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
MMP10	4319	broad.mit.edu	36	11	102151251	102151251	+	Missense_Mutation	SNP	C	T	T			TCGA-12-0820-01	TCGA-12-0820-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr11:102151251C>T	uc001phg.1	-	c.944G>A	c.(943-945)CGA>CAA	p.R315Q		NM_002425	NP_002416	P09238	MMP10_HUMAN	matrix metalloproteinase 10 preproprotein	315	Hemopexin-like 1.				collagen catabolic process|proteolysis	extracellular space|proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			kidney(1)|lung(1)|breast(1)|central_nervous_system(1)	4	all_epithelial(12;0.00961)	all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)	Epithelial(9;0.0303)|Lung(13;0.0828)|all cancers(10;0.116)|LUSC - Lung squamous cell carcinoma(19;0.151)	BRCA - Breast invasive adenocarcinoma(274;0.0145)										0.306122	45.009121	46.650199	15	34	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	102151251	102151251	10039	11	C	T	T	31	31	MMP10	T	1	1
OR10G8	219869	broad.mit.edu	36	11	123406375	123406375	+	Missense_Mutation	SNP	C	T	T			TCGA-12-0820-01	TCGA-12-0820-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr11:123406375C>T	uc001pzp.1	+	c.836C>T	c.(835-837)ACG>ATG	p.T279M		NM_001004464	NP_001004464	Q8NGN5	O10G8_HUMAN	olfactory receptor, family 10, subfamily G,	279	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0521)										0.41791	165.672981	166.461084	56	78	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	123406375	123406375	11309	11	C	T	T	19	19	OR10G8	T	1	1
ANP32D	23519	broad.mit.edu	36	12	47153084	47153084	+	Missense_Mutation	SNP	G	A	A			TCGA-12-0820-01	TCGA-12-0820-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr12:47153084G>A	uc001rrq.1	+	c.370G>A	c.(370-372)GAG>AAG	p.E124K		NM_012404	NP_036536	O95626	AN32D_HUMAN	acidic nuclear phosphoprotein 32D	124	LRR 5.									ovary(1)|central_nervous_system(1)	2														0.360656	65.63276	66.67553	22	39	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	47153084	47153084	716	12	G	A	A	37	37	ANP32D	A	1	1
GDF3	9573	broad.mit.edu	36	12	7734165	7734165	+	Missense_Mutation	SNP	C	T	T			TCGA-12-0820-01	TCGA-12-0820-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr12:7734165C>T	uc001qte.1	-	c.671G>A	c.(670-672)AGA>AAA	p.R224K		NM_020634	NP_065685	Q9NR23	GDF3_HUMAN	growth differentiation factor 3 precursor	224					eye development|growth|skeletal system development	extracellular space	cytokine activity|growth factor activity			skin(2)|ovary(1)|lung(1)|central_nervous_system(1)	5														0.449868	984.988394	986.655412	341	417	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	7734165	7734165	6583	12	C	T	T	32	32	GDF3	T	2	2
SNW1	22938	broad.mit.edu	36	14	77256860	77256860	+	Missense_Mutation	SNP	G	T	T			TCGA-12-0820-01	TCGA-12-0820-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr14:77256860G>T	uc001xuf.1	-	c.1195C>A	c.(1195-1197)CCT>ACT	p.P399T	SNW1_uc010asu.1_Missense_Mutation_p.P237T	NM_012245	NP_036377	Q13573	SNW1_HUMAN	SKI-interacting protein	399					negative regulation of transcription, DNA-dependent|nuclear mRNA splicing, via spliceosome|regulation of transcription from RNA polymerase II promoter	catalytic step 2 spliceosome|nucleoplasm	Notch binding|transcription repressor activity			ovary(1)	1			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0291)										0.294545	201.822128	212.242617	81	194	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	77256860	77256860	15379	14	G	T	T	41	41	SNW1	T	3	3
GABRA5	2558	broad.mit.edu	36	15	24767819	24767819	+	Silent	SNP	C	T	T			TCGA-12-0820-01	TCGA-12-0820-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr15:24767819C>T	uc001zbd.1	+	c.726C>T	c.(724-726)GGC>GGT	p.G242G	GABRB3_uc001zbb.1_5'Flank	NM_000810	NP_000801	P31644	GBRA5_HUMAN	gamma-aminobutyric acid (GABA) A receptor, alpha	242	Extracellular (Potential).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity			ovary(1)	1		all_lung(180;4.59e-13)|Breast(32;0.000563)|Colorectal(260;0.227)		all cancers(64;1.45e-08)|Epithelial(43;4.96e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0232)|Lung(196;0.182)	Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)									0.46696	1166.951608	1167.810464	424	484	CC		KEEP	---	---	---	---	capture			Silent	SNP	24767819	24767819	6415	15	C	T	T	27	27	GABRA5	T	1	1
SPINT1	6692	broad.mit.edu	36	15	38935527	38935527	+	Silent	SNP	C	T	T			TCGA-12-0820-01	TCGA-12-0820-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr15:38935527C>T	uc001zna.1	+	c.1311C>T	c.(1309-1311)TGC>TGT	p.C437C	SPINT1_uc001znb.1_Silent_p.C421C|SPINT1_uc001znc.1_Silent_p.C421C	NM_181642	NP_857593	O43278	SPIT1_HUMAN	serine peptidase inhibitor, Kunitz type 1	437	BPTI/Kunitz inhibitor 2.					extracellular region|membrane fraction	protein binding|serine-type endopeptidase inhibitor activity			ovary(1)	1		all_cancers(109;1.35e-17)|all_epithelial(112;3.78e-15)|Lung NSC(122;9.68e-11)|all_lung(180;2.25e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;2.91e-05)|COAD - Colon adenocarcinoma(120;0.153)|BRCA - Breast invasive adenocarcinoma(123;0.166)										0.277108	105.790359	113.208451	46	120	CC		KEEP	---	---	---	---	capture			Silent	SNP	38935527	38935527	15580	15	C	T	T	26	26	SPINT1	T	2	2
CCDC102A	92922	broad.mit.edu	36	16	56120322	56120322	+	Missense_Mutation	SNP	A	C	C			TCGA-12-0820-01	TCGA-12-0820-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr16:56120322A>C	uc002elw.1	-	c.269T>G	c.(268-270)ATG>AGG	p.M90R		NM_033212	NP_149989	Q96A19	C102A_HUMAN	coiled-coil domain containing 102A	90	Potential.									ovary(1)	1														0.333333	7.521582	7.743197	3	6	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	56120322	56120322	2856	16	A	C	C	8	8	CCDC102A	C	4	4
HYDIN	54768	broad.mit.edu	36	16	69452113	69452113	+	Silent	SNP	G	T	T			TCGA-12-0820-01	TCGA-12-0820-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr16:69452113G>T	uc002ezr.1	-	c.11967C>A	c.(11965-11967)GGC>GGA	p.G3989G	HYDIN_uc010cfy.1_Non-coding_Transcript	NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	3990										ovary(1)	1		Ovarian(137;0.0654)												0.129032	17.630876	30.098844	12	81	GG		KEEP	---	---	---	---	capture			Silent	SNP	69452113	69452113	7767	16	G	T	T	46	46	HYDIN	T	3	3
MYH4	4622	broad.mit.edu	36	17	10304328	10304328	+	Missense_Mutation	SNP	A	G	G			TCGA-12-0820-01	TCGA-12-0820-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr17:10304328A>G	uc002gmn.1	-	c.1183T>C	c.(1183-1185)TCT>CCT	p.S395P		NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	395	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|central_nervous_system(1)	11														0.354167	200.873821	204.459687	68	124	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	10304328	10304328	10432	17	A	G	G	11	11	MYH4	G	4	4
KRTAP17-1	83902	broad.mit.edu	36	17	36725440	36725440	+	De_novo_Start_OutOfFrame	SNP	G	A	A			TCGA-12-0820-01	TCGA-12-0820-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr17:36725440G>A	uc002hwj.1	-	c.-11C>T	c.(-13--9)GACGG>GATGG			NM_031964	NP_114170			keratin associated protein 17-1							intermediate filament					0		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000449)											0.466667	22.524265	22.538718	7	8	GG		KEEP	---	---	---	---	capture			De_novo_Start_OutOfFrame	SNP	36725440	36725440	8842	17	G	A	A	40	40	KRTAP17-1	A	5	1
ZBTB7C	201501	broad.mit.edu	36	18	43821065	43821065	+	Missense_Mutation	SNP	C	A	A			TCGA-12-0820-01	TCGA-12-0820-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr18:43821065C>A	uc010dnv.1	-	c.478G>T	c.(478-480)GAC>TAC	p.D160Y	ZBTB7C_uc010dnw.1_Missense_Mutation_p.D138Y|ZBTB7C_uc010dny.1_Missense_Mutation_p.D138Y|ZBTB7C_uc010dnz.1_Missense_Mutation_p.D160Y|ZBTB7C_uc010doa.1_Missense_Mutation_p.D160Y|ZBTB7C_uc010dob.1_Missense_Mutation_p.D138Y|ZBTB7C_uc010doc.1_Missense_Mutation_p.D147Y|ZBTB7C_uc010dod.1_Missense_Mutation_p.D160Y|ZBTB7C_uc010doe.1_Missense_Mutation_p.D138Y|ZBTB7C_uc010dof.1_Missense_Mutation_p.D138Y|ZBTB7C_uc010dog.1_Missense_Mutation_p.D138Y|ZBTB7C_uc010doh.1_Missense_Mutation_p.D147Y|ZBTB7C_uc010doi.1_Missense_Mutation_p.D138Y|ZBTB7C_uc010doj.1_Missense_Mutation_p.D147Y|ZBTB7C_uc010dok.1_Missense_Mutation_p.D187Y|ZBTB7C_uc010dol.1_Missense_Mutation_p.D147Y|ZBTB7C_uc010dom.1_Missense_Mutation_p.D147Y|ZBTB7C_uc010don.1_Missense_Mutation_p.D146Y|ZBTB7C_uc010doo.1_Missense_Mutation_p.D138Y|ZBTB7C_uc010dop.1_Missense_Mutation_p.D138Y|ZBTB7C_uc010doq.1_Missense_Mutation_p.D147Y|ZBTB7C_uc010dor.1_Missense_Mutation_p.D160Y|ZBTB7C_uc010dos.1_Missense_Mutation_p.D138Y|ZBTB7C_uc010dot.1_Missense_Mutation_p.D138Y|ZBTB7C_uc010dou.1_Missense_Mutation_p.D147Y|ZBTB7C_uc002ldb.1_Missense_Mutation_p.D138Y|ZBTB7C_uc010dnu.1_Missense_Mutation_p.D147Y|ZBTB7C_uc010dnx.1_Missense_Mutation_p.D138Y|ZBTB7C_uc002lda.1_Missense_Mutation_p.D138Y	NM_001039360	NP_001034449	A1YPR0	ZBT7C_HUMAN	zinc finger and BTB domain containing 7C	138	Glu-rich.|Asp-rich.					intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1														0.156863	7.66272	13.408477	8	43	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	43821065	43821065	18142	18	C	A	A	29	29	ZBTB7C	A	3	3
MYO5B	4645	broad.mit.edu	36	18	45623739	45623739	+	Missense_Mutation	SNP	G	A	A			TCGA-12-0820-01	TCGA-12-0820-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr18:45623739G>A	uc002leb.1	-	c.4481C>T	c.(4480-4482)TCG>TTG	p.S1494L	MYO5B_uc002ldz.1_Missense_Mutation_p.S64L|MYO5B_uc002lea.1_Missense_Mutation_p.S609L	NM_001080467	NP_001073936	Q9ULV0	MYO5B_HUMAN	myosin VB	1494					protein transport	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(1)	1				READ - Rectum adenocarcinoma(32;0.103)										0.301075	74.561683	77.850725	28	65	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	45623739	45623739	10474	18	G	A	A	37	37	MYO5B	A	1	1
DCC	1630	broad.mit.edu	36	18	48937873	48937873	+	Missense_Mutation	SNP	G	A	A			TCGA-12-0820-01	TCGA-12-0820-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr18:48937873G>A	uc002lfe.1	+	c.1411G>A	c.(1411-1413)GAC>AAC	p.D471N	DCC_uc010dpf.1_Missense_Mutation_p.D126N	NM_005215	NP_005206	P43146	DCC_HUMAN	deleted in colorectal carcinoma	471	Extracellular (Potential).|Fibronectin type-III 1.				apoptosis|induction of apoptosis	cytosol|integral to membrane				ovary(6)|large_intestine(1)|central_nervous_system(1)|skin(1)	9		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)										0.39779	599.260188	604.227431	216	327	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	48937873	48937873	4453	18	G	A	A	45	45	DCC	A	2	2
NFATC1	4772	broad.mit.edu	36	18	75347350	75347350	+	Missense_Mutation	SNP	T	C	C			TCGA-12-0820-01	TCGA-12-0820-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr18:75347350T>C	uc002lnf.1	+	c.2168T>C	c.(2167-2169)ATG>ACG	p.M723T	NFATC1_uc002lnd.1_Missense_Mutation_p.M736T|NFATC1_uc002lne.1_Missense_Mutation_p.M264T|NFATC1_uc002lng.1_Missense_Mutation_p.M723T	NM_172387	NP_765975	O95644	NFAC1_HUMAN	nuclear factor of activated T-cells, cytosolic	736	Trans-activation domain B (TAD-B).				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	FK506 binding|promoter binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription activator activity			large_intestine(1)|ovary(1)	2		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;3.73e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0257)		GBM(151;1210 2593 28719 45011)				1639				0.229508	20.711105	24.816968	14	47	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	75347350	75347350	10761	18	T	C	C	51	51	NFATC1	C	4	4
NOTCH3	4854	broad.mit.edu	36	19	15133299	15133299	+	Missense_Mutation	SNP	C	T	T			TCGA-12-0820-01	TCGA-12-0820-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr19:15133299C>T	uc002nan.1	-	c.6140G>A	c.(6139-6141)GGG>GAG	p.G2047E		NM_000435	NP_000426	Q9UM47	NOTC3_HUMAN	Notch homolog 3	2047	Cytoplasmic (Potential).				Notch receptor processing|Notch signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			ovary(5)|lung(2)|central_nervous_system(1)	8			OV - Ovarian serous cystadenocarcinoma(3;2.6e-20)|Epithelial(3;1.34e-16)|all cancers(3;5.13e-15)							417				0.285714	26.539281	27.979336	10	25	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	15133299	15133299	10953	19	C	T	T	22	22	NOTCH3	T	2	2
ZNF676	163223	broad.mit.edu	36	19	22155144	22155144	+	Silent	SNP	G	C	C			TCGA-12-0820-01	TCGA-12-0820-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr19:22155144G>C	uc002nqs.1	-	c.1215C>G	c.(1213-1215)TCC>TCG	p.S405S		NM_001001411	NP_001001411	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	405	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)												0.245033	91.499185	100.443081	37	114	GG		KEEP	---	---	---	---	capture			Silent	SNP	22155144	22155144	18678	19	G	C	C	35	35	ZNF676	C	3	3
PTPRH	5794	broad.mit.edu	36	19	60389061	60389061	+	Missense_Mutation	SNP	C	T	T			TCGA-12-0820-01	TCGA-12-0820-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr19:60389061C>T	uc002qjq.1	-	c.2882G>A	c.(2881-2883)CGG>CAG	p.R961Q	PTPRH_uc010esv.1_Missense_Mutation_p.R783Q	NM_002842	NP_002833	Q9HD43	PTPRH_HUMAN	protein tyrosine phosphatase, receptor type, H	961	Cytoplasmic (Potential).|Tyrosine-protein phosphatase.				apoptosis	cytoplasm|integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(2)|large_intestine(1)	3		Renal(1328;0.245)	BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0479)										0.315315	87.983146	91.352807	35	76	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	60389061	60389061	13260	19	C	T	T	23	23	PTPRH	T	1	1
VAV1	7409	broad.mit.edu	36	19	6805042	6805042	+	Missense_Mutation	SNP	G	C	C			TCGA-12-0820-01	TCGA-12-0820-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr19:6805042G>C	uc002mfu.1	+	c.2417G>C	c.(2416-2418)GGT>GCT	p.G806A	VAV1_uc010dva.1_Missense_Mutation_p.G784A|VAV1_uc002mfv.1_Missense_Mutation_p.G751A	NM_005428	NP_005419	P15498	VAV_HUMAN	vav 1 guanine nucleotide exchange factor	806	SH3 2.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|T cell costimulation	cytosol|plasma membrane	metal ion binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(3)|lung(2)|central_nervous_system(2)|kidney(2)|skin(1)	10										494				0.307554	457.686008	476.130048	171	385	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	6805042	6805042	17696	19	G	C	C	44	44	VAV1	C	3	3
FAM46C	54855	broad.mit.edu	36	1	117967524	117967524	+	Missense_Mutation	SNP	G	A	A			TCGA-12-0820-01	TCGA-12-0820-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr1:117967524G>A	uc001ehe.1	+	c.511G>A	c.(511-513)GAC>AAC	p.D171N	FAM46C_uc009whh.1_Missense_Mutation_p.D171N	NM_017709	NP_060179	Q5VWP2	FA46C_HUMAN	hypothetical protein LOC54855	171											0	Lung SC(450;0.225)	all_cancers(81;0.000101)|all_lung(203;3.4e-06)|all_epithelial(167;4.98e-06)|Lung NSC(69;2.33e-05)		Lung(183;0.0576)|LUSC - Lung squamous cell carcinoma(189;0.192)|Colorectal(144;0.247)							Multiple Myeloma(3;1.13e-06)			0.418919	475.359405	477.481501	155	215	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	117967524	117967524	5788	1	G	A	A	37	37	FAM46C	A	1	1
KPRP	448834	broad.mit.edu	36	1	150999359	150999359	+	Missense_Mutation	SNP	G	A	A			TCGA-12-0820-01	TCGA-12-0820-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr1:150999359G>A	uc001fal.1	+	c.671G>A	c.(670-672)CGG>CAG	p.R224Q	KPRP_uc009wnn.1_Missense_Mutation_p.R224Q	NM_001025231	NP_001020402	Q5T749	KPRP_HUMAN	keratinocyte proline-rich protein	224						cytoplasm				ovary(4)|pancreas(1)	5	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)											0.35503	344.695351	350.957862	120	218	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	150999359	150999359	8751	1	G	A	A	39	39	KPRP	A	1	1
IFI16	3428	broad.mit.edu	36	1	157290086	157290086	+	Missense_Mutation	SNP	C	T	T			TCGA-12-0820-01	TCGA-12-0820-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr1:157290086C>T	uc001ftg.1	+	c.2057C>T	c.(2056-2058)CCG>CTG	p.P686L	IFI16_uc001fti.2_Missense_Mutation_p.P686L|IFI16_uc001fth.1_Missense_Mutation_p.P229L	NM_005531	NP_005522	Q16666	IF16_HUMAN	interferon, gamma-inducible protein 16	742	HIN-200 2.				cell proliferation|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|monocyte differentiation|regulation of transcription, DNA-dependent|response to virus|transcription, DNA-dependent	cytoplasm|nucleolus|nucleoplasm	double-stranded DNA binding|transcription repressor activity			ovary(1)	1	all_hematologic(112;0.0429)													0.32	173.441825	178.477507	56	119	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	157290086	157290086	7812	1	C	T	T	23	23	IFI16	T	1	1
OR10J3	441911	broad.mit.edu	36	1	157550879	157550879	+	Nonsense_Mutation	SNP	G	T	T			TCGA-12-0820-01	TCGA-12-0820-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr1:157550879G>T	uc001ftr.1	-	c.195C>A	c.(193-195)TGC>TGA	p.C65*		NM_001004467	NP_001004467	Q5JRS4	O10J3_HUMAN	olfactory receptor, family 10, subfamily J,	65	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	all_hematologic(112;0.0429)													0.435294	108.95449	109.265842	37	48	GG		KEEP	---	---	---	---	capture			Nonsense_Mutation	SNP	157550879	157550879	11317	1	G	T	T	46	46	OR10J3	T	5	3
SRC	6714	broad.mit.edu	36	20	35464291	35464291	+	Missense_Mutation	SNP	G	A	A			TCGA-12-0820-01	TCGA-12-0820-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr20:35464291G>A	uc002xgx.1	+	c.1156G>A	c.(1156-1158)GTC>ATC	p.V386I	SRC_uc002xgy.1_Missense_Mutation_p.V386I	NM_005417	NP_938033	P12931	SRC_HUMAN	proto-oncogene tyrosine-protein kinase SRC	386	Protein kinase.				axon guidance|bone resorption|cell junction assembly|cellular membrane organization|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|interspecies interaction between organisms|intracellular protein kinase cascade|leukocyte migration|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of integrin activation|Ras protein signal transduction|regulation of bone resorption|regulation of vascular permeability|response to interleukin-1|signal complex assembly|T cell costimulation	caveola|cytosol|mitochondrial inner membrane	ATP binding|heme binding|integrin binding|ion channel binding|non-membrane spanning protein tyrosine kinase activity|SH2 domain binding|SH3/SH2 adaptor activity			large_intestine(10)|lung(1)|central_nervous_system(1)|endometrium(1)	13		Myeloproliferative disorder(115;0.00878)			Dasatinib(DB01254)					463				0.227273	420.30239	474.236763	180	612	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	35464291	35464291	15648	20	G	A	A	40	40	SRC	A	1	1
TUBGCP6	85378	broad.mit.edu	36	22	49024932	49024932	+	Silent	SNP	C	T	T			TCGA-12-0820-01	TCGA-12-0820-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr22:49024932C>T	uc003bkb.1	-	c.84G>A	c.(82-84)GTG>GTA	p.V28V	TUBGCP6_uc010har.1_Silent_p.V28V|TUBGCP6_uc010has.1_Non-coding_Transcript|TUBGCP6_uc010hau.1_Silent_p.V28V	NM_020461	NP_065194	Q96RT7	GCP6_HUMAN	tubulin, gamma complex associated protein 6	28					G2/M transition of mitotic cell cycle|microtubule nucleation	cytosol|gamma-tubulin ring complex|microtubule|spindle pole	microtubule binding			ovary(2)|central_nervous_system(2)	4		all_cancers(38;5.79e-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)		LUAD - Lung adenocarcinoma(64;0.109)|BRCA - Breast invasive adenocarcinoma(115;0.21)										0.687861	339.689938	345.102655	119	54	CC		KEEP	---	---	---	---	capture			Silent	SNP	49024932	49024932	17325	22	C	T	T	29	29	TUBGCP6	T	2	2
ROCK2	9475	broad.mit.edu	36	2	11272623	11272623	+	Missense_Mutation	SNP	G	C	C			TCGA-12-0820-01	TCGA-12-0820-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr2:11272623G>C	uc002rbd.1	-	c.1730C>G	c.(1729-1731)ACT>AGT	p.T577S		NM_004850	NP_004841	O75116	ROCK2_HUMAN	Rho-associated, coiled-coil containing protein	577	Potential.				axon guidance|cytokinesis|intracellular signal transduction|protein phosphorylation	cytosol|plasma membrane	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|structural molecule activity			skin(2)|stomach(1)	3	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.137)|OV - Ovarian serous cystadenocarcinoma(76;0.162)						587				0.401235	185.240519	186.622085	65	97	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	11272623	11272623	13997	2	G	C	C	36	36	ROCK2	C	3	3
GLI2	2736	broad.mit.edu	36	2	121425368	121425368	+	Missense_Mutation	SNP	G	A	A			TCGA-12-0820-01	TCGA-12-0820-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr2:121425368G>A	uc010flp.1	+	c.334G>A	c.(334-336)GAG>AAG	p.E112K	GLI2_uc002tmq.1_Intron|GLI2_uc002tmr.1_Intron|GLI2_uc002tmt.2_Intron|GLI2_uc002tmu.2_Intron|GLI2_uc002tmv.1_Intron|GLI2_uc010flo.1_5'UTR|GLI2_uc002tmw.1_Missense_Mutation_p.E112K	NM_005270	NP_005261	P10070	GLI2_HUMAN	GLI-Kruppel family member GLI2	112					axon guidance|branching morphogenesis of a tube|cell proliferation|cerebellar cortex morphogenesis|developmental growth|embryonic digestive tract development|epidermal cell differentiation|floor plate formation|heart development|hindgut morphogenesis|kidney development|lung development|negative regulation of transcription from RNA polymerase II promoter|odontogenesis of dentine-containing tooth|osteoblast development|osteoblast differentiation|pituitary gland development|positive regulation of DNA replication|positive regulation of T cell differentiation in thymus|positive regulation of transcription from RNA polymerase II promoter|proximal/distal pattern formation|skeletal system development|smoothened signaling pathway involved in ventral spinal cord interneuron specification|spinal cord ventral commissure morphogenesis	nucleus|nucleus	protein binding|sequence-specific DNA binding transcription factor activity|transcription activator activity|zinc ion binding			ovary(7)|central_nervous_system(1)	8	Renal(3;0.0496)	Prostate(154;0.0623)								376				0.578947	63.941658	64.14662	22	16	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	121425368	121425368	6706	2	G	A	A	41	41	GLI2	A	2	2
STK39	27347	broad.mit.edu	36	2	168581799	168581799	+	Missense_Mutation	SNP	C	G	G			TCGA-12-0820-01	TCGA-12-0820-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr2:168581799C>G	uc002uea.1	-	c.1429G>C	c.(1429-1431)GAT>CAT	p.D477H		NM_013233	NP_037365	Q9UEW8	STK39_HUMAN	serine threonine kinase 39 (STE20/SPS1 homolog,	477					protein phosphorylation|response to stress	cytoplasm|nucleus	ATP binding|receptor signaling protein serine/threonine kinase activity			central_nervous_system(1)|skin(1)	2										264				0.328	105.332305	108.611617	41	84	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	168581799	168581799	15825	2	C	G	G	24	24	STK39	G	3	3
FASTKD1	79675	broad.mit.edu	36	2	170094610	170094610	+	Missense_Mutation	SNP	T	C	C			TCGA-12-0820-01	TCGA-12-0820-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr2:170094610T>C	uc002uev.2	-	c.2515A>G	c.(2515-2517)ATA>GTA	p.I839V	FASTKD1_uc002uew.2_Non-coding_Transcript|FASTKD1_uc002uex.2_Missense_Mutation_p.I782V	NM_024622	NP_078898	Q53R41	FAKD1_HUMAN	FAST kinase domains 1	839					apoptosis|cellular respiration	mitochondrion	ATP binding|protein kinase activity			ovary(4)	4														0.376712	481.768394	487.609925	165	273	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	170094610	170094610	5921	2	T	C	C	49	49	FASTKD1	C	4	4
INPP5D	3635	broad.mit.edu	36	2	233703467	233703467	+	Missense_Mutation	SNP	C	T	T			TCGA-12-0820-01	TCGA-12-0820-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr2:233703467C>T	uc002vtv.1	+	c.530C>T	c.(529-531)CCA>CTA	p.P177L	INPP5D_uc002vtw.1_Missense_Mutation_p.P176L	NM_001017915	NP_001017915	Q92835	SHIP1_HUMAN	SH2 containing inositol phosphatase isoform a	177					apoptosis|blood coagulation|leukocyte migration|T cell receptor signaling pathway	cytosol	inositol-polyphosphate 5-phosphatase activity|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|SH3 domain binding			ovary(1)|central_nervous_system(1)	2		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0273)|Acute lymphoblastic leukemia(138;0.0328)|Lung NSC(271;0.0843)		Epithelial(121;1.16e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000479)|LUSC - Lung squamous cell carcinoma(224;0.00655)|Lung(119;0.00802)|GBM - Glioblastoma multiforme(43;0.0185)		NSCLC(82;1215 1426 16163 20348 41018)			p.P177L(COLO668-Tumor)	816				0.104895	22.907157	67.261513	30	256	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	233703467	233703467	8057	2	C	T	T	21	21	INPP5D	T	2	2
SH3BP4	23677	broad.mit.edu	36	2	235616616	235616616	+	Missense_Mutation	SNP	A	C	C			TCGA-12-0820-01	TCGA-12-0820-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr2:235616616A>C	uc002vvp.1	+	c.2464A>C	c.(2464-2466)AAG>CAG	p.K822Q	SH3BP4_uc010fym.1_Missense_Mutation_p.K804Q|SH3BP4_uc002vvq.1_Missense_Mutation_p.K822Q	NM_014521	NP_055336	Q9P0V3	SH3B4_HUMAN	SH3-domain binding protein 4	822					endocytosis	clathrin-coated vesicle|coated pit|nucleus	protein binding			ovary(1)|skin(1)	2		Breast(86;0.000332)|Renal(207;0.00339)|all_lung(227;0.00458)|all_hematologic(139;0.0296)|Lung NSC(271;0.0419)		Epithelial(121;7.66e-20)|BRCA - Breast invasive adenocarcinoma(100;0.000402)|Lung(119;0.00299)|LUSC - Lung squamous cell carcinoma(224;0.00645)|GBM - Glioblastoma multiforme(43;0.237)										0.174603	12.375618	18.692277	11	52	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	235616616	235616616	14737	2	A	C	C	9	9	SH3BP4	C	4	4
CLEC4F	165530	broad.mit.edu	36	2	70896761	70896761	+	Missense_Mutation	SNP	C	A	A			TCGA-12-0820-01	TCGA-12-0820-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr2:70896761C>A	uc002shf.1	-	c.1260G>T	c.(1258-1260)GAG>GAT	p.E420D		NM_173535	NP_775806	Q8N1N0	CLC4F_HUMAN	C-type lectin, superfamily member 13	420	Extracellular (Potential).				endocytosis	integral to membrane	receptor activity|sugar binding			ovary(5)	5						Colon(107;10 2157 6841 26035)								0.354839	58.529999	59.682085	22	40	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	70896761	70896761	3654	2	C	A	A	32	32	CLEC4F	A	3	3
RETSAT	54884	broad.mit.edu	36	2	85425356	85425357	+	Missense_Mutation	DNP	CT	AA	AA			TCGA-12-0820-01	TCGA-12-0820-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:85425356_85425357CT>AA	uc002spd.1	-	c.1127_1128AG>TT	c.(1126-1128)CAG>CTT	p.Q376L	RETSAT_uc010fge.1_Non-coding_Transcript|RETSAT_uc010fgf.1_Missense_Mutation_p.Q167L	NM_017750	NP_060220	Q6NUM9	RETST_HUMAN	all-trans-13,14-dihydroretinol saturase	376					oxidation-reduction process|retinol metabolic process	endoplasmic reticulum membrane|nuclear outer membrane	all-trans-retinol 13,14-reductase activity|electron carrier activity			ovary(1)	1					Vitamin A(DB00162)									0.1875	10.939994	15.344202	9	39	CC		KEEP	---	---	---	---	capture			Missense_Mutation	DNP	85425356	85425357	13708	2	CT	AA	AA	28	28	RETSAT	AA	3	3
EIF5B	9669	broad.mit.edu	36	2	99382260	99382260	+	Missense_Mutation	SNP	G	A	A			TCGA-12-0820-01	TCGA-12-0820-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr2:99382260G>A	uc002tab.1	+	c.3614G>A	c.(3613-3615)AGT>AAT	p.S1205N		NM_015904	NP_056988	O60841	IF2P_HUMAN	eukaryotic translation initiation factor 5B	1205					regulation of translational initiation	cytosol	GTP binding|GTPase activity|protein binding|translation initiation factor activity			ovary(1)|pancreas(1)	2						Colon(162;2388 2567 2705 3444)								0.305936	192.528546	199.893166	67	152	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	99382260	99382260	5235	2	G	A	A	36	36	EIF5B	A	2	2
XRN1	54464	broad.mit.edu	36	3	143531148	143531148	+	Splice_Site_SNP	SNP	C	T	T			TCGA-12-0820-01	TCGA-12-0820-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr3:143531148C>T	uc003eus.1	-	c.e37_splice_site			XRN1_uc010huu.1_Splice_Site_SNP|XRN1_uc003eut.1_Splice_Site_SNP|XRN1_uc003euu.1_Splice_Site_SNP	NM_019001	NP_061874			5'-3' exoribonuclease 1 isoform a						exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|histone mRNA catabolic process|nuclear mRNA surveillance|rRNA catabolic process	cytosol|Golgi apparatus|intermediate filament cytoskeleton|plasma membrane	5'-3' exonuclease activity|DNA binding|protein binding|RNA binding			ovary(3)	3														0.290323	48.82755	51.268686	18	44	CC		KEEP	---	---	---	---	capture			Splice_Site_SNP	SNP	143531148	143531148	18042	3	C	T	T	28	28	XRN1	T	5	2
TRPC1	7220	broad.mit.edu	36	3	143926154	143926154	+	Silent	SNP	C	G	G			TCGA-12-0820-01	TCGA-12-0820-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr3:143926154C>G	uc003evc.1	+	c.63C>G	c.(61-63)TCC>TCG	p.S21S	TRPC1_uc003evb.1_Silent_p.S21S	NM_003304	NP_003295	P48995	TRPC1_HUMAN	transient receptor potential cation channel,	21	Cytoplasmic (Potential).				axon guidance|cytosolic calcium ion homeostasis|positive regulation of release of sequestered calcium ion into cytosol|response to calcium ion	integral to plasma membrane	protein binding|store-operated calcium channel activity			ovary(2)	2														0.454545	10.366862	10.3873	5	6	CC		KEEP	---	---	---	---	capture			Silent	SNP	143926154	143926154	17129	3	C	G	G	24	24	TRPC1	G	3	3
SIAH2	6478	broad.mit.edu	36	3	151963063	151963063	+	Silent	SNP	C	G	G			TCGA-12-0820-01	TCGA-12-0820-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr3:151963063C>G	uc003eyi.1	-	c.264G>C	c.(262-264)CTG>CTC	p.L88L		NM_005067	NP_005058	O43255	SIAH2_HUMAN	seven in absentia homolog 2	88	RING-type.				apoptosis|axon guidance|cell cycle|negative regulation of canonical Wnt receptor signaling pathway|small GTPase mediated signal transduction|ubiquitin-dependent protein catabolic process	cytosol|nucleus	transcription corepressor activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)	2			LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)											0.204545	12.845183	16.419686	9	35	CC		KEEP	---	---	---	---	capture			Silent	SNP	151963063	151963063	14795	3	C	G	G	25	25	SIAH2	G	3	3
KIT	3815	broad.mit.edu	36	4	55260687	55260687	+	Missense_Mutation	SNP	C	G	G			TCGA-12-0820-01	TCGA-12-0820-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr4:55260687C>G	uc010igr.1	+	c.754C>G	c.(754-756)CAG>GAG	p.Q252E	KIT_uc010igs.1_Missense_Mutation_p.Q252E	NM_000222	NP_000213	P10721	KIT_HUMAN	v-kit Hardy-Zuckerman 4 feline sarcoma viral	252	Extracellular (Potential).|Ig-like C2-type 3.				male gonad development|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular space|integral to membrane	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity			soft_tissue(3041)|haematopoietic_and_lymphoid_tissue(1544)|skin(98)|testis(49)|bone(21)|genital_tract(18)|kidney(17)|ovary(16)|salivary_gland(15)|large_intestine(10)|lung(6)|thymus(5)|central_nervous_system(4)|NS(3)|eye(2)|endometrium(2)|breast(1)|stomach(1)|autonomic_ganglia(1)|pancreas(1)	4855	all_cancers(7;0.00453)|all_lung(4;0.000565)|Lung NSC(11;0.00129)|all_epithelial(27;0.0104)|Glioma(25;0.08)|all_neural(26;0.101)		LUSC - Lung squamous cell carcinoma(32;0.000276)|Epithelial(7;0.209)	Colorectal(1;0.0276)|COAD - Colon adenocarcinoma(1;0.171)	Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)			1		431				0.39726	442.695642	446.066581	145	220	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	55260687	55260687	8641	4	C	G	G	29	29	KIT	G	3	3
SYNE1	23345	broad.mit.edu	36	6	152583794	152583794	+	Missense_Mutation	SNP	T	C	C			TCGA-12-0820-01	TCGA-12-0820-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr6:152583794T>C	uc010kiw.1	-	c.21737A>G	c.(21736-21738)GAC>GGC	p.D7246G	SYNE1_uc003qor.2_Missense_Mutation_p.D146G|SYNE1_uc010kiv.1_Missense_Mutation_p.D1770G|SYNE1_uc003qos.2_Missense_Mutation_p.D1770G|SYNE1_uc003qot.2_Missense_Mutation_p.D7175G|SYNE1_uc003qou.2_Missense_Mutation_p.D7246G	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	7246	HAT 10.|Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|ovary(8)|large_intestine(5)|pancreas(2)	30		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)										0.222864	445.404509	506.635033	193	673	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	152583794	152583794	15966	6	T	C	C	58	58	SYNE1	C	4	4
NOX3	50508	broad.mit.edu	36	6	155785627	155785627	+	Missense_Mutation	SNP	C	A	A			TCGA-12-0820-01	TCGA-12-0820-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr6:155785627C>A	uc003qqm.1	-	c.1201G>T	c.(1201-1203)GTG>TTG	p.V401L		NM_015718	NP_056533	Q9HBY0	NOX3_HUMAN	NADPH oxidase 3	401	Helical; (Potential).				oxidation-reduction process		electron carrier activity|flavin adenine dinucleotide binding|iron ion binding			ovary(1)	1		Breast(66;0.0183)		OV - Ovarian serous cystadenocarcinoma(155;2.18e-12)|BRCA - Breast invasive adenocarcinoma(81;0.00815)										0.401786	132.65235	133.596641	45	67	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	155785627	155785627	10961	6	C	A	A	20	20	NOX3	A	3	3
GLP1R	2740	broad.mit.edu	36	6	39141577	39141577	+	Silent	SNP	G	A	A			TCGA-12-0820-01	TCGA-12-0820-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr6:39141577G>A	uc003ooj.2	+	c.396G>A	c.(394-396)GGG>GGA	p.G132G	GLP1R_uc003ooh.2_Non-coding_Transcript|GLP1R_uc003ooi.2_Non-coding_Transcript	NM_002062	NP_002053	P43220	GLP1R_HUMAN	glucagon-like peptide 1 receptor	132	Extracellular (Potential).				activation of adenylate cyclase activity|cAMP-mediated signaling|elevation of cytosolic calcium ion concentration|energy reserve metabolic process|regulation of insulin secretion	integral to membrane|plasma membrane	glucagon receptor activity|peptide receptor activity, G-protein coupled			lung(1)|pancreas(1)	2					Exenatide(DB01276)|Glucagon recombinant(DB00040)									0.6	50.12907	50.347715	15	10	GG		KEEP	---	---	---	---	capture			Silent	SNP	39141577	39141577	6720	6	G	A	A	43	43	GLP1R	A	2	2
PRSS35	167681	broad.mit.edu	36	6	84290772	84290772	+	Missense_Mutation	SNP	C	T	T			TCGA-12-0820-01	TCGA-12-0820-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr6:84290772C>T	uc003pjz.1	+	c.893C>T	c.(892-894)ACG>ATG	p.T298M	PRSS35_uc010kbm.1_Missense_Mutation_p.T298M|PRSS35_uc010kbn.1_Missense_Mutation_p.T298M	NM_153362	NP_699193	Q8N3Z0	PRS35_HUMAN	protease, serine, 35	298	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			ovary(1)	1		all_cancers(76;0.000113)|Acute lymphoblastic leukemia(125;1.09e-08)|all_hematologic(105;3.12e-05)|all_epithelial(107;0.0575)		BRCA - Breast invasive adenocarcinoma(397;0.0768)										0.343284	66.304363	67.75809	23	44	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	84290772	84290772	13074	6	C	T	T	19	19	PRSS35	T	1	1
OR2A14	135941	broad.mit.edu	36	7	143458027	143458027	+	Missense_Mutation	SNP	A	C	C			TCGA-12-0820-01	TCGA-12-0820-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr7:143458027A>C	uc003wdy.1	+	c.889A>C	c.(889-891)AAG>CAG	p.K297Q		NM_001001659	NP_001001659	Q96R47	O2A14_HUMAN	olfactory receptor, family 2, subfamily A,	297	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Melanoma(164;0.0783)													0.25	14.165658	15.301596	5	15	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	143458027	143458027	11382	7	A	C	C	5	5	OR2A14	C	4	4
CNTNAP2	26047	broad.mit.edu	36	7	146460522	146460522	+	Missense_Mutation	SNP	G	A	A			TCGA-12-0820-01	TCGA-12-0820-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr7:146460522G>A	uc003weu.1	+	c.1336G>A	c.(1336-1338)GAT>AAT	p.D446N		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	446	Extracellular (Potential).|Laminin G-like 2.				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)											0.251462	422.280419	460.669841	172	512	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	146460522	146460522	3785	7	G	A	A	37	37	CNTNAP2	A	1	1
GRM3	2913	broad.mit.edu	36	7	86253889	86253889	+	Missense_Mutation	SNP	G	A	A			TCGA-12-0820-01	TCGA-12-0820-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr7:86253889G>A	uc003uid.1	+	c.845G>A	c.(844-846)CGG>CAG	p.R282Q	GRM3_uc010lef.1_Missense_Mutation_p.R280Q|GRM3_uc010leg.1_Missense_Mutation_p.R154Q|GRM3_uc010leh.1_Intron	NM_000840	NP_000831	Q14832	GRM3_HUMAN	glutamate receptor, metabotropic 3 precursor	282	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				ovary(3)|central_nervous_system(2)	5	Esophageal squamous(14;0.0058)|all_lung(186;0.132)|Lung NSC(181;0.142)				Acamprosate(DB00659)|Nicotine(DB00184)	GBM(52;969 1098 3139 52280)								0.241935	34.387538	38.163951	15	47	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	86253889	86253889	7077	7	G	A	A	39	39	GRM3	A	1	1
RB1CC1	9821	broad.mit.edu	36	8	53703245	53703245	+	Silent	SNP	G	A	A			TCGA-12-0820-01	TCGA-12-0820-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr8:53703245G>A	uc003xre.2	-	c.4536C>T	c.(4534-4536)GAC>GAT	p.D1512D	RB1CC1_uc003xrf.2_Silent_p.D1512D	NM_014781	NP_055596	Q8TDY2	RBCC1_HUMAN	Rb1-inducible coiled coil protein 1 isoform 1	1512					autophagy|cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus|pre-autophagosomal structure|ULK1-ATG13-FIP200 complex	protein binding			ovary(8)|large_intestine(1)	9		all_cancers(86;0.137)|all_epithelial(80;0.00494)|Lung NSC(129;0.011)|all_lung(136;0.023)				GBM(180;1701 2102 13475 42023 52570)								0.344828	91.827843	93.675867	30	57	GG		KEEP	---	---	---	---	capture			Silent	SNP	53703245	53703245	13560	8	G	A	A	40	40	RB1CC1	A	1	1
NSMAF	8439	broad.mit.edu	36	8	59674428	59674428	+	Missense_Mutation	SNP	T	A	A			TCGA-12-0820-01	TCGA-12-0820-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr8:59674428T>A	uc003xtt.1	-	c.1502A>T	c.(1501-1503)TAT>TTT	p.Y501F		NM_003580	NP_003571	Q92636	FAN_HUMAN	neutral sphingomyelinase (N-SMase) activation	501	BEACH.				ceramide metabolic process	cytoplasm|soluble fraction	protein binding|receptor signaling protein activity			ovary(1)	1		all_lung(136;0.174)|Lung NSC(129;0.2)												0.386861	154.442881	155.979275	53	84	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	59674428	59674428	11079	8	T	A	A	49	49	NSMAF	A	4	4
TNKS	8658	broad.mit.edu	36	8	9599605	9599605	+	Missense_Mutation	SNP	C	T	T			TCGA-12-0820-01	TCGA-12-0820-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr8:9599605C>T	uc003wss.1	+	c.1130C>T	c.(1129-1131)GCG>GTG	p.A377V		NM_003747	NP_003738	O95271	TNKS1_HUMAN	tankyrase, TRF1-interacting ankyrin-related	377	ANK 4.				mitotic spindle organization|mRNA transport|negative regulation of DNA binding|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of telomere maintenance via telomerase|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein poly-ADP-ribosylation|protein transport|spindle assembly|transmembrane transport	chromosome, centromeric region|Golgi membrane|microsome|nuclear chromosome, telomeric region|nuclear membrane|nuclear pore|pericentriolar material	NAD+ ADP-ribosyltransferase activity|protein binding|zinc ion binding			ovary(1)|kidney(1)	2				COAD - Colon adenocarcinoma(149;0.0467)										0.401235	196.638844	198.021619	65	97	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	9599605	9599605	16860	8	C	T	T	27	27	TNKS	T	1	1
LHFPL1	340596	broad.mit.edu	36	X	111761373	111761373	+	Missense_Mutation	SNP	T	C	C			TCGA-12-0820-01	TCGA-12-0820-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chrX:111761373T>C	uc004epp.1	-	c.663A>G	c.(661-663)ATA>ATG	p.I221M	LHFPL1_uc004epq.1_Missense_Mutation_p.I198M|LHFPL1_uc010nqa.1_Non-coding_Transcript|LHFPL1_uc010nqb.1_Missense_Mutation_p.I165M	NM_178175	NP_835469	Q86WI0	LHPL1_HUMAN	lipoma HMGIC fusion partner-like 1	198						integral to membrane					0														0.845528	378.380901	392.422624	104	19	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	111761373	111761373	9090	23	T	C	C	49	49	LHFPL1	C	4	4
IRX3	79191	broad.mit.edu	36	16	52876587	52876588	+	Frame_Shift_Ins	INS	-	C	C			TCGA-12-0820-01	TCGA-12-0820-01										Phase_I	Unspecified				Illumina GAIIx	g.chr16:52876587_52876588insC	uc002eht.1	-	c.706_707insG	c.(706-708)GAGfs	p.E236fs		NM_024336	NP_077312	P78415	IRX3_HUMAN	iroquois homeobox 3	236	Asp/Glu-rich (acidic).				multicellular organismal development|regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulator activity				0						GBM(143;1830 1866 4487 4646 37383)								0.33			2	4				---	---	---	---	capture_indel			Frame_Shift_Ins	INS	52876587	52876588	8149	16	-	C	C	54	54	IRX3	C	5	5
TEKT3	64518	broad.mit.edu	36	17	15163156	15163159	+	Frame_Shift_Del	DEL	TTCT	-	-			TCGA-12-0820-01	TCGA-12-0820-01										Phase_I	Unspecified				Illumina GAIIx	g.chr17:15163156_15163159delTTCT	uc002gom.1	-	c.694_697delAGAA	c.(694-699)AGAATGfs	p.R232fs	TEKT3_uc002gon.1_Frame_Shift_Del_p.R232fs	NM_031898	NP_114104	Q9BXF9	TEKT3_HUMAN	tektin 3	232_233					microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(2)	2				UCEC - Uterine corpus endometrioid carcinoma (92;0.0877)										0.33			18	37				---	---	---	---	capture_indel			Frame_Shift_Del	DEL	15163156	15163159	16281	17	TTCT	-	-	52	52	TEKT3	-	5	5
HSPG2	3339	broad.mit.edu	36	1	22046504	22046505	+	In_Frame_Ins	INS	-	CAT	CAT			TCGA-12-0820-01	TCGA-12-0820-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:22046504_22046505insCAT	uc009vqd.1	-	c.8096_8097insATG	c.(8095-8097)GCC>GCATGC	p.2699_2700insC	HSPG2_uc001bfj.1_In_Frame_Ins_p.2698_2699insC	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2	2698_2699	Ig-like C2-type 12.				angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)	8		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)									0.35			14	26				---	---	---	---	capture_indel			In_Frame_Ins	INS	22046504	22046505	7730	1	-	CAT	CAT	47	47	HSPG2	CAT	5	5
POU3F2	5454	broad.mit.edu	36	6	99390748	99390749	+	Frame_Shift_Ins	INS	-	G	G			TCGA-12-0820-01	TCGA-12-0820-01										Phase_I	Unspecified				Illumina GAIIx	g.chr6:99390748_99390749insG	uc003ppe.1	+	c.1278_1279insG	c.(1276-1281)TACGGGfs	p.Y426fs		NM_005604	NP_005595	P20265	PO3F2_HUMAN	POU domain, class 3, transcription factor 2	426_427					positive regulation of cell proliferation		identical protein binding|sequence-specific DNA binding transcription factor activity|transcription regulator activity				0		all_cancers(76;1.56e-06)|Acute lymphoblastic leukemia(125;4.93e-10)|all_hematologic(75;3.55e-07)|all_epithelial(107;0.00893)|Colorectal(196;0.069)|Lung NSC(302;0.197)		BRCA - Breast invasive adenocarcinoma(108;0.0355)										0.33			2	4				---	---	---	---	capture_indel			Frame_Shift_Ins	INS	99390748	99390749	12705	6	-	G	G	19	19	POU3F2	G	5	5
