Missense_Mutation_p.G704V|PAK7_uc010gby.1_Missense_Mutation_p.G617V	NM_020341	NP_065074	Q9P286	PAK7_HUMAN	p21-activated kinase 7	704			G -> S (in a metastatic melanoma sample; somatic mutation).				ATP binding|protein binding|protein serine/threonine kinase activity	p.G704S(1)		lung(11)|skin(5)|central_nervous_system(3)|ovary(2)|large_intestine(1)|stomach(1)	23			COAD - Colon adenocarcinoma(9;0.194)			AGACGGTGGACCTGCTAGTTT	0.512													23	186					3.10358e-05	3.90007e-05	1	0
TM9SF4	9777	broad.mit.edu	37	20	30723921	30723921	+	Nonsense_Mutation	SNP	C	G	G			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr20:30723921C>G	uc002wxj.2	+	3	409	c.174C>G	c.(172-174)TAC>TAG	p.Y58*	TM9SF4_uc010ztr.1_5'UTR|TM9SF4_uc010zts.1_5'UTR|TM9SF4_uc002wxk.2_Nonsense_Mutation_p.Y41*	NM_014742	NP_055557	Q92544	TM9S4_HUMAN	transmembrane 9 superfamily protein member 4	58						integral to membrane				central_nervous_system(1)|pancreas(1)	2			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)			CTTATGAATACTATTCACTGC	0.512													13	68					0	0	0	0
GGT7	2686	broad.mit.edu	37	20	33451191	33451191	+	Silent	SNP	G	A	A			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr20:33451191G>A	uc002xay.2	-	2	373	c.330C>T	c.(328-330)ATC>ATT	p.I110I	GGT7_uc002xaz.1_Silent_p.I127I|GGT7_uc002xba.1_Silent_p.I110I	NM_178026	NP_821158	Q9UJ14	GGT7_HUMAN	gamma-glutamyltransferase 7	110	Helical; Signal-anchor for type II membrane protein; (Potential).				glutathione biosynthetic process	integral to membrane	acyltransferase activity|gamma-glutamyltransferase activity			ovary(1)	1						AGGCCGTGACGATGACCGTGA	0.677													9	72					0	0	0	0
RBL1	5933	broad.mit.edu	37	20	35695243	35695243	+	Missense_Mutation	SNP	C	G	G			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr20:35695243C>G	uc002xgi.2	-	6	809	c.730G>C	c.(730-732)GAG>CAG	p.E244Q	RBL1_uc010zvt.1_RNA|RBL1_uc002xgj.1_Missense_Mutation_p.E244Q|RBL1_uc010gfv.1_RNA	NM_002895	NP_002886	P28749	RBL1_HUMAN	retinoblastoma-like protein 1 isoform a	244					cell cycle|chromatin modification|interspecies interaction between organisms|regulation of cell cycle|regulation of lipid kinase activity|transcription, DNA-dependent		transcription factor binding			lung(5)|skin(3)|ovary(2)	10		Myeloproliferative disorder(115;0.00878)				CAGGGTGGCTCTTCAGAAGCC	0.388													6	131					0	0	0	0
PFKL	5211	broad.mit.edu	37	21	45744411	45744411	+	Missense_Mutation	SNP	A	G	G			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr21:45744411A>G	uc002zel.2	+	17	1747	c.1688A>G	c.(1687-1689)AAG>AGG	p.K563R	PFKL_uc002zek.2_Missense_Mutation_p.K610R|PFKL_uc002zem.2_Missense_Mutation_p.K150R|PFKL_uc002zen.2_Missense_Mutation_p.K150R	NM_002626	NP_002617	P17858	K6PL_HUMAN	liver phosphofructokinase	563					fructose 6-phosphate metabolic process|glycolysis|protein oligomerization	6-phosphofructokinase complex	6-phosphofructokinase activity|ATP binding|fructose-6-phosphate binding|identical protein binding|kinase binding|metal ion binding				0				Colorectal(79;0.0811)		TCGGGGACCAAGCGCCGTGTG	0.662													13	51					0	0	0	0
PCNT	5116	broad.mit.edu	37	21	47836599	47836599	+	Missense_Mutation	SNP	C	T	T			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr21:47836599C>T	uc002zji.3	+	30	6874	c.6767C>T	c.(6766-6768)GCC>GTC	p.A2256V	PCNT_uc002zjj.2_Missense_Mutation_p.A2138V	NM_006031	NP_006022	O95613	PCNT_HUMAN	pericentrin	2256					cilium assembly|G2/M transition of mitotic cell cycle	cytosol|microtubule	calmodulin binding			ovary(4)|breast(2)|pancreas(2)	8	Breast(49;0.112)					CTGTGCAGTGCCGACACATCC	0.692													5	53					0	0	0	0
THAP7	80764	broad.mit.edu	37	22	21354371	21354371	+	Missense_Mutation	SNP	C	T	T			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr22:21354371C>T	uc002ztr.1	-	5	758	c.728G>A	c.(727-729)CGA>CAA	p.R243Q	THAP7_uc002zts.1_Missense_Mutation_p.R243Q|FLJ39582_uc002ztt.1_5'Flank|FLJ39582_uc002ztu.1_5'Flank|FLJ39582_uc002ztv.2_5'Flank	NM_001008695	NP_001008695	Q9BT49	THAP7_HUMAN	THAP domain containing 7 isoform 2	243					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nuclear speck	C2H2 zinc finger domain binding|DNA binding|metal ion binding|protein N-terminus binding				0	all_cancers(11;1.83e-25)|all_epithelial(7;9.19e-23)|Lung NSC(8;3.06e-15)|all_lung(8;5.05e-14)|Melanoma(16;0.000465)|Ovarian(15;0.0028)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.195)			TGCCTCGGCTCGCCGCTTCCA	0.662													4	31					0	0	0	0
POLQ	10721	broad.mit.edu	37	3	121206259	121206259	+	Missense_Mutation	SNP	A	T	T			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr3:121206259A>T	uc003eee.3	-	16	5648	c.5519T>A	c.(5518-5520)TTC>TAC	p.F1840Y	POLQ_uc003eed.2_Missense_Mutation_p.F1012Y	NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	1840					DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		CTCCTTAATGAATGTTTGGAA	0.393								DNA_polymerases_(catalytic_subunits)					9	82					0	0	0	0
DHX36	170506	broad.mit.edu	37	3	154027540	154027540	+	Nonsense_Mutation	SNP	G	A	A			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr3:154027540G>A	uc003ezy.3	-	5	796	c.715C>T	c.(715-717)CAA>TAA	p.Q239*	DHX36_uc010hvq.2_Nonsense_Mutation_p.Q239*|DHX36_uc003ezz.3_Nonsense_Mutation_p.Q239*	NM_020865	NP_065916	Q9H2U1	DHX36_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 36	239	Helicase ATP-binding.					cytoplasm|nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			TGAGTAACTTGAGTGGTTTTG	0.338													5	29					0	0	0	0
PIK3CA	5290	broad.mit.edu	37	3	178936091	178936091	+	Missense_Mutation	SNP	G	A	A	rs104886003		TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr3:178936091G>A	uc003fjk.2	+	10	1790	c.1633G>A	c.(1633-1635)GAG>AAG	p.E545K		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	545	PI3K helical.		E -> G (in KERSEB).|E -> A (in cancer).|E -> K (in KERSEB; shows an increase in lipid kinase activity; oncogenic in vivo; occurs in the interface between the PI3K helical domain and the nSH2 (N-terminal SH2) region of the p85 regulatory subunit and may reduce the inhibitory effect of p85; requires interaction with RAS to induce cellular transformation; enhances invadopodia-mediated extracellular matrix degradation and invasion in breast cancer cells).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.E545K(735)|p.E545A(75)|p.E545G(55)|p.E545?(19)|p.E545D(15)|p.E545Q(12)|p.E545V(4)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			TGAAATCACTGAGCAGGAGAA	0.353	E545K(RERFLCSQ1_LUNG)|E545K(KYSE510_OESOPHAGUS)|E545K(NCIH508_LARGE_INTESTINE)|E545K(HCC202_BREAST)|E545K(BFTC909_KIDNEY)|E545K(HCT15_LARGE_INTESTINE)|E545K(NCIH596_LUNG)|E545K(L363_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|E545K(DLD1_LARGE_INTESTINE)|E545K(ESS1_ENDOMETRIUM)|E545K(MDAMB361_BREAST)|E545K(MKN1_STOMACH)|E545K(MCF7_BREAST)|E545K(NCIH460_LUNG)|E545K(TCCSUP_URINARY_TRACT)|E545K(HSC4_UPPER_AERODIGESTIVE_TRACT)|E545K(BC3C_URINARY_TRACT)|E545K(HUH28_BILIARY_TRACT)|E545K(HT1197_URINARY_TRACT)|E545K(TE5_OESOPHAGUS)	57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			7	53					0	0	0	0
PSMD2	5708	broad.mit.edu	37	3	184025484	184025484	+	Silent	SNP	G	A	A			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr3:184025484G>A	uc003fnn.1	+	18	2319	c.2286G>A	c.(2284-2286)GTG>GTA	p.V762V	PSMD2_uc011brj.1_Silent_p.V603V|PSMD2_uc011brk.1_Silent_p.V632V	NM_002808	NP_002799	Q13200	PSMD2_HUMAN	proteasome 26S non-ATPase subunit 2	762					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|regulation of protein catabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome regulatory particle	enzyme regulator activity|protein binding				0	all_cancers(143;1.54e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)		Bortezomib(DB00188)	TCTTCATGGTGCGCTTGGCAC	0.507													7	46					0	0	0	0
SDHAP2	727956	broad.mit.edu	37	3	195400728	195400728	+	Silent	SNP	A	G	G	rs12107841	by1000genomes	TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr3:195400728A>G	uc003fuw.2	+	9	1218	c.24A>G	c.(22-24)CCA>CCG	p.P8P	SDHAP2_uc011btb.1_Missense_Mutation_p.S156G|SDHAP2_uc011btc.1_RNA|SDHAP2_uc003fuv.2_RNA					SubName: Full=cDNA FLJ16373 fis, clone THYMU3000269, highly similar to Succinate dehydrogenase (ubiquinone) flavoprotein subunit, mitochondrial (EC 1.3.5.1);												0						GATTGTGCCCAGCCTGTACGC	0.587													4	47					0	0	0	0
LGI2	55203	broad.mit.edu	37	4	25005706	25005706	+	Silent	SNP	G	A	A			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr4:25005706G>A	uc003grf.2	-	8	1104	c.1005C>T	c.(1003-1005)GAC>GAT	p.D335D		NM_018176	NP_060646	Q8N0V4	LGI2_HUMAN	leucine-rich repeat LGI family, member 2	335	EAR 3.					extracellular region					0		Breast(46;0.173)				ACGTCTCGTCGTCGATCTGAA	0.443													14	81					0	0	0	0
WDFY3	23001	broad.mit.edu	37	4	85701359	85701359	+	Missense_Mutation	SNP	C	A	A			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr4:85701359C>A	uc003hpd.2	-	26	4675	c.4267G>T	c.(4267-4269)GAT>TAT	p.D1423Y		NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	1423						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		CCTTCCACATCAGAGGCCATG	0.507													23	123					3.62473e-10	4.6792e-10	1	0
CENPE	1062	broad.mit.edu	37	4	104082361	104082361	+	Missense_Mutation	SNP	T	A	A			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr4:104082361T>A	uc003hxb.1	-	20	2103	c.2013A>T	c.(2011-2013)TTA>TTT	p.L671F	CENPE_uc003hxc.1_Missense_Mutation_p.L646F	NM_001813	NP_001804	Q02224	CENPE_HUMAN	centromere protein E	671	Potential.				blood coagulation|cell division|kinetochore assembly|microtubule-based movement|mitotic chromosome movement towards spindle pole|mitotic metaphase|mitotic metaphase plate congression|mitotic prometaphase|multicellular organismal development|positive regulation of protein kinase activity	condensed chromosome kinetochore|cytosol|microtubule|nucleus|spindle	ATP binding|kinetochore binding|microtubule motor activity			ovary(5)|breast(4)	9				OV - Ovarian serous cystadenocarcinoma(123;2.95e-08)		GGCTTTGATATAACTGAATAT	0.323													5	32					0	0	0	0
CFI	3426	broad.mit.edu	37	4	110670474	110670474	+	Missense_Mutation	SNP	C	A	A			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr4:110670474C>A	uc003hzr.3	-	10	1256	c.1048G>T	c.(1048-1050)GAC>TAC	p.D350Y	CFI_uc003hzq.2_Missense_Mutation_p.D147Y|CFI_uc011cft.1_Missense_Mutation_p.D358Y|CFI_uc003hzs.3_Missense_Mutation_p.D343Y	NM_000204	NP_000195	P05156	CFAI_HUMAN	complement factor I preproprotein	350	Peptidase S1.				complement activation, classical pathway|innate immune response|proteolysis	extracellular space|membrane	scavenger receptor activity|serine-type endopeptidase activity				0		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000331)		CATGGGAGGTCTCCCTGTAAA	0.458													16	160					6.72482e-11	8.76078e-11	1	0
RASA1	5921	broad.mit.edu	37	5	86658371	86658371	+	Missense_Mutation	SNP	C	G	G			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr5:86658371C>G	uc003kiw.2	+	10	1454	c.1336C>G	c.(1336-1338)CAA>GAA	p.Q446E	RASA1_uc010jav.2_RNA|RASA1_uc003kix.2_Missense_Mutation_p.Q269E|RASA1_uc011ctv.1_Missense_Mutation_p.Q279E|RASA1_uc011ctw.1_Missense_Mutation_p.Q280E|RASA1_uc010jaw.2_Missense_Mutation_p.Q268E	NM_002890	NP_002881	P20936	RASA1_HUMAN	RAS p21 protein activator 1 isoform 1	446					cytokinesis|embryo development|intracellular signal transduction|negative regulation of cell-matrix adhesion|negative regulation of neuron apoptosis|negative regulation of Ras protein signal transduction|positive regulation of anti-apoptosis|regulation of actin filament polymerization|regulation of cell shape|regulation of RNA metabolic process|vasculogenesis	cytosol|intrinsic to internal side of plasma membrane	glycoprotein binding|GTPase binding|potassium channel inhibitor activity|Ras GTPase activator activity|receptor binding			upper_aerodigestive_tract(3)|ovary(1)|lung(1)	5		all_cancers(142;8.25e-07)|Lung NSC(167;0.000185)|all_lung(232;0.000222)|Colorectal(57;0.00542)|Ovarian(174;0.0423)		OV - Ovarian serous cystadenocarcinoma(54;4.72e-41)|Epithelial(54;1.51e-36)|all cancers(79;3.76e-31)		AATTCAGGATCAAGAACAAGT	0.294													6	61					0	0	0	0
PAM	5066	broad.mit.edu	37	5	102296933	102296933	+	Missense_Mutation	SNP	G	C	C			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr5:102296933G>C	uc003knw.2	+	13	1535	c.1162G>C	c.(1162-1164)GGT>CGT	p.G388R	PAM_uc003kns.2_Missense_Mutation_p.D388H|PAM_uc003knt.2_Missense_Mutation_p.G388R|PAM_uc003knu.2_Missense_Mutation_p.G388R|PAM_uc003knv.2_Missense_Mutation_p.G388R|PAM_uc011cuz.1_Missense_Mutation_p.G291R|PAM_uc003knx.1_Missense_Mutation_p.A80P	NM_000919	NP_000910	P19021	AMD_HUMAN	peptidylglycine alpha-amidating monooxygenase	388	Peptidylglycine alpha-hydroxylating monooxygenase (By similarity).|Intragranular (Potential).				peptide metabolic process|protein modification process	extracellular region|integral to membrane|stored secretory granule	L-ascorbic acid binding|peptidylamidoglycolate lyase activity|peptidylglycine monooxygenase activity|protein binding				0		all_cancers(142;3.12e-07)|all_epithelial(76;3.48e-10)|Prostate(80;0.00914)|Lung NSC(167;0.0213)|Ovarian(225;0.024)|Colorectal(57;0.0251)|all_lung(232;0.0284)		Epithelial(69;1.1e-13)|COAD - Colon adenocarcinoma(37;0.0127)	Vitamin C(DB00126)	GTTAGACCAGGGTATGTATGC	0.333													4	59					0	0	0	0
RBM27	54439	broad.mit.edu	37	5	145651234	145651234	+	Silent	SNP	C	T	T			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr5:145651234C>T	uc003lnz.3	+	19	3151	c.2985C>T	c.(2983-2985)TTC>TTT	p.F995F		NM_018989	NP_061862	Q9P2N5	RBM27_HUMAN	RNA binding motif protein 27	995					mRNA processing	cytoplasm|nuclear speck	nucleotide binding|RNA binding|zinc ion binding			central_nervous_system(2)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TTCAGCATTTCTCAGTAAGTT	0.383													5	32					0	0	0	0
HLA-A	3105	broad.mit.edu	37	6	29910607	29910607	+	Silent	SNP	G	C	C	rs72555397		TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr6:29910607G>C	uc003nol.2	+	2	147	c.147G>C	c.(145-147)GTG>GTC	p.V49V	HLA-G_uc011dmb.1_Intron|HCG4P6_uc003nog.1_Intron|HLA-A_uc010jrq.2_5'UTR|HLA-A_uc003nok.2_5'UTR|HLA-A_uc003non.2_Silent_p.V49V|HLA-A_uc003noo.2_Silent_p.V49V|HLA-A_uc010jrr.2_Silent_p.V49V|HLA-A_uc003nom.2_5'UTR|HLA-A_uc010klp.2_Silent_p.V21V|HLA-A_uc011dmc.1_5'UTR|HLA-A_uc011dmd.1_5'Flank	NM_002116	NP_002107	P30443	1A01_HUMAN	major histocompatibility complex, class I, A	49	Extracellular (Potential).|Alpha-1.				antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|regulation of immune response|type I interferon-mediated signaling pathway	integral to plasma membrane|MHC class I protein complex	MHC class I receptor activity			upper_aerodigestive_tract(1)|ovary(1)	2						TCATCGCCGTGGGCTACGTGG	0.692									Melanoma_Familial_Clustering_of|Lichen_Sclerosis_et_Atrophicus_Familial_Clustering_of|Osteosarcoma_Familial_Clustering_of|Naso-/Oropharyngeal/Laryngeal_Cancer_Familial_Clustering_of	Multiple Myeloma(9;0.094)			3	24					0	0	0	0
VPS52	6293	broad.mit.edu	37	6	33237326	33237326	+	Missense_Mutation	SNP	C	G	G			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr6:33237326C>G	uc003odm.1	-	5	523	c.313G>C	c.(313-315)GAG>CAG	p.E105Q	VPS52_uc003odn.1_5'UTR|VPS52_uc003odo.1_Missense_Mutation_p.E30Q|VPS52_uc011dqy.1_5'UTR|VPS52_uc011dqz.1_5'UTR|RPS18_uc003odp.1_5'Flank|RPS18_uc010jum.1_5'Flank	NM_022553	NP_072047	Q8N1B4	VPS52_HUMAN	vacuolar protein sorting 52	105					protein transport	endosome membrane|Golgi apparatus				ovary(4)|skin(1)	5						TTCTCACTCTCTTGAATATCT	0.428													6	88					0	0	0	0
TTBK1	84630	broad.mit.edu	37	6	43220516	43220516	+	Missense_Mutation	SNP	G	A	A			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr6:43220516G>A	uc003ouq.1	+	3	427	c.148G>A	c.(148-150)GAG>AAG	p.E50K		NM_032538	NP_115927	Q5TCY1	TTBK1_HUMAN	tau tubulin kinase 1	50	Protein kinase.					cell junction|cytoplasm|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			lung(4)|ovary(2)|skin(2)|upper_aerodigestive_tract(1)	9			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0125)|OV - Ovarian serous cystadenocarcinoma(102;0.0399)			TGAGATCTACGAGGCCATGGA	0.592													7	77					0	0	0	0
HSP90AB1	3326	broad.mit.edu	37	6	44217204	44217204	+	Nonsense_Mutation	SNP	C	T	T			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr6:44217204C>T	uc003oxa.1	+	3	322	c.238C>T	c.(238-240)CAG>TAG	p.Q80*	HSP90AB1_uc011dvr.1_Nonsense_Mutation_p.Q80*|HSP90AB1_uc003oxb.1_Nonsense_Mutation_p.Q80*|HSP90AB1_uc011dvs.1_5'UTR|HSP90AB1_uc003oxc.1_5'Flank	NM_007355	NP_031381	P08238	HS90B_HUMAN	heat shock 90kDa protein 1, beta	80					axon guidance|negative regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of nitric oxide biosynthetic process|protein folding|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|response to unfolded protein	cytosol|melanosome	ATP binding|nitric-oxide synthase regulator activity|TPR domain binding|unfolded protein binding			lung(3)|breast(1)	4	all_cancers(18;1.7e-05)|all_lung(25;0.00747)|Hepatocellular(11;0.00908)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			CCCCAACCCTCAGGAACGTAC	0.458													11	70					0	0	0	0
HSP90AB1	3326	broad.mit.edu	37	6	44221083	44221083	+	Missense_Mutation	SNP	A	T	T			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr6:44221083A>T	uc003oxa.1	+	11	2117	c.2033A>T	c.(2032-2034)AAC>ATC	p.N678I	HSP90AB1_uc011dvr.1_Missense_Mutation_p.N668I|HSP90AB1_uc003oxb.1_Missense_Mutation_p.N678I|HSP90AB1_uc011dvs.1_Missense_Mutation_p.N498I|HSP90AB1_uc003oxc.1_Missense_Mutation_p.N316I	NM_007355	NP_031381	P08238	HS90B_HUMAN	heat shock 90kDa protein 1, beta	678					axon guidance|negative regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of nitric oxide biosynthetic process|protein folding|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|response to unfolded protein	cytosol|melanosome	ATP binding|nitric-oxide synthase regulator activity|TPR domain binding|unfolded protein binding			lung(3)|breast(1)	4	all_cancers(18;1.7e-05)|all_lung(25;0.00747)|Hepatocellular(11;0.00908)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			ACCCACTCCAACCGCATCTAT	0.488													37	331					0	0	0	0
EYS	346007	broad.mit.edu	37	6	66044987	66044987	+	Missense_Mutation	SNP	C	T	T			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr6:66044987C>T	uc011dxu.1	-	11	2190	c.1652G>A	c.(1651-1653)CGG>CAG	p.R551Q	EYS_uc003peq.2_Missense_Mutation_p.R551Q|EYS_uc003per.1_Missense_Mutation_p.R551Q	NM_001142800	NP_001136272	Q5T1H1	EYS_HUMAN	eyes shut homolog isoform 1	551			R -> L.		response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6						ACATAGATACCGATATTCCTG	0.358													9	47					0	0	0	0
FILIP1	27145	broad.mit.edu	37	6	76022996	76022996	+	Missense_Mutation	SNP	G	A	A			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr6:76022996G>A	uc003pia.2	-	5	2925	c.2552C>T	c.(2551-2553)TCT>TTT	p.S851F	FILIP1_uc003phy.1_Missense_Mutation_p.S851F|FILIP1_uc003phz.2_Missense_Mutation_p.S752F|FILIP1_uc010kbe.2_Missense_Mutation_p.S854F|FILIP1_uc003pib.1_Missense_Mutation_p.S603F	NM_015687	NP_056502	Q7Z7B0	FLIP1_HUMAN	filamin A interacting protein 1	851										skin(3)|ovary(1)	4						GTCTAGAACAGAAGATCTTTC	0.453													9	214					0	0	0	0
THSD7A	221981	broad.mit.edu	37	7	11676026	11676026	+	Silent	SNP	G	C	C			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr7:11676026G>C	uc003ssf.3	-	2	1005	c.753C>G	c.(751-753)CTC>CTG	p.L251L		NM_015204	NP_056019	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A	251	Extracellular (Potential).					integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		GGCTGTACCTGAGCTCCTCGG	0.607										HNSCC(18;0.044)			15	54					0	0	0	0
DNAH11	8701	broad.mit.edu	37	7	21721264	21721264	+	Missense_Mutation	SNP	G	A	A			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr7:21721264G>A	uc003svc.2	+	31	5475	c.5444G>A	c.(5443-5445)AGA>AAA	p.R1815K		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	1815	Stem (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						GTCCATGCCAGAGACGTGGTG	0.388									Kartagener_syndrome				11	118					0	0	0	0
MRPS33	51650	broad.mit.edu	37	7	140710224	140710224	+	Silent	SNP	G	C	C			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr7:140710224G>C	uc003vwd.3	-	2	366	c.210C>G	c.(208-210)CTC>CTG	p.L70L	MRPS33_uc003vwe.3_Silent_p.L70L	NM_016071	NP_057155	Q9Y291	RT33_HUMAN	mitochondrial ribosomal protein S33	70					translation	mitochondrial small ribosomal subunit	structural constituent of ribosome				0	Melanoma(164;0.00956)					ATCACCTGTAGAGTCCAAGAA	0.408													13	85					0	0	0	0
RPL23AP53	644128	broad.mit.edu	37	8	163187	163187	+	RNA	SNP	T	C	C	rs143599805	by1000genomes	TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr8:163187T>C	uc010lra.2	-	4		c.946A>G			RPL23AP53_uc003woq.3_RNA|RPL23AP53_uc010lrb.2_RNA	NR_003572				Homo sapiens cDNA FLJ45055 fis, clone BRAWH3022900.												0						TGAAAAACATTATTCTTTTAT	0.209													3	25					0	0	0	0
RPL23AP53	644128	broad.mit.edu	37	8	163215	163215	+	RNA	SNP	G	A	A			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr8:163215G>A	uc010lra.2	-	4		c.918C>T			RPL23AP53_uc003woq.3_RNA|RPL23AP53_uc010lrb.2_RNA	NR_003572				Homo sapiens cDNA FLJ45055 fis, clone BRAWH3022900.												0						AGATACACATGTATTTAGAGT	0.274													4	43					0	0	0	0
PRKDC	5591	broad.mit.edu	37	8	48815268	48815268	+	Missense_Mutation	SNP	T	C	C	rs67228297		TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr8:48815268T>C	uc003xqi.2	-	27	3187	c.3130A>G	c.(3130-3132)ATA>GTA	p.I1044V	PRKDC_uc003xqj.2_Missense_Mutation_p.I1044V|PRKDC_uc011ldh.1_Missense_Mutation_p.I1044V	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	1044					cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				TGTGGTGTTATTTGCTTAATG	0.433								NHEJ					3	52					0	0	0	0
PHF20L1	51105	broad.mit.edu	37	8	133823320	133823320	+	Missense_Mutation	SNP	G	C	C			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr8:133823320G>C	uc003ytt.2	+	9	1202	c.877G>C	c.(877-879)GAT>CAT	p.D293H	PHF20L1_uc003ytr.2_Missense_Mutation_p.D267H|PHF20L1_uc010mdv.2_Missense_Mutation_p.D267H|PHF20L1_uc003yts.2_Missense_Mutation_p.D293H|PHF20L1_uc011lja.1_Missense_Mutation_p.D267H|PHF20L1_uc003ytu.1_RNA|PHF20L1_uc003ytv.2_Missense_Mutation_p.D132H	NM_016018	NP_057102	A8MW92	P20L1_HUMAN	PHD finger protein 20-like 1 isoform 1	293							nucleic acid binding|zinc ion binding			ovary(2)	2	all_neural(3;2.72e-06)|Medulloblastoma(3;7.08e-05)|Ovarian(258;0.00438)|Esophageal squamous(12;0.00507)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;4.46e-05)			TGTTGGGGTTGATGGTGCTGA	0.363													29	88					0	0	0	0
UBAP2	55833	broad.mit.edu	37	9	33932597	33932597	+	Missense_Mutation	SNP	G	C	C			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr9:33932597G>C	uc003ztq.1	-	19	2251	c.2138C>G	c.(2137-2139)TCT>TGT	p.S713C	UBAP2_uc011loc.1_Missense_Mutation_p.S622C|UBAP2_uc011lod.1_Missense_Mutation_p.S446C|UBAP2_uc011loe.1_Missense_Mutation_p.S468C|UBAP2_uc011lof.1_Missense_Mutation_p.S638C|UBAP2_uc011log.1_Intron|UBAP2_uc003zto.1_5'UTR|UBAP2_uc003ztp.1_5'UTR|SNORD121B_uc011loh.1_5'Flank	NM_018449	NP_060919	Q5T6F2	UBAP2_HUMAN	ubiquitin associated protein 2	713										ovary(3)	3			LUSC - Lung squamous cell carcinoma(29;0.00575)	GBM - Glioblastoma multiforme(74;0.168)		TGCATGTGCAGAGAGGCTGCT	0.567													3	30					0	0	0	0
CCIN	881	broad.mit.edu	37	9	36170053	36170053	+	Missense_Mutation	SNP	G	A	A	rs142822017		TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr9:36170053G>A	uc003zzb.3	+	1	665	c.554G>A	c.(553-555)CGT>CAT	p.R185H		NM_005893	NP_005884	Q13939	CALI_HUMAN	calicin	185	BACK.				cell differentiation|multicellular organismal development|spermatogenesis	cytoskeletal calyx	structural constituent of cytoskeleton			ovary(1)|skin(1)	2			STAD - Stomach adenocarcinoma(86;0.228)			CGCCTGCTCCGTGATGAAAAC	0.537													7	45					0	0	0	0
FAM120AOS	158293	broad.mit.edu	37	9	96214605	96214605	+	Missense_Mutation	SNP	C	G	G			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr9:96214605C>G	uc004atu.3	-	1	1270	c.387G>C	c.(385-387)CAG>CAC	p.Q129H	FAM120AOS_uc004atm.2_5'Flank|FAM120AOS_uc004atn.3_5'Flank|FAM120AOS_uc004ato.3_5'Flank|FAM120AOS_uc004atp.3_5'Flank|FAM120AOS_uc004atq.3_5'Flank|FAM120AOS_uc004atr.3_5'Flank|FAM120AOS_uc004ats.3_Intron|FAM120AOS_uc004att.3_Intron|FAM120A_uc004atv.2_Silent_p.V136V|FAM120A_uc004atw.2_Silent_p.V136V	NM_198841	NP_942138	Q5T036	F120S_HUMAN	hypothetical protein LOC158293	129											0						CGCCAAAGGTCTGGTTCCTGC	0.607													4	29					0	0	0	0
COL15A1	1306	broad.mit.edu	37	9	101748163	101748163	+	Silent	SNP	G	A	A			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr9:101748163G>A	uc004azb.1	+	3	623	c.417G>A	c.(415-417)ACG>ACA	p.T139T	COL15A1_uc004aza.2_Silent_p.T139T	NM_001855	NP_001846	P39059	COFA1_HUMAN	alpha 1 type XV collagen precursor	139	TSP N-terminal.				angiogenesis|cell differentiation|signal transduction	collagen type XV|extracellular space|integral to membrane	binding			ovary(6)	6		Acute lymphoblastic leukemia(62;0.0562)				TCTACTACACGGAGCCAGGCT	0.607													29	87					0	0	0	0
SMC2	10592	broad.mit.edu	37	9	106896745	106896745	+	Missense_Mutation	SNP	A	G	G			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr9:106896745A>G	uc004bbv.2	+	23	3446	c.3158A>G	c.(3157-3159)AAT>AGT	p.N1053S	SMC2_uc004bbw.2_Missense_Mutation_p.N1053S|SMC2_uc011lvl.1_Missense_Mutation_p.N1053S|SMC2_uc004bbx.2_Missense_Mutation_p.N1053S|SMC2_uc004bby.2_RNA	NM_001042551	NP_001036016	O95347	SMC2_HUMAN	structural maintenance of chromosomes 2	1053					cell division|mitotic chromosome condensation|symbiosis, encompassing mutualism through parasitism	condensin complex|cytoplasm|nuclear chromosome	ATP binding|protein heterodimerization activity			ovary(4)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|lung(1)|breast(1)	9						CCTGGTGCTAATGCTATGCTT	0.393													5	54					0	0	0	0
DAB2IP	153090	broad.mit.edu	37	9	124522377	124522377	+	Missense_Mutation	SNP	C	T	T			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr9:124522377C>T	uc004bln.2	+	6	814	c.745C>T	c.(745-747)CGG>TGG	p.R249W	DAB2IP_uc004blo.2_Missense_Mutation_p.R153W	NM_032552	NP_115941	Q5VWQ8	DAB2P_HUMAN	disabled homolog 2 interacting protein isoform	277	C2.				activation of JUN kinase activity|apoptosis in response to endoplasmic reticulum stress|cellular response to epidermal growth factor stimulus|cellular response to tumor necrosis factor|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of epithelial cell migration|negative regulation of epithelial cell proliferation|negative regulation of epithelial to mesenchymal transition|negative regulation of fibroblast proliferation|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of MAP kinase activity|negative regulation of NF-kappaB transcription factor activity|negative regulation of Ras GTPase activity|negative regulation of transcription from RNA polymerase II promoter|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|intrinsic to internal side of plasma membrane	14-3-3 protein binding|death receptor binding|mitogen-activated protein kinase kinase kinase binding|protein homodimerization activity|protein phosphatase 2A binding|Ras GTPase activator activity|signaling adaptor activity			ovary(1)|central_nervous_system(1)	2						CCACCTGTACCGGGAGACCGA	0.612													12	80					0	0	0	0
NOTCH1	4851	broad.mit.edu	37	9	139413084	139413084	+	Missense_Mutation	SNP	C	T	T			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr9:139413084C>T	uc004chz.2	-	6	1058	c.1058G>A	c.(1057-1059)CGT>CAT	p.R353H		NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	353	Extracellular (Potential).|EGF-like 9; calcium-binding (Potential).				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity	p.R353H(2)		haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		GGAGGCCACACGGTCATGGCA	0.647			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			5	15					0	0	0	0
DMD	1756	broad.mit.edu	37	X	31792157	31792157	+	Silent	SNP	G	A	A			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chrX:31792157G>A	uc004dda.1	-	51	7706	c.7462C>T	c.(7462-7464)CTG>TTG	p.L2488L	DMD_uc004dcr.1_Silent_p.L28L|DMD_uc004dcs.1_Silent_p.L28L|DMD_uc004dct.1_Silent_p.L28L|DMD_uc004dcu.1_Silent_p.L28L|DMD_uc004dcv.1_Silent_p.L28L|DMD_uc004dcw.2_Silent_p.L1144L|DMD_uc004dcx.2_Silent_p.L1147L|DMD_uc004dcz.2_Silent_p.L2365L|DMD_uc004dcy.1_Silent_p.L2484L|DMD_uc004ddb.1_Silent_p.L2480L|DMD_uc004ddd.1_Silent_p.L28L	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	2488	Spectrin 17.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				TGATCAAGCAGAGAAAGCCAG	0.438													10	81					0	0	0	0
WNK3	65267	broad.mit.edu	37	X	54324751	54324751	+	Missense_Mutation	SNP	C	G	G			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chrX:54324751C>G	uc004dtd.1	-	7	1694	c.1255G>C	c.(1255-1257)GAT>CAT	p.D419H	WNK3_uc004dtc.1_Missense_Mutation_p.D419H	NM_001002838	NP_001002838	Q9BYP7	WNK3_HUMAN	WNK lysine deficient protein kinase 3 isoform 2	419					intracellular protein kinase cascade|positive regulation of establishment of protein localization in plasma membrane|positive regulation of peptidyl-threonine phosphorylation|positive regulation of rubidium ion transmembrane transporter activity|positive regulation of rubidium ion transport|positive regulation of sodium ion transmembrane transporter activity|positive regulation of sodium ion transport|protein autophosphorylation	adherens junction|tight junction	ATP binding|protein binding|protein serine/threonine kinase activity|rubidium ion transmembrane transporter activity|sodium ion transmembrane transporter activity			lung(4)|ovary(3)|kidney(2)|central_nervous_system(2)	11						GAGCAATCATCTTCTTCTGCT	0.363													6	48					0	0	0	0
AVPR2	554	broad.mit.edu	37	X	153172115	153172115	+	Missense_Mutation	SNP	G	C	C			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chrX:153172115G>C	uc004fjh.3	+	3	1120	c.1049G>C	c.(1048-1050)AGC>ACC	p.S350T	AVPR2_uc004fjg.3_Missense_Mutation_p.S139T|AVPR2_uc004fji.2_3'UTR	NM_000054	NP_000045	P30518	V2R_HUMAN	arginine vasopressin receptor 2 isoform 1	350	Cytoplasmic (Potential).				activation of adenylate cyclase activity|excretion|G-protein signaling, coupled to cAMP nucleotide second messenger|hemostasis|positive regulation of gene expression|transmembrane transport|water transport	endoplasmic reticulum|endosome|Golgi apparatus|integral to plasma membrane	vasopressin receptor activity			breast(1)	1	all_cancers(53;6.72e-15)|all_epithelial(53;3.19e-09)|all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)				Conivaptan(DB00872)|Terlipressin(DB02638)|Vasopressin(DB00067)	ACCCCACCCAGCCTGGGTCCC	0.607													5	86					0	0	0	0
HCFC1	3054	broad.mit.edu	37	X	153218117	153218117	+	Missense_Mutation	SNP	G	A	A			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chrX:153218117G>A	uc004fjp.2	-	19	5318	c.4790C>T	c.(4789-4791)GCT>GTT	p.A1597V		NM_005334	NP_005325	P51610	HCFC1_HUMAN	host cell factor 1	1597					cell cycle|interspecies interaction between organisms|positive regulation of cell cycle|positive regulation of gene expression|protein stabilization|reactivation of latent virus|regulation of protein complex assembly|transcription from RNA polymerase II promoter	mitochondrion|MLL1 complex|MLL5-L complex|Set1C/COMPASS complex	chromatin binding|identical protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(2)	2	all_cancers(53;6.23e-16)|all_epithelial(53;5.61e-10)|all_lung(58;3.99e-07)|Lung NSC(58;5.02e-07)|all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GGTGGTGCCAGCTTGGGCCTC	0.652													4	61					0	0	0	0
Unknown	0	broad.mit.edu	37	1	148855815	148855816	+	IGR	INS	-	G	G			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr1:148855815_148855816insG								NBPF16 (97504 upstream) : LOC645166 (72470 downstream)																							gccgcggcggcgggggggcggg	0.381													---	---	---							
Unknown	0	broad.mit.edu	37	1	235011949	235011951	+	IGR	DEL	CTG	-	-			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr1:235011949_235011951delCTG								IRF2BP2 (266678 upstream) : TOMM20 (260709 downstream)																							AGGGCCTAATCTGCTGCTGCTGC	0.680													---	---	---							
Unknown	0	broad.mit.edu	37	10	42672240	42672241	+	IGR	INS	-	TAAG	TAAG	rs71529068		TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr10:42672240_42672241insTAAG								None (None upstream) : LOC441666 (155074 downstream)																							TGGCACATATTTTTGTTACCTC	0.366													---	---	---							
Unknown	0	broad.mit.edu	37	15	22691998	22691999	+	IGR	INS	-	T	T			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr15:22691998_22691999insT								MIR1268 (178718 upstream) : GOLGA8DP (10286 downstream)																							CTTTGTACAGGACAGAAAGCAC	0.520													---	---	---							
ITGAX	3687	broad.mit.edu	37	16	31373519	31373520	+	Frame_Shift_Ins	INS	-	A	A			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr16:31373519_31373520insA	uc002ebu.1	+	11	1277_1278	c.1210_1211insA	c.(1210-1212)TACfs	p.Y404fs	ITGAX_uc002ebt.2_Frame_Shift_Ins_p.Y404fs|ITGAX_uc010vfk.1_Frame_Shift_Ins_p.Y54fs	NM_000887	NP_000878	P20702	ITAX_HUMAN	integrin alpha X precursor	404	FG-GAP 4.|Extracellular (Potential).				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration|organ morphogenesis	integrin complex	protein binding|receptor activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						GAGGGACTCTTACCTGGGTGAG	0.599													---	---	---							
SLC30A3	7781	broad.mit.edu	37	2	27480185	27480186	+	Frame_Shift_Ins	INS	-	G	G	rs148758588		TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr2:27480185_27480186insG	uc002rjk.2	-	5	799_800	c.613_614insC	c.(613-615)CACfs	p.H205fs	SLC30A3_uc002rjj.2_Frame_Shift_Ins_p.P50fs|SLC30A3_uc010ylh.1_Frame_Shift_Ins_p.H200fs	NM_003459	NP_003450	Q99726	ZNT3_HUMAN	solute carrier family 30 (zinc transporter),	205	Cytoplasmic (Potential).				regulation of sequestering of zinc ion	cell junction|integral to plasma membrane|late endosome|membrane fraction|synaptic vesicle membrane	zinc transporting ATPase activity				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CCCGTGGCTGTGGGGGGGCCCA	0.658													---	---	---							
Unknown	0	broad.mit.edu	37	2	130893080	130893081	+	IGR	INS	-	A	A			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr2:130893080_130893081insA								POTEF (6285 upstream) : CCDC74B (3781 downstream)																							gactccatctcaaaaaaaaaaa	0.257													---	---	---							
ABHD10	55347	broad.mit.edu	37	3	111710339	111710340	+	Frame_Shift_Ins	INS	-	A	A			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr3:111710339_111710340insA	uc003dyk.3	+	5	773_774	c.692_693insA	c.(691-693)TTAfs	p.L231fs	ABHD10_uc011bhq.1_Frame_Shift_Ins_p.L74fs	NM_018394	NP_060864	Q9NUJ1	ABHDA_HUMAN	abhydrolase domain containing 10 precursor	231						mitochondrion	serine-type peptidase activity				0						CACTGCTTGTTACATAGCCCAA	0.431													---	---	---							
Unknown	0	broad.mit.edu	37	4	122999481	122999482	+	IGR	INS	-	T	T	rs62321942		TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr4:122999481_122999482insT								TRPC3 (126572 upstream) : KIAA1109 (92276 downstream)																							GATAAAAGGTATTTaaaaaaaa	0.436													---	---	---							
Unknown	0	broad.mit.edu	37	7	1458997	1458997	+	IGR	DEL	T	-	-			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr7:1458997delT								UNCX (182385 upstream) : MICALL2 (14999 downstream)																							ctcctcgccctcctcctcctc	0.532													---	---	---							
Unknown	0	broad.mit.edu	37	7	63033298	63033299	+	IGR	INS	-	GCT	GCT			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr7:63033298_63033299insGCT								LOC100287704 (221147 upstream) : ZNF727 (472522 downstream)																							GTCTCCGAgccgctgctgctgc	0.579													---	---	---							
Unknown	0	broad.mit.edu	37	8	68734110	68734112	+	IGR	DEL	CCA	-	-			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr8:68734110_68734112delCCA								CPA6 (75490 upstream) : PREX2 (130236 downstream)																							gttgtagtctccaccaccaccac	0.113													---	---	---							
Unknown	0	broad.mit.edu	37	8	70856283	70856284	+	IGR	INS	-	A	A			TCGA-CQ-6219-01A-11D-1912-08	TCGA-CQ-6219-10A-01D-1912-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6263b94-0ffe-40e7-9184-deb427c67802	266b5bc3-c9cf-433b-9ddd-eb2da0dcabfd	g.chr8:70856283_70856284insA								SLCO5A1 (108984 upstream) : PRDM14 (107741 downstream)																							gactccatctcaaaaaaaaaaa	0.149													---	---	---							
