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	Genome_Change	Annotation_Transcript	Transcript_Strand	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	i_TCGAscape_Amplification_Peaks	i_TCGAscape_Deletion_Peaks	DrugBank	i_ACHILLES_Top_Genes	i_CCLE_ONCOMAP_overlapping_mutations	i_CCLE_ONCOMAP_total_mutations_in_gene	i_CCLE_SEQ_overlapping_mutations	i_CCLE_SEQ_total_mutations_in_gene	MUTSIG_Significant_Genes	OREGANNO_ID	OREGANNO_Values	i_tumor_f	i_init_t_lod	i_t_lod_fstar	i_t_alt_count	i_t_ref_count	i_normal_best_gt	i_failure_reasons	i_judgement	validation_status	validation_method	validation_tumor_sample	validation_alt_allele	dataset	TCGAscape_Amplification_Peaks	TCGAscape_Deletion_Peaks	type	classification	start	end	gene	chr	ref_allele	tum_allele1	tum_allele2	context_orig	context65	gene_name	newbase	categ	categ_ignoring_null_categ
ANKRD26	22852	broad.mit.edu	36	10	27390082	27390082	+	Missense_Mutation	SNP	T	C	C			TCGA-02-2483-01	TCGA-02-2483-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr10:27390082T>C	uc009xku.1	-	c.1459A>G	c.(1459-1461)ATG>GTG	p.M487V	ANKRD26_uc001itg.2_Intron|ANKRD26_uc001ith.2_Missense_Mutation_p.M487V	NM_014915	NP_055730	Q9UPS8	ANR26_HUMAN	ankyrin repeat domain 26	487										large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|skin(1)	4														0.381295	333.879248	337.315872	106	172	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	27390082	27390082	659	10	T	C	C	51	51	ANKRD26	C	4	4
MPP7	143098	broad.mit.edu	36	10	28449259	28449260	+	Missense_Mutation	DNP	CA	AG	AG			TCGA-02-2483-01	TCGA-02-2483-01										Phase_I	Unspecified				Illumina GAIIx	g.chr10:28449259_28449260CA>AG	uc001iua.1	-	c.756_757TG>CT	c.(754-759)GCTGGG>GCCTGG	p.G253W	MPP7_uc009xkz.1_Non-coding_Transcript|MPP7_uc001iub.1_Missense_Mutation_p.G253W|MPP7_uc009xla.1_Missense_Mutation_p.G253W	NM_173496	NP_775767	Q5T2T1	MPP7_HUMAN	palmitoylated membrane protein 7	253	SH3.				establishment of cell polarity|positive regulation of protein complex assembly|protein localization to adherens junction|tight junction assembly	MPP7-DLG1-LIN7 complex|tight junction	protein complex scaffold|protein domain specific binding|protein heterodimerization activity|signaling adaptor activity			ovary(1)	1														0.234177	94.998077	105.211864	37	121	CC		KEEP	---	---	---	---	capture			Missense_Mutation	DNP	28449259	28449260	10131	10	CA	AG	AG	21	21	MPP7	AG	3	3
BICC1	80114	broad.mit.edu	36	10	60223298	60223298	+	Missense_Mutation	SNP	G	A	A			TCGA-02-2483-01	TCGA-02-2483-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr10:60223298G>A	uc001jki.1	+	c.1096G>A	c.(1096-1098)GTA>ATA	p.V366I	BICC1_uc001jkj.1_Missense_Mutation_p.V7I	NM_001080512	NP_001073981	Q9H694	BICC1_HUMAN	bicaudal C homolog 1	366					multicellular organismal development		RNA binding			ovary(2)|lung(1)	3														0.138298	22.307992	34.200336	13	81	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	60223298	60223298	1452	10	G	A	A	36	36	BICC1	A	2	2
TMEM133	83935	broad.mit.edu	36	11	100368591	100368591	+	Silent	SNP	G	T	T			TCGA-02-2483-01	TCGA-02-2483-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr11:100368591G>T	uc001pgf.1	+	c.342G>T	c.(340-342)GTG>GTT	p.V114V		NM_032021	NP_114410	Q9H2Q1	TM133_HUMAN	transmembrane protein 133	114	Helical; (Potential).					integral to membrane					0		Acute lymphoblastic leukemia(157;0.000869)|all_hematologic(158;0.014)												0.310231	267.543551	277.260533	94	209	GG		KEEP	---	---	---	---	capture		BRCA - Breast invasive adenocarcinoma(274;0.0675)	Silent	SNP	100368591	100368591	16581	11	G	T	T	46	46	TMEM133	T	3	3
MUC5B	727897	broad.mit.edu	36	11	1214963	1214963	+	Missense_Mutation	SNP	G	A	A			TCGA-02-2483-01	TCGA-02-2483-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr11:1214963G>A	uc001ltb.2	+	c.3299G>A	c.(3298-3300)CGC>CAC	p.R1100H	MUC5B_uc009yct.1_Missense_Mutation_p.R1097H	NM_002458	NP_002449	Q9HC84	MUC5B_HUMAN	mucin 5, subtype B, tracheobronchial	1097	VWFD 3.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)												0.333333	8.223845	8.444329	3	6	GG		KEEP	---	---	---	---	capture		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)	Missense_Mutation	SNP	1214963	1214963	10373	11	G	A	A	38	38	MUC5B	A	1	1
OR5L1	219437	broad.mit.edu	36	11	55336335	55336335	+	Missense_Mutation	SNP	G	T	T			TCGA-02-2483-01	TCGA-02-2483-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr11:55336335G>T	uc001nhw.1	+	c.817G>T	c.(817-819)GTG>TTG	p.V273L		NM_001004738	NP_001004738	Q8NGL2	OR5L1_HUMAN	olfactory receptor, family 5, subfamily L,	273	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		all_epithelial(135;0.208)												0.339623	106.692266	109.090718	36	70	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	55336335	55336335	11580	11	G	T	T	36	36	OR5L1	T	3	3
IGHMBP2	3508	broad.mit.edu	36	11	68460668	68460668	+	Missense_Mutation	SNP	G	A	A			TCGA-02-2483-01	TCGA-02-2483-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr11:68460668G>A	uc001ook.1	+	c.2144G>A	c.(2143-2145)GGC>GAC	p.G715D	IGHMBP2_uc001ool.1_Missense_Mutation_p.G339D|IGHMBP2_uc001oom.1_Missense_Mutation_p.G293D	NM_002180	NP_002171	P38935	SMBP2_HUMAN	immunoglobulin mu binding protein 2	715	SS DNA-binding (By similarity).				cell death|DNA recombination|DNA repair|DNA replication|protein homooligomerization|transcription, DNA-dependent|translation	axon|growth cone|nucleus|ribonucleoprotein complex	ATP binding|ATP-dependent 5'-3' DNA helicase activity|ATP-dependent 5'-3' RNA helicase activity|ribosome binding|single-stranded DNA binding|transcription factor binding|tRNA binding|zinc ion binding				0														0.351852	52.413597	53.456703	19	35	GG		KEEP	---	---	---	---	capture	STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)		Missense_Mutation	SNP	68460668	68460668	7892	11	G	A	A	42	42	IGHMBP2	A	2	2
TAS2R9	50835	broad.mit.edu	36	12	10853852	10853852	+	Silent	SNP	A	T	T			TCGA-02-2483-01	TCGA-02-2483-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr12:10853852A>T	uc001qyx.1	-	c.90T>A	c.(88-90)GTT>GTA	p.V30V		NM_023917	NP_076406	Q9NYW1	TA2R9_HUMAN	taste receptor, type 2, member 9	30	Helical; Name=1; (Potential).				sensory perception of taste	integral to membrane	taste receptor activity				0														0.45339	321.598618	322.044577	107	129	AA		KEEP	---	---	---	---	capture			Silent	SNP	10853852	10853852	16110	12	A	T	T	13	13	TAS2R9	T	4	4
BIN2	51411	broad.mit.edu	36	12	49971810	49971810	+	Silent	SNP	C	T	T			TCGA-02-2483-01	TCGA-02-2483-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr12:49971810C>T	uc001ryg.1	-	c.1347G>A	c.(1345-1347)AGG>AGA	p.R449R	BIN2_uc009zlz.1_Silent_p.R417R|BIN2_uc001ryh.1_Silent_p.R325R	NM_016293	NP_057377	Q9UBW5	BIN2_HUMAN	bridging integrator 2	449	Pro-rich.					cytoplasm	protein binding			ovary(1)	1														0.318182	119.784905	123.674352	42	90	CC		KEEP	---	---	---	---	capture			Silent	SNP	49971810	49971810	1458	12	C	T	T	22	22	BIN2	T	2	2
ATP11A	23250	broad.mit.edu	36	13	112558351	112558351	+	Missense_Mutation	SNP	G	A	A			TCGA-02-2483-01	TCGA-02-2483-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr13:112558351G>A	uc001vsj.2	+	c.2369G>A	c.(2368-2370)AGC>AAC	p.S790N	ATP11A_uc001vsi.2_Missense_Mutation_p.S790N|ATP11A_uc001vsm.1_Missense_Mutation_p.S666N|ATP11A_uc010ago.1_Non-coding_Transcript	NM_032189	NP_115565	P98196	AT11A_HUMAN	ATPase, class VI, type 11A isoform b	790	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			large_intestine(2)|ovary(2)	4	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_lung(25;0.134)|all_epithelial(44;0.141)								1064				0.485714	251.698134	251.727018	85	90	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	112558351	112558351	1138	13	G	A	A	34	34	ATP11A	A	2	2
GRAMD2	196996	broad.mit.edu	36	15	70247961	70247961	+	Missense_Mutation	SNP	T	C	C			TCGA-02-2483-01	TCGA-02-2483-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr15:70247961T>C	uc002atq.1	-	c.193A>G	c.(193-195)ATA>GTA	p.I65V	GRAMD2_uc010bis.1_Missense_Mutation_p.I65V	NM_001012642	NP_001012660	Q8IUY3	GRAM2_HUMAN	GRAM domain containing 2	65						integral to membrane					0														0.373494	104.431237	105.587006	31	52	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	70247961	70247961	7026	15	T	C	C	50	50	GRAMD2	C	4	4
ZNF646	9726	broad.mit.edu	36	16	30995388	30995388	+	Missense_Mutation	SNP	G	A	A			TCGA-02-2483-01	TCGA-02-2483-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr16:30995388G>A	uc002eap.1	+	c.242G>A	c.(241-243)GGC>GAC	p.G81D	ZNF668_uc002eao.1_5'Flank	NM_014699	NP_055514	O15015	ZN646_HUMAN	zinc finger protein 646	81	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			breast(2)	2														0.254545	69.371581	75.375471	28	82	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	30995388	30995388	18657	16	G	A	A	42	42	ZNF646	A	2	2
KRT9	3857	broad.mit.edu	36	17	36981461	36981461	+	Missense_Mutation	SNP	C	T	T			TCGA-02-2483-01	TCGA-02-2483-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr17:36981461C>T	uc002hxe.2	-	c.310G>A	c.(310-312)GGC>AGC	p.G104S		NM_000226	NP_000217	P35527	K1C9_HUMAN	keratin 9	104	Head.				intermediate filament organization|skin development		protein binding|structural constituent of cytoskeleton			ovary(1)|central_nervous_system(1)|pancreas(1)	3		Breast(137;0.000307)												0.421053	50.293845	50.500489	16	22	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	36981461	36981461	8816	17	C	T	T	24	24	KRT9	T	2	2
NXN	64359	broad.mit.edu	36	17	669446	669446	+	Missense_Mutation	SNP	C	T	T			TCGA-02-2483-01	TCGA-02-2483-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr17:669446C>T	uc002fsa.1	-	c.803G>A	c.(802-804)CGG>CAG	p.R268Q	NXN_uc002fry.1_Missense_Mutation_p.R19Q|NXN_uc002frz.1_Missense_Mutation_p.R19Q|NXN_uc002fsb.1_Missense_Mutation_p.R155Q	NM_022463	NP_071908	Q6DKJ4	NXN_HUMAN	nucleoredoxin	268	Thioredoxin.				cell differentiation|cell redox homeostasis|multicellular organismal development|oxidation-reduction process|Wnt receptor signaling pathway	cytosol|nucleus	protein-disulfide reductase activity			ovary(2)|breast(1)|pancreas(1)	4														0.387097	110.280758	111.318821	36	57	CC		KEEP	---	---	---	---	capture		UCEC - Uterine corpus endometrioid carcinoma (25;0.0237)	Missense_Mutation	SNP	669446	669446	11192	17	C	T	T	23	23	NXN	T	1	1
TP53	7157	broad.mit.edu	36	17	7517845	7517845	+	Missense_Mutation	SNP	C	T	T	rs28934576	unknown	TCGA-02-2483-01	TCGA-02-2483-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr17:7517845C>T	uc002gim.2	-	c.818G>A	c.(817-819)CGT>CAT	p.R273H	TP53_uc002gig.1_Intron|TP53_uc002gih.1_Missense_Mutation_p.R273H|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R141H|TP53_uc010cng.1_Missense_Mutation_p.R141H|TP53_uc002gii.1_Missense_Mutation_p.R141H|TP53_uc010cnh.1_Missense_Mutation_p.R273H|TP53_uc010cni.1_Missense_Mutation_p.R273H|TP53_uc002gij.2_Missense_Mutation_p.R273H	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	273	Interaction with DNA.||Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> N (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|R -> S (in a familial cancer not matching LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> L (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> C (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> G (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> Q (in sporadic cancers; somatic mutation).|R -> Y (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|R -> P (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of gene-specific transcription from RNA polymerase II promoter|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of gene-specific transcription from RNA polymerase II promoter|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|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	chromatin|cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|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|promoter binding|promoter binding|protease binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|sequence-specific DNA binding transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|ubiquitin protein ligase binding|zinc ion binding	p.R273H(458)|p.R273L(83)|p.R273P(24)|p.0?(6)|p.R273_C275delRVC(1)|p.?(1)|p.L265_K305del41(1)|p.S269fs*21(1)|p.R273S(1)|p.E258fs*71(1)|p.C141fs*29(1)|p.R273fs*72(1)|p.R273fs*71(1)|p.F270_D281del12(1)|p.R273fs*33(1)|p.E271_R273delEVR(1)|p.V272_K292del21(1)		large_intestine(4614)|breast(2344)|upper_aerodigestive_tract(2150)|lung(1958)|ovary(1559)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1212)|stomach(1127)|urinary_tract(1113)|central_nervous_system(1072)|liver(805)|skin(693)|pancreas(370)|biliary_tract(247)|soft_tissue(209)|prostate(192)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(41)|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)	21904		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)				Pancreas(47;798 1329 9957 10801)	R273H(NCIH1793_LUNG)|R273H(MOLT13_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(PANC1_PANCREAS)|R273H(NCIH508_LARGE_INTESTINE)|R273H(NCIH1975_LUNG)|R273H(U251MG_CENTRAL_NERVOUS_SYSTEM)|R273H(SUPT1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(PF382_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(SW1783_CENTRAL_NERVOUS_SYSTEM)|R273H(NCIH2405_LUNG)|R273H(HEC59_ENDOMETRIUM)|R273H(NCIH1155_LUNG)|R273H(HT_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(EN_ENDOMETRIUM)|R273H(SNB19_CENTRAL_NERVOUS_SYSTEM)|R273H(MDAMB468_BREAST)|R273H(SUDHL1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(SW620_LARGE_INTESTINE)|R273H(SUIT2_PANCREAS)|R273H(SW480_LARGE_INTESTINE)|R273H(SKMEL30_SKIN)|R273H(OC314_OVARY)|R273H(HEC6_ENDOMETRIUM)|R273H(HT29_LARGE_INTESTINE)	111	p.R273H(SW480-Tumor)|p.R273L(NCIH1876-Tumor)|p.R273H(SW620-Tumor)|p.R273H(MDAMB468-Tumor)|p.R273Y(SW1783-Tumor)|p.R273H(YD8-Tumor)|p.R273L(NCIH1838-Tumor)|p.R273H(HT29-Tumor)|p.R273H(MONOMAC6-Tumor)|p.R273L(SNU503-Tumor)|p.R273H(MOLT13-Tumor)|p.R273Y(PF382-Tumor)|p.R273L(NCIH1734-Tumor)|p.R273H(FTC133-Tumor)|p.R273H(SNU601-Tumor)|p.R273H(NCIH1975-Tumor)|p.R273H(NCIH1793-Tumor)|p.R273L(ECGI10-Tumor)|p.R273H(KP1NL-Tumor)|p.R273H(KP1N-Tumor)|p.R273L(NCIH1623-Tumor)|p.R273L(NCIH2009-Tumor)|p.R273H(NCIH508-Tumor)|p.R273H(MONOMAC1-Tumor)|p.R273H(HEC59-Tumor)|p.R273H(FTC238-Tumor)|p.R273H(OC316-Tumor)|p.R273Y(SNUC2A-Tumor)|p.R273H(SUDHL1-Tumor)|p.R273L(HCC38-Tumor)|p.R273H(NCIH2405-Tumor)|p.R273H(HEC6-Tumor)|p.R273H(EN-Tumor)	690	TCGA GBM(1;<1E-8)|TSP Lung(2;<1E-8)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			0.896552	178.842858	187.925465	52	6	CC		KEEP	---	---	---	---	capture		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)	Missense_Mutation	SNP	7517845	7517845	16923	17	C	T	T	19	19	TP53	T	1	1
NDUFV2	4729	broad.mit.edu	36	18	9114948	9114948	+	Silent	SNP	C	T	T			TCGA-02-2483-01	TCGA-02-2483-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr18:9114948C>T	uc002knu.1	+	c.546C>T	c.(544-546)AAC>AAT	p.N182N		NM_021074	NP_066552	P19404	NDUV2_HUMAN	NADH dehydrogenase (ubiquinone) flavoprotein 2,	182					cardiac muscle tissue development|mitochondrial electron transport, NADH to ubiquinone|nervous system development|transport	mitochondrial respiratory chain complex I	2 iron, 2 sulfur cluster binding|electron carrier activity|metal ion binding|NAD binding|NADH dehydrogenase (ubiquinone) activity			ovary(1)	1					NADH(DB00157)									0.480519	115.473721	115.498928	37	40	CC		KEEP	---	---	---	---	capture			Silent	SNP	9114948	9114948	10699	18	C	T	T	19	19	NDUFV2	T	1	1
S1PR5	53637	broad.mit.edu	36	19	10485599	10485599	+	Silent	SNP	C	G	G			TCGA-02-2483-01	TCGA-02-2483-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr19:10485599C>G	uc002mot.1	-	c.1089G>C	c.(1087-1089)TCG>TCC	p.S363S	S1PR5_uc002mou.1_Silent_p.S363S|S1PR5_uc010dxg.1_Silent_p.S363S	NM_030760	NP_110387	Q9H228	S1PR5_HUMAN	endothelial differentiation, sphingolipid	363	Cytoplasmic (By similarity).					integral to membrane|plasma membrane	lysosphingolipid and lysophosphatidic acid receptor activity			central_nervous_system(1)|pancreas(1)	2														0.266667	6.810723	7.54981	4	11	CC		KEEP	---	---	---	---	capture			Silent	SNP	10485599	10485599	14277	19	C	G	G	23	23	S1PR5	G	3	3
BRD4	23476	broad.mit.edu	36	19	15237255	15237255	+	Silent	SNP	C	G	G			TCGA-02-2483-01	TCGA-02-2483-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr19:15237255C>G	uc002nar.1	-	c.759G>C	c.(757-759)GTG>GTC	p.V253V	BRD4_uc002nas.1_Silent_p.V253V|BRD4_uc002nat.2_Silent_p.V253V|BRD4_uc002nau.2_Silent_p.V253V	NM_058243	NP_490597	O60885	BRD4_HUMAN	bromodomain-containing protein 4 isoform long	253					interspecies interaction between organisms|positive regulation of G2/M transition of mitotic cell cycle|positive regulation of gene-specific transcription elongation from RNA polymerase II promoter|regulation of transcription involved in G1 phase of mitotic cell cycle	condensed nuclear chromosome|cytoplasm	protein binding			ovary(2)	2										269				0.294118	6.538634	7.207022	5	12	CC		KEEP	---	---	---	---	capture	OV - Ovarian serous cystadenocarcinoma(3;3.02e-24)|Epithelial(3;4.71e-20)|all cancers(3;2.26e-18)		Silent	SNP	15237255	15237255	1535	19	C	G	G	25	25	BRD4	G	3	3
PDE4C	5143	broad.mit.edu	36	19	18192288	18192288	+	Silent	SNP	G	A	A			TCGA-02-2483-01	TCGA-02-2483-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr19:18192288G>A	uc002nik.2	-	c.633C>T	c.(631-633)GAC>GAT	p.D211D	PDE4C_uc002nil.2_Silent_p.D211D|PDE4C_uc002nif.2_De_novo_Start_OutOfFrame|PDE4C_uc002nig.2_Intron|PDE4C_uc002nih.2_Intron|PDE4C_uc010ebk.1_Silent_p.D105D|PDE4C_uc002nii.2_Silent_p.D179D|PDE4C_uc010ebl.1_De_novo_Start_InFrame|PDE4C_uc010ebm.1_Non-coding_Transcript|PDE4C_uc002nim.1_Nonsense_Mutation_p.R195*	NM_000923	NP_001092289	Q08493	PDE4C_HUMAN	phosphodiesterase 4C, cAMP-specific isoform	211				D -> Y (in Ref. 2; AAD47053/AAD47054).	signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding			ovary(2)|central_nervous_system(1)	3					Dyphylline(DB00651)									0.352941	62.78721	64.080406	24	44	GG		KEEP	---	---	---	---	capture			Silent	SNP	18192288	18192288	12062	19	G	A	A	40	40	PDE4C	A	1	1
PNMAL1	55228	broad.mit.edu	36	19	51665198	51665199	+	Missense_Mutation	DNP	CA	AT	AT			TCGA-02-2483-01	TCGA-02-2483-01										Phase_I	Unspecified				Illumina GAIIx	g.chr19:51665198_51665199CA>AT	uc002peq.2	-	c.934_935TG>AT	c.(934-936)TGG>ATG	p.W312M	PNMAL1_uc002per.2_Missense_Mutation_p.W312M	NM_018215	NP_060685	Q86V59	PNML1_HUMAN	PNMA-like 1 isoform a	312											0		Ovarian(192;0.00965)|all_neural(266;0.0459)												0.329268	363.739869	374.358053	135	275	CC		KEEP	---	---	---	---	capture		OV - Ovarian serous cystadenocarcinoma(262;0.000166)|all cancers(93;0.0014)|GBM - Glioblastoma multiforme(486;0.0421)|Epithelial(262;0.0427)	Missense_Mutation	DNP	51665198	51665199	12584	19	CA	AT	AT	21	21	PNMAL1	AT	3	3
FGF21	26291	broad.mit.edu	36	19	53953150	53953150	+	Missense_Mutation	SNP	T	C	C			TCGA-02-2483-01	TCGA-02-2483-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr19:53953150T>C	uc002pkn.1	+	c.491T>C	c.(490-492)TTC>TCC	p.F164S	FUT1_uc002pkk.1_5'Flank|FUT1_uc002pkm.1_5'Flank|FGF21_uc002pko.1_Missense_Mutation_p.F164S	NM_019113	NP_061986	Q9NSA1	FGF21_HUMAN	fibroblast growth factor 21 precursor	164					cell-cell signaling|positive regulation of ERK1 and ERK2 cascade|positive regulation of glucose import	extracellular region|soluble fraction	growth factor activity				0		all_lung(116;1.7e-06)|all_epithelial(76;3.52e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)												0.307692	11.268322	12.271245	8	18	TT		KEEP	---	---	---	---	capture		OV - Ovarian serous cystadenocarcinoma(262;0.000134)|all cancers(93;0.000348)|Epithelial(262;0.019)|GBM - Glioblastoma multiforme(486;0.022)	Missense_Mutation	SNP	53953150	53953150	6087	19	T	C	C	62	62	FGF21	C	4	4
PNPLA6	10908	broad.mit.edu	36	19	7532443	7532443	+	Missense_Mutation	SNP	G	A	A			TCGA-02-2483-01	TCGA-02-2483-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr19:7532443G>A	uc002mgq.1	+	c.3979G>A	c.(3979-3981)GCC>ACC	p.A1327T	PNPLA6_uc002mgr.1_Missense_Mutation_p.A1327T|PNPLA6_uc002mgs.1_Missense_Mutation_p.A1313T|PNPLA6_uc002mgt.1_Non-coding_Transcript	NM_006702	NP_006693	Q8IY17	PLPL6_HUMAN	neuropathy target esterase	1366	Cytoplasmic (Potential).				cell death|lipid catabolic process|phosphatidylcholine metabolic process	endoplasmic reticulum membrane|integral to membrane	lysophospholipase activity			ovary(3)	3														0.304348	17.815236	18.601462	7	16	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	7532443	7532443	12596	19	G	A	A	46	46	PNPLA6	A	2	2
GRIN3B	116444	broad.mit.edu	36	19	955870	955870	+	Missense_Mutation	SNP	A	G	G			TCGA-02-2483-01	TCGA-02-2483-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr19:955870A>G	uc002lqo.1	+	c.1370A>G	c.(1369-1371)GAC>GGC	p.D457G		NM_138690	NP_619635	O60391	NMD3B_HUMAN	glutamate receptor, ionotropic,	457	Extracellular (Potential).				ionotropic glutamate receptor signaling pathway|protein insertion into membrane|regulation of calcium ion transport	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|neuronal cell body|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|glycine binding|ionotropic glutamate receptor activity|neurotransmitter receptor activity				0		Acute lymphoblastic leukemia(61;4.36e-14)|all_hematologic(61;4.84e-09)|Lung NSC(49;0.000226)|all_lung(49;0.000353)|Breast(49;0.00066)			Glycine(DB00145)|L-Glutamic Acid(DB00142)|Orphenadrine(DB01173)									0.317308	83.903527	87.010543	33	71	AA		KEEP	---	---	---	---	capture		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)	Missense_Mutation	SNP	955870	955870	7063	19	A	G	G	10	10	GRIN3B	G	4	4
PGLYRP4	57115	broad.mit.edu	36	1	151579674	151579674	+	Missense_Mutation	SNP	G	C	C			TCGA-02-2483-01	TCGA-02-2483-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr1:151579674G>C	uc001fbo.1	-	c.631C>G	c.(631-633)CCC>GCC	p.P211A	PGLYRP4_uc001fbp.1_Missense_Mutation_p.P207A	NM_020393	NP_065126	Q96LB8	PGRP4_HUMAN	peptidoglycan recognition protein-I-beta	211					defense response to Gram-positive bacterium|detection of bacterium|innate immune response|peptidoglycan catabolic process	extracellular region|intracellular|membrane	N-acetylmuramoyl-L-alanine amidase activity|peptidoglycan receptor activity			ovary(3)	3	all_lung(78;2.81e-33)|Lung NSC(65;9.54e-32)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)													0.138889	11.792731	20.88253	10	62	GG		KEEP	---	---	---	---	capture	LUSC - Lung squamous cell carcinoma(543;0.171)		Missense_Mutation	SNP	151579674	151579674	12219	1	G	C	C	43	43	PGLYRP4	C	3	3
PHACTR4	65979	broad.mit.edu	36	1	28672699	28672699	+	Silent	SNP	G	A	A			TCGA-02-2483-01	TCGA-02-2483-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr1:28672699G>A	uc001bpy.1	+	c.900G>A	c.(898-900)CCG>CCA	p.P300P	PHACTR4_uc001bpv.1_Non-coding_Transcript|PHACTR4_uc001bpw.1_Silent_p.P290P|PHACTR4_uc001bpx.1_Silent_p.P274P	NM_023923	NP_076412	Q8IZ21	PHAR4_HUMAN	phosphatase and actin regulator 4 isoform 2	290	Pro-rich.						actin binding|protein phosphatase inhibitor activity				0		Colorectal(325;3.46e-05)|Lung NSC(340;4.37e-05)|all_lung(284;7.01e-05)|Renal(390;0.00121)|Breast(348;0.00345)|all_neural(195;0.0208)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0261)												0.42487	240.122342	241.071072	82	111	GG		KEEP	---	---	---	---	capture		OV - Ovarian serous cystadenocarcinoma(117;1.35e-21)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00273)|STAD - Stomach adenocarcinoma(196;0.00299)|BRCA - Breast invasive adenocarcinoma(304;0.0144)|READ - Rectum adenocarcinoma(331;0.0649)	Silent	SNP	28672699	28672699	12235	1	G	A	A	40	40	PHACTR4	A	1	1
C1orf141	400757	broad.mit.edu	36	1	67334553	67334553	+	Missense_Mutation	SNP	A	G	G			TCGA-02-2483-01	TCGA-02-2483-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr1:67334553A>G	uc001ddl.1	-	c.386T>C	c.(385-387)GTT>GCT	p.V129A	C1orf141_uc001ddm.1_Missense_Mutation_p.V129A|C1orf141_uc001ddn.1_Non-coding_Transcript	NM_001013674	NP_001013696	Q5JVX7	CA141_HUMAN	hypothetical protein LOC400757	129										ovary(1)	1														0.315789	37.484778	38.693844	12	26	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	67334553	67334553	2068	1	A	G	G	2	2	C1orf141	G	4	4
GAS2L1	10634	broad.mit.edu	36	22	28037873	28037873	+	Missense_Mutation	SNP	G	A	A			TCGA-02-2483-01	TCGA-02-2483-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr22:28037873G>A	uc003afa.1	+	c.1433G>A	c.(1432-1434)CGC>CAC	p.R478H	GAS2L1_uc010gvm.1_Intron|GAS2L1_uc003afb.1_3'UTR|GAS2L1_uc003afc.1_Missense_Mutation_p.R478H|GAS2L1_uc003afd.1_Missense_Mutation_p.A478T|GAS2L1_uc003afe.1_Missense_Mutation_p.A478T	NM_152236	NP_689422	Q99501	GA2L1_HUMAN	growth arrest-specific 2 like 1 isoform a	478					cell cycle arrest	cytoplasm|cytoskeleton					0														0.222222	9.093409	10.369107	4	14	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	28037873	28037873	6510	22	G	A	A	38	38	GAS2L1	A	1	1
PLXNB2	23654	broad.mit.edu	36	22	49063290	49063290	+	Missense_Mutation	SNP	G	C	C			TCGA-02-2483-01	TCGA-02-2483-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr22:49063290G>C	uc003bkv.2	-	c.2964C>G	c.(2962-2964)TTC>TTG	p.F988L	PLXNB2_uc003bkt.1_5'Flank|PLXNB2_uc003bku.1_5'Flank	NM_012401	NP_036533	O15031	PLXB2_HUMAN	plexin B2	988	IPT/TIG 3.|Extracellular (Potential).				regulation of small GTPase mediated signal transduction	integral to membrane|intracellular	GTPase activator activity|protein binding|receptor activity			ovary(4)|central_nervous_system(1)	5		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)												0.6	15.239126	15.324582	6	4	GG		KEEP	---	---	---	---	capture		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)	Missense_Mutation	SNP	49063290	49063290	12550	22	G	C	C	37	37	PLXNB2	C	3	3
IDH1	3417	broad.mit.edu	36	2	208821357	208821357	+	Missense_Mutation	SNP	C	T	T			TCGA-02-2483-01	TCGA-02-2483-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr2:208821357C>T	uc002vcs.1	-	c.395G>A	c.(394-396)CGT>CAT	p.R132H	IDH1_uc002vct.1_Missense_Mutation_p.R132H|IDH1_uc002vcu.1_Missense_Mutation_p.R132H	NM_005896	NP_005887	O75874	IDHC_HUMAN	isocitrate dehydrogenase 1 (NADP+), soluble	132		Substrate.	R -> G (in a glioma sample; glioblastoma multiforme; somatic mutation).|R -> L (in a glioma sample; glioblastoma multiforme; somatic mutation; abolishes magnesium binding and alters enzyme activity so that isocitrate is no longer converted to alpha-ketoglutarate but instead alpha-ketoglutarate is converted to R(-)-2-hydroxyglutarate).|R -> S (in a glioma sample; glioblastoma multiforme; somatic mutation; abolishes magnesium binding and alters enzyme activity so that isocitrate is no longer converted to alpha-ketoglutarate but instead alpha-ketoglutarate is converted to R(-)-2-hydroxyglutarate).|R -> H (in a glioma sample; glioblastoma multiforme; somatic mutation; abolishes magnesium binding and alters enzyme activity so that isocitrate is no longer converted to alpha-ketoglutarate but instead alpha-ketoglutarate is converted to R(-)-2-hydroxyglutarate).|R -> C (in colorectal cancer and glioma samples; glioblastoma multiforme; somatic mutation; abolishes magnesium binding and alters enzyme activity so that isocitrate is no longer converted to alpha- ketoglutarate but instead alpha- ketoglutarate is converted to R(-)-2- hydroxyglutarate).		2-oxoglutarate metabolic process|cellular lipid metabolic process|glyoxylate cycle|isocitrate metabolic process|NADPH regeneration|tricarboxylic acid cycle	cytosol|peroxisomal matrix	isocitrate dehydrogenase (NADP+) activity|magnesium ion binding|NAD binding|protein homodimerization activity	p.R132H(1725)|p.R132?(210)|p.R132C(92)|p.R132L(48)|p.R132G(26)|p.R132S(11)|p.R132V(1)|p.G131_R132>VL(1)		central_nervous_system(1848)|haematopoietic_and_lymphoid_tissue(593)|large_intestine(4)|skin(2)|prostate(2)|autonomic_ganglia(1)|soft_tissue(1)	2451						Pancreas(158;264 1958 3300 35450 36047)				134				0.367925	106.504564	108.12595	39	67	CC		KEEP	---	---	---	---	capture		Epithelial(149;0.0322)|LUSC - Lung squamous cell carcinoma(261;0.0711)|Lung(261;0.136)	Missense_Mutation	SNP	208821357	208821357	7794	2	C	T	T	19	19	IDH1	T	1	1
SPTBN1	6711	broad.mit.edu	36	2	54710662	54710662	+	Silent	SNP	C	A	A			TCGA-02-2483-01	TCGA-02-2483-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr2:54710662C>A	uc002rxu.1	+	c.2799C>A	c.(2797-2799)CTC>CTA	p.L933L	SPTBN1_uc002rxx.1_Silent_p.L920L	NM_003128	NP_003119	Q01082	SPTB2_HUMAN	spectrin, beta, non-erythrocytic 1 isoform 1	933	Spectrin 7.				actin filament capping|axon guidance	cytosol|nucleolus|plasma membrane|sarcomere|spectrin	actin binding|calmodulin binding|protein binding|structural constituent of cytoskeleton			ovary(2)|breast(2)|central_nervous_system(2)	6														0.363636	44.686349	45.406871	16	28	CC		KEEP	---	---	---	---	capture	Lung(47;0.24)		Silent	SNP	54710662	54710662	15633	2	C	A	A	29	29	SPTBN1	A	3	3
TOMM70A	9868	broad.mit.edu	36	3	101587799	101587799	+	Missense_Mutation	SNP	C	T	T			TCGA-02-2483-01	TCGA-02-2483-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr3:101587799C>T	uc003dtw.1	-	c.578G>A	c.(577-579)CGT>CAT	p.R193H		NM_014820	NP_055635	O94826	TOM70_HUMAN	translocase of outer mitochondrial membrane 70	193	Cytoplasmic (Potential).				protein targeting to mitochondrion	integral to membrane|mitochondrial outer membrane translocase complex	protein binding|protein transmembrane transporter activity			ovary(1)	1														0.292208	124.917609	130.869501	45	109	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	101587799	101587799	16904	3	C	T	T	19	19	TOMM70A	T	1	1
LRRC31	79782	broad.mit.edu	36	3	171055436	171055436	+	Missense_Mutation	SNP	G	T	T			TCGA-02-2483-01	TCGA-02-2483-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr3:171055436G>T	uc003fgc.1	-	c.850C>A	c.(850-852)CTG>ATG	p.L284M	LRRC31_uc010hwp.1_Missense_Mutation_p.L228M	NM_024727	NP_079003	Q6UY01	LRC31_HUMAN	leucine rich repeat containing 31	284	LRR 3.									ovary(2)	2	all_cancers(22;2.76e-22)|all_epithelial(15;4.73e-27)|all_lung(20;9.24e-17)|Lung NSC(18;3.85e-16)|Ovarian(172;0.000223)|Breast(254;0.197)													0.32	156.96659	161.989434	56	119	GG		KEEP	---	---	---	---	capture	Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.00943)		Missense_Mutation	SNP	171055436	171055436	9361	3	G	T	T	34	34	LRRC31	T	3	3
CHL1	10752	broad.mit.edu	36	3	342748	342748	+	Splice_Site_SNP	SNP	G	A	A			TCGA-02-2483-01	TCGA-02-2483-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr3:342748G>A	uc003bot.1	+	c.197_splice	c.e4+1	p.T66_splice	CHL1_uc003bou.1_Splice_Site_SNP_p.T66_splice|CHL1_uc003bow.1_Splice_Site_SNP_p.T66_splice	NM_006614	NP_006605			cell adhesion molecule with homology to L1CAM						axon guidance|cell adhesion|signal transduction	integral to membrane|plasma membrane|proteinaceous extracellular matrix				central_nervous_system(4)|large_intestine(2)|ovary(1)	7		all_cancers(2;1.14e-06)|all_epithelial(2;0.00367)|all_lung(1;0.061)|Lung NSC(2;0.201)								659				0.45283	73.193245	73.296064	24	29	GG		KEEP	---	---	---	---	capture		Epithelial(13;5.36e-06)|all cancers(10;1.4e-05)|OV - Ovarian serous cystadenocarcinoma(96;0.00323)|COAD - Colon adenocarcinoma(1;0.00925)|Colorectal(20;0.0198)	Splice_Site_SNP	SNP	342748	342748	3483	3	G	A	A	40	40	CHL1	A	5	1
ADAMTS3	9508	broad.mit.edu	36	4	73394014	73394014	+	Missense_Mutation	SNP	C	T	T			TCGA-02-2483-01	TCGA-02-2483-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr4:73394014C>T	uc003hgk.1	-	c.2143G>A	c.(2143-2145)GTG>ATG	p.V715M	ADAMTS3_uc003hgl.2_Missense_Mutation_p.V56M	NM_014243	NP_055058	O15072	ATS3_HUMAN	ADAM metallopeptidase with thrombospondin type 1	715	Spacer.				collagen catabolic process|collagen fibril organization|proteolysis	proteinaceous extracellular matrix	heparin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2						NSCLC(168;1941 2048 2918 13048 43078)								0.28125	96.647641	102.151067	36	92	CC		KEEP	---	---	---	---	capture	Epithelial(6;4.97e-05)|OV - Ovarian serous cystadenocarcinoma(6;5.66e-05)|all cancers(17;0.000486)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)		Missense_Mutation	SNP	73394014	73394014	268	4	C	T	T	19	19	ADAMTS3	T	1	1
FGD2	221472	broad.mit.edu	36	6	37096296	37096296	+	Missense_Mutation	SNP	T	G	G			TCGA-02-2483-01	TCGA-02-2483-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr6:37096296T>G	uc010jwp.1	+	c.1124T>G	c.(1123-1125)GTG>GGG	p.V375G	FGD2_uc003ong.2_Missense_Mutation_p.V97G|FGD2_uc003onj.1_5'Flank	NM_173558	NP_775829	Q7Z6J4	FGD2_HUMAN	FYVE, RhoGEF and PH domain containing 2	375	PH 1.				actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|early endosome membrane|Golgi apparatus|lamellipodium|nucleus|ruffle membrane	Rho guanyl-nucleotide exchange factor activity|small GTPase binding|zinc ion binding			lung(1)|pancreas(1)	2														0.384615	6.803363	7.009001	5	8	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	37096296	37096296	6070	6	T	G	G	59	59	FGD2	G	4	4
HIPK2	28996	broad.mit.edu	36	7	138932030	138932030	+	Missense_Mutation	SNP	T	C	C			TCGA-02-2483-01	TCGA-02-2483-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr7:138932030T>C	uc003vvf.2	-	c.2690A>G	c.(2689-2691)GAG>GGG	p.E897G	HIPK2_uc003vvd.2_Missense_Mutation_p.E870G	NM_022740	NP_073577	Q9H2X6	HIPK2_HUMAN	homeodomain interacting protein kinase 2 isoform	897	Interaction with UBE2I (By similarity).|Interaction with HMGA1 (By similarity).|Interaction with TP53 and TP73.|Required for localization to nuclear speckles (By similarity).|Interaction with POU4F1 (By similarity).				apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|negative regulation of BMP signaling pathway|positive regulation of JNK cascade|positive regulation of transforming growth factor beta receptor signaling pathway|SMAD protein signal transduction|transcription, DNA-dependent|virus-host interaction	centrosome|nuclear membrane|PML body	ATP binding|protein serine/threonine kinase activity|SMAD binding|transcription corepressor activity|virion binding			ovary(3)|central_nervous_system(3)|skin(1)	7	Melanoma(164;0.205)									363				0.450867	261.636006	261.998357	78	95	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	138932030	138932030	7402	7	T	C	C	54	54	HIPK2	C	4	4
ZNF775	285971	broad.mit.edu	36	7	149724898	149724898	+	Silent	SNP	G	A	A			TCGA-02-2483-01	TCGA-02-2483-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr7:149724898G>A	uc003whf.1	+	c.396G>A	c.(394-396)GAG>GAA	p.E132E		NM_173680	NP_775951	Q96BV0	ZN775_HUMAN	zinc finger protein 775	132					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Ovarian(565;0.183)|Melanoma(164;0.226)													0.285714	7.527137	8.087417	4	10	GG		KEEP	---	---	---	---	capture	OV - Ovarian serous cystadenocarcinoma(82;0.0173)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)	Silent	SNP	149724898	149724898	18746	7	G	A	A	33	33	ZNF775	A	2	2
CCDC146	57639	broad.mit.edu	36	7	76721802	76721802	+	Missense_Mutation	SNP	A	T	T			TCGA-02-2483-01	TCGA-02-2483-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr7:76721802A>T	uc003uga.1	+	c.493A>T	c.(493-495)ATA>TTA	p.I165L		NM_020879	NP_065930	Q8IYE0	CC146_HUMAN	coiled-coil domain containing 146	165										ovary(1)|central_nervous_system(1)	2		all_cancers(73;0.128)|all_lung(88;0.0986)|all_epithelial(88;0.163)|Myeloproliferative disorder(862;0.205)												0.289474	62.919701	65.938349	22	54	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	76721802	76721802	2900	7	A	T	T	12	12	CCDC146	T	4	4
SEMA3C	10512	broad.mit.edu	36	7	80225650	80225650	+	Missense_Mutation	SNP	G	C	C			TCGA-02-2483-01	TCGA-02-2483-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr7:80225650G>C	uc003uhj.1	-	c.1576C>G	c.(1576-1578)CTG>GTG	p.L526V		NM_006379	NP_006370	Q99985	SEM3C_HUMAN	semaphorin 3C	526					immune response|response to drug	membrane	receptor activity			ovary(1)	1														0.39011	211.524999	213.467726	71	111	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	80225650	80225650	14512	7	G	C	C	35	35	SEMA3C	C	3	3
TAF2	6873	broad.mit.edu	36	8	120813433	120813433	+	Missense_Mutation	SNP	T	C	C			TCGA-02-2483-01	TCGA-02-2483-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr8:120813433T>C	uc003you.1	-	c.3512A>G	c.(3511-3513)CAT>CGT	p.H1171R		NM_003184	NP_003175	Q6P1X5	TAF2_HUMAN	TBP-associated factor 2	1171	Lys-rich.|His-rich.				G2/M transition of mitotic cell cycle|positive regulation of gene-specific transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	transcription factor TFIID complex|transcription factor TFTC complex	metallopeptidase activity|promoter binding|protein binding|zinc ion binding			large_intestine(2)|ovary(2)|kidney(1)	5	Lung NSC(37;9.35e-07)|Ovarian(258;0.011)|Hepatocellular(40;0.161)													0.679904	1916.679741	1940.568342	565	266	TT		KEEP	---	---	---	---	capture	STAD - Stomach adenocarcinoma(47;0.00185)		Missense_Mutation	SNP	120813433	120813433	16045	8	T	C	C	51	51	TAF2	C	4	4
PUF60	22827	broad.mit.edu	36	8	144971776	144971776	+	Missense_Mutation	SNP	C	G	G			TCGA-02-2483-01	TCGA-02-2483-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr8:144971776C>G	uc003yzs.1	-	c.982G>C	c.(982-984)GCA>CCA	p.A328P	SCRIB_uc003yzo.1_5'Flank|SCRIB_uc003yzp.1_5'Flank|PUF60_uc003yzq.1_Missense_Mutation_p.A285P|PUF60_uc003yzr.1_Missense_Mutation_p.A268P|PUF60_uc003yzt.1_Missense_Mutation_p.A311P|PUF60_uc003yzu.1_Missense_Mutation_p.A317P	NM_078480	NP_510965	Q9UHX1	PUF60_HUMAN	poly-U binding splicing factor 60KDa isoform a	328	Ala-rich.|Inhibits homodimerization.|Inhibits transcriptional repression, interaction with ERCC3 and apoptosis induction.				apoptosis|mRNA processing|regulation of transcription, DNA-dependent|RNA splicing|transcription, DNA-dependent	nucleus|ribonucleoprotein complex	DNA binding|nucleotide binding|protein binding|RNA binding				0	all_cancers(97;2.31e-11)|all_epithelial(106;1.58e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)													0.291667	14.22534	15.154051	7	17	CC		KEEP	---	---	---	---	capture	OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;1.23e-39)|all cancers(56;6.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.18)		Missense_Mutation	SNP	144971776	144971776	13282	8	C	G	G	25	25	PUF60	G	3	3
C9orf150	286343	broad.mit.edu	36	9	12765994	12765994	+	Missense_Mutation	SNP	G	A	A			TCGA-02-2483-01	TCGA-02-2483-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr9:12765994G>A	uc003zkw.1	+	c.280G>A	c.(280-282)GAA>AAA	p.E94K		NM_203403	NP_981948	Q8IV03	CI150_HUMAN	hypothetical protein LOC286343	97											0														0.272727	7.803984	8.862864	6	16	GG		KEEP	---	---	---	---	capture		GBM - Glioblastoma multiforme(1;1.64e-13)	Missense_Mutation	SNP	12765994	12765994	2576	9	G	A	A	33	33	C9orf150	A	2	2
FAM120A	23196	broad.mit.edu	36	9	95254365	95254365	+	Missense_Mutation	SNP	G	C	C			TCGA-02-2483-01	TCGA-02-2483-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr9:95254365G>C	uc004atw.1	+	c.347G>C	c.(346-348)CGC>CCC	p.R116P	FAM120A_uc004atv.2_Missense_Mutation_p.R116P|FAM120AOS_uc004atm.1_5'Flank|FAM120AOS_uc004atn.2_5'Flank|FAM120AOS_uc004ato.2_5'Flank|FAM120AOS_uc004atp.2_5'Flank|FAM120AOS_uc004atq.2_5'Flank|FAM120AOS_uc004atr.2_5'Flank|FAM120AOS_uc004ats.2_Intron|FAM120AOS_uc004att.2_Intron|FAM120AOS_uc004atu.2_Missense_Mutation_p.R150G	NM_014612	NP_055427	Q9NZB2	F120A_HUMAN	hypothetical protein LOC23196	116						cytoplasm|plasma membrane	RNA binding				0														0.307692	8.8957	9.324394	4	9	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	95254365	95254365	5612	9	G	C	C	38	38	FAM120A	C	3	3
KLHL34	257240	broad.mit.edu	36	X	21585595	21585595	+	Missense_Mutation	SNP	G	C	C			TCGA-02-2483-01	TCGA-02-2483-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chrX:21585595G>C	uc004czz.1	-	c.233C>G	c.(232-234)GCC>GGC	p.A78G		NM_153270	NP_695002	Q8N239	KLH34_HUMAN	kelch-like 34	78	BTB.									ovary(1)	1														0.5	6.712819	6.712819	3	3	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	21585595	21585595	8701	23	G	C	C	42	42	KLHL34	C	3	3
MICALCL	84953	broad.mit.edu	36	11	12272963	12272965	+	In_Frame_Del	DEL	CTA	-	-			TCGA-02-2483-01	TCGA-02-2483-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:12272963_12272965delCTA	uc001mkg.1	+	c.1409_1411delCTA	c.(1408-1413)CCTACA>CCA	p.T471del		NM_032867	NP_116256	Q6ZW33	MICLK_HUMAN	MICAL C-terminal like	471					cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm	mitogen-activated protein kinase binding				0				Epithelial(150;0.00177)										0.50			7	7				---	---	---	---	capture_indel			In_Frame_Del	DEL	12272963	12272965	9962	11	CTA	-	-	24	24	MICALCL	-	5	5
COL18A1	80781	broad.mit.edu	36	21	45749568	45749569	+	In_Frame_Ins	INS	-	GGCCCCCCA	GGCCCCCCA			TCGA-02-2483-01	TCGA-02-2483-01										Phase_I	Unspecified				Illumina GAIIx	g.chr21:45749568_45749569insGGCCCCCCA	uc002zhi.1	+	c.3492_3493insGGCCCCCCA	c.(3490-3495)insGGCCCCCCA	p.1173_1174insGPP	COL18A1_uc002zhg.1_In_Frame_Ins_p.993_994insGPP|SLC19A1_uc010gpy.1_Intron|COL18A1_uc002zhj.1_5'UTR|COL18A1_uc002zhk.1_5'Flank	NM_030582	NP_085059	P39060	COIA1_HUMAN	alpha 1 type XVIII collagen isoform 1 precursor	1411_1412	Nonhelical region 10 (NC10).				cell adhesion|negative regulation of cell proliferation|organ morphogenesis|visual perception	collagen|extracellular space	extracellular matrix structural constituent|metal ion binding|protein binding			central_nervous_system(1)	1				Colorectal(79;0.0157)|READ - Rectum adenocarcinoma(84;0.0929)					p.GPP1171del(647V-Tumor)|p.P1164P(NCIH1648-Tumor)|p.GPP1171del(NCIH2291-Tumor)	1836				0.38			5	8				---	---	---	---	capture_indel			In_Frame_Ins	INS	45749568	45749569	3813	21	-	GGCCCCCCA	GGCCCCCCA	23	23	COL18A1	GGCCCCCCA	5	5
