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
KIAA1377	57562	broad.mit.edu	36	11	101320223	101320223	+	Missense_Mutation	SNP	G	A	A			TCGA-06-0173-01	TCGA-06-0173-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr11:101320223G>A	uc001pgm.1	+	c.266G>A	c.(265-267)CGA>CAA	p.R89Q	KIAA1377_uc001pgn.1_Missense_Mutation_p.R45Q|KIAA1377_uc009yxa.1_5'UTR	NM_020802	NP_065853	Q9P2H0	K1377_HUMAN	hypothetical protein LOC57562	89	Potential.						protein binding			breast(2)|ovary(1)|central_nervous_system(1)	4	all_epithelial(12;0.0104)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.00931)												0.382979	53.739425	54.303611	18	29	GG		KEEP	---	---	---	---	capture		BRCA - Breast invasive adenocarcinoma(274;0.038)	Missense_Mutation	SNP	101320223	101320223	8536	11	G	A	A	37	37	KIAA1377	A	1	1
UBASH3B	84959	broad.mit.edu	36	11	122159008	122159008	+	Silent	SNP	G	A	A			TCGA-06-0173-01	TCGA-06-0173-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr11:122159008G>A	uc001pyi.2	+	c.639G>A	c.(637-639)GTG>GTA	p.V213V		NM_032873	NP_116262	Q8TF42	UBS3B_HUMAN	ubiquitin associated and SH3 domain containing,	213						cytoplasm|nucleus	protein tyrosine phosphatase activity			central_nervous_system(1)	1		Breast(109;0.00254)|Medulloblastoma(222;0.00877)|Lung NSC(97;0.0183)|all_lung(97;0.0186)|all_neural(223;0.0381)|all_hematologic(192;0.104)												0.422043	450.797315	452.770941	157	215	GG		KEEP	---	---	---	---	capture		BRCA - Breast invasive adenocarcinoma(274;1.37e-05)|OV - Ovarian serous cystadenocarcinoma(99;0.0463)	Silent	SNP	122159008	122159008	17397	11	G	A	A	45	45	UBASH3B	A	2	2
APLP2	334	broad.mit.edu	36	11	129510745	129510745	+	Missense_Mutation	SNP	G	A	A			TCGA-06-0173-01	TCGA-06-0173-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr11:129510745G>A	uc001qft.1	+	c.1762G>A	c.(1762-1764)GTG>ATG	p.V588M	APLP2_uc001qfp.1_Missense_Mutation_p.V588M|APLP2_uc001qfq.1_Missense_Mutation_p.V532M|APLP2_uc001qfr.1_Missense_Mutation_p.V354M|APLP2_uc001qfs.1_Missense_Mutation_p.V359M|APLP2_uc001qfv.1_Missense_Mutation_p.V479M	NM_001642	NP_001633	Q06481	APLP2_HUMAN	amyloid beta (A4) precursor-like protein 2	588	Extracellular (Potential).				G-protein coupled receptor protein signaling pathway	integral to membrane|nucleus|plasma membrane	DNA binding|identical protein binding|serine-type endopeptidase inhibitor activity			ovary(3)	3	all_hematologic(175;0.0429)	Breast(109;0.00586)|Lung NSC(97;0.00785)|all_lung(97;0.0154)|Medulloblastoma(222;0.0523)|all_neural(223;0.186)												0.401639	144.178905	145.2018	49	73	GG		KEEP	---	---	---	---	capture		OV - Ovarian serous cystadenocarcinoma(99;0.0197)|Lung(977;0.24)	Missense_Mutation	SNP	129510745	129510745	790	11	G	A	A	44	44	APLP2	A	2	2
OR51E2	81285	broad.mit.edu	36	11	4659643	4659643	+	Missense_Mutation	SNP	C	G	G			TCGA-06-0173-01	TCGA-06-0173-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr11:4659643C>G	uc001lzk.1	-	c.875G>C	c.(874-876)GGT>GCT	p.G292A	OR51E2_uc009yel.1_Missense_Mutation_p.G292A	NM_030774	NP_110401	Q9H255	O51E2_HUMAN	olfactory receptor, family 51, subfamily E,	292	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)												0.349515	119.671287	121.728503	36	67	CC		KEEP	---	---	---	---	capture		Epithelial(150;3e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00476)|LUSC - Lung squamous cell carcinoma(625;0.2)	Missense_Mutation	SNP	4659643	4659643	11505	11	C	G	G	18	18	OR51E2	G	3	3
MYBPC3	4607	broad.mit.edu	36	11	47313218	47313218	+	Silent	SNP	A	C	C			TCGA-06-0173-01	TCGA-06-0173-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr11:47313218A>C	uc001nfa.2	-	c.2856T>G	c.(2854-2856)CCT>CCG	p.P952P		NM_000256	NP_000247	Q14896	MYPC3_HUMAN	myosin binding protein C, cardiac	951	Fibronectin type-III 2.				cardiac muscle contraction|cell adhesion|muscle filament sliding|regulation of muscle filament sliding|regulation of striated muscle contraction|ventricular cardiac muscle tissue morphogenesis	C zone|cytosol|striated muscle myosin thick filament	actin binding|ATPase activator activity|metal ion binding|myosin heavy chain binding|structural constituent of muscle|titin binding			ovary(2)|central_nervous_system(1)	3														0.266667	7.990403	8.730733	4	11	AA		KEEP	---	---	---	---	capture		Lung(87;0.176)	Silent	SNP	47313218	47313218	10408	11	A	C	C	7	7	MYBPC3	C	4	4
OR5I1	10798	broad.mit.edu	36	11	55460109	55460109	+	Missense_Mutation	SNP	A	T	T			TCGA-06-0173-01	TCGA-06-0173-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr11:55460109A>T	uc001nic.1	-	c.344T>A	c.(343-345)TTC>TAC	p.F115Y		NM_006637	NP_006628	Q13606	OR5I1_HUMAN	olfactory receptor, family 5, subfamily I,	115	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1														0.293103	41.150059	43.37432	17	41	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	55460109	55460109	11574	11	A	T	T	9	9	OR5I1	T	4	4
SLC22A9	114571	broad.mit.edu	36	11	62930691	62930691	+	Missense_Mutation	SNP	G	A	A			TCGA-06-0173-01	TCGA-06-0173-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr11:62930691G>A	uc001nww.1	+	c.1220G>A	c.(1219-1221)CGA>CAA	p.R407Q	SLC22A9_uc001nwx.1_Non-coding_Transcript	NM_080866	NP_543142	Q8IVM8	S22A9_HUMAN	solute carrier family 22 (organic anion/cation	407	Cytoplasmic (Potential).				transmembrane transport	integral to membrane				breast(2)|large_intestine(1)	3														0.402062	114.403757	115.217661	39	58	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	62930691	62930691	14958	11	G	A	A	37	37	SLC22A9	A	1	1
ANO4	121601	broad.mit.edu	36	12	100044914	100044914	+	Missense_Mutation	SNP	C	T	T			TCGA-06-0173-01	TCGA-06-0173-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr12:100044914C>T	uc001thx.1	+	c.2803C>T	c.(2803-2805)CGT>TGT	p.R935C	ANO4_uc001thw.1_Missense_Mutation_p.R900C|ANO4_uc001thy.1_Missense_Mutation_p.R455C	NM_178826	NP_849148	Q32M45	ANO4_HUMAN	anoctamin 4	935	Extracellular (Potential).					chloride channel complex	chloride channel activity			ovary(4)	4														0.404494	104.574584	105.285734	36	53	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	100044914	100044914	707	12	C	T	T	19	19	ANO4	T	1	1
TMEM132D	121256	broad.mit.edu	36	12	128750876	128750876	+	Missense_Mutation	SNP	G	C	C			TCGA-06-0173-01	TCGA-06-0173-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr12:128750876G>C	uc009zyl.1	-	c.400C>G	c.(400-402)CTG>GTG	p.L134V		NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D	134	Extracellular (Potential).					integral to membrane				ovary(10)|pancreas(2)	12	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)												0.359375	67.101544	68.218207	23	41	GG		KEEP	---	---	---	---	capture		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)	Missense_Mutation	SNP	128750876	128750876	16579	12	G	C	C	35	35	TMEM132D	C	3	3
CAPRIN2	65981	broad.mit.edu	36	12	30779334	30779334	+	Missense_Mutation	SNP	C	T	T			TCGA-06-0173-01	TCGA-06-0173-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr12:30779334C>T	uc001rji.1	-	c.644G>A	c.(643-645)CGA>CAA	p.R215Q	CAPRIN2_uc001rjf.1_Missense_Mutation_p.R12Q|CAPRIN2_uc001rjg.1_5'UTR|CAPRIN2_uc001rjh.1_Missense_Mutation_p.R215Q|CAPRIN2_uc001rjj.1_5'UTR|CAPRIN2_uc001rjk.2_Missense_Mutation_p.R215Q|CAPRIN2_uc001rjl.2_Missense_Mutation_p.R215Q	NM_001002259	NP_001002259	Q6IMN6	CAPR2_HUMAN	C1q domain containing 1 isoform 1	215	Potential.				negative regulation of cell growth|negative regulation of translation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of dendrite morphogenesis|positive regulation of dendritic spine morphogenesis|positive regulation of gene-specific transcription from RNA polymerase II promoter|positive regulation of peptidyl-serine phosphorylation|positive regulation of protein binding	mitochondrion|receptor complex	receptor binding|RNA binding			ovary(1)|central_nervous_system(1)	2	all_lung(12;1.13e-09)|Lung NSC(12;7.98e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0355)|Lung SC(12;0.0905)|Esophageal squamous(101;0.233)													0.357988	350.52823	356.510925	121	217	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	30779334	30779334	2755	12	C	T	T	31	31	CAPRIN2	T	1	1
PPFIA2	8499	broad.mit.edu	36	12	80271203	80271203	+	Missense_Mutation	SNP	C	A	A			TCGA-06-0173-01	TCGA-06-0173-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr12:80271203C>A	uc001szo.1	-	c.1820G>T	c.(1819-1821)GGA>GTA	p.G607V	PPFIA2_uc009zsh.1_Non-coding_Transcript|PPFIA2_uc009zsi.1_Non-coding_Transcript	NM_003625	NP_003616	O75334	LIPA2_HUMAN	PTPRF interacting protein alpha 2	607					cell-matrix adhesion	cell surface|cytoplasm	protein binding			ovary(3)|lung(2)|pancreas(1)	6														0.372549	104.718857	106.176027	38	64	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	80271203	80271203	12740	12	C	A	A	30	30	PPFIA2	A	3	3
ANKRD10	55608	broad.mit.edu	36	13	110330389	110330389	+	Missense_Mutation	SNP	G	A	A			TCGA-06-0173-01	TCGA-06-0173-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr13:110330389G>A	uc001vrn.1	-	c.859C>T	c.(859-861)CCC>TCC	p.P287S	ANKRD10_uc001vrm.1_Missense_Mutation_p.P24S|ANKRD10_uc001vrl.2_Non-coding_Transcript	NM_017664	NP_060134	Q9NXR5	ANR10_HUMAN	ankyrin repeat domain 10	287										central_nervous_system(1)	1	all_lung(23;3.61e-05)|Lung NSC(43;0.00144)|Lung SC(71;0.0753)|all_neural(89;0.077)|Medulloblastoma(90;0.148)													0.303371	76.99464	80.063791	27	62	GG		KEEP	---	---	---	---	capture	all cancers(43;0.0882)|BRCA - Breast invasive adenocarcinoma(86;0.188)|Lung(89;0.208)		Missense_Mutation	SNP	110330389	110330389	641	13	G	A	A	43	43	ANKRD10	A	2	2
FLT1	2321	broad.mit.edu	36	13	27829760	27829760	+	Missense_Mutation	SNP	C	A	A			TCGA-06-0173-01	TCGA-06-0173-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr13:27829760C>A	uc001usb.2	-	c.2179G>T	c.(2179-2181)GGT>TGT	p.G727C		NM_002019	NP_002010	P17948	VGFR1_HUMAN	fms-related tyrosine kinase 1	727	Ig-like C2-type 7.|Extracellular (Potential).				cell differentiation|female pregnancy|positive regulation of vascular endothelial growth factor receptor signaling pathway	extracellular space|Golgi apparatus|integral to plasma membrane|nucleus	ATP binding|growth factor binding|vascular endothelial growth factor receptor activity	p.G727C(1)		lung(6)|central_nervous_system(5)|ovary(2)|urinary_tract(1)|breast(1)	15	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)|Breast(139;0.188)			Sunitinib(DB01268)					738				0.388235	187.687373	189.55518	66	104	CC		KEEP	---	---	---	---	capture	Colorectal(13;0.000674)	all cancers(112;0.0301)|Epithelial(112;0.155)|GBM - Glioblastoma multiforme(144;0.184)|OV - Ovarian serous cystadenocarcinoma(117;0.205)|Lung(94;0.207)	Missense_Mutation	SNP	27829760	27829760	6183	13	C	A	A	24	24	FLT1	A	3	3
TGM5	9333	broad.mit.edu	36	15	41339977	41339977	+	Missense_Mutation	SNP	G	A	A			TCGA-06-0173-01	TCGA-06-0173-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr15:41339977G>A	uc001zrd.1	-	c.103C>T	c.(103-105)CGG>TGG	p.R35W	TGM5_uc001zre.1_Missense_Mutation_p.R35W	NM_201631	NP_963925	O43548	TGM5_HUMAN	transglutaminase 5 isoform 1	35					epidermis development|peptide cross-linking	cytoplasm	acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			central_nervous_system(1)	1		all_cancers(109;1.37e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.216)			L-Glutamine(DB00130)									0.380711	223.57965	226.000754	75	122	GG		KEEP	---	---	---	---	capture		GBM - Glioblastoma multiforme(94;4e-07)	Missense_Mutation	SNP	41339977	41339977	16361	15	G	A	A	39	39	TGM5	A	1	1
PML	5371	broad.mit.edu	36	15	72102438	72102438	+	Silent	SNP	C	T	T			TCGA-06-0173-01	TCGA-06-0173-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr15:72102438C>T	uc002awv.1	+	c.819C>T	c.(817-819)GCC>GCT	p.A273A	PML_uc002awj.1_Silent_p.A273A|PML_uc002awk.1_Silent_p.A273A|PML_uc002awl.1_Silent_p.A273A|PML_uc002awm.1_Silent_p.A273A|PML_uc002awn.1_Silent_p.A273A|PML_uc002awo.1_Silent_p.A273A|PML_uc002awp.1_Silent_p.A273A|PML_uc002awq.1_Silent_p.A273A|PML_uc002awr.1_Silent_p.A273A|PML_uc002aws.1_Silent_p.A273A|PML_uc002awt.1_Silent_p.A273A|PML_uc002awu.1_Silent_p.A273A|PML_uc002aww.1_Silent_p.A188A|PML_uc002awx.1_Silent_p.A31A|PML_uc002awy.1_5'Flank	NM_033238	NP_150241	P29590	PML_HUMAN	promyelocytic leukemia protein isoform 1	273					cell cycle arrest|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 resulting in induction of apoptosis|endoplasmic reticulum calcium ion homeostasis|induction of apoptosis|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|maintenance of protein location in nucleus|negative regulation of angiogenesis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of mitotic cell cycle|negative regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|negative regulation of telomerase activity|negative regulation of telomere maintenance via telomerase|negative regulation of transcription, DNA-dependent|negative regulation of translation in response to oxidative stress|PML body organization|PML body organization|positive regulation of defense response to virus by host|positive regulation of histone deacetylation|protein complex assembly|protein stabilization|protein targeting|regulation of calcium ion transport into cytosol|regulation of protein phosphorylation|response to hypoxia|response to virus|transcription, DNA-dependent	cytoplasm|cytosol|early endosome membrane|extrinsic to endoplasmic reticulum membrane|insoluble fraction|nuclear matrix|nuclear membrane|nucleolus|nucleus|PML body	cobalt ion binding|DNA binding|protein binding|protein binding|protein heterodimerization activity|protein homodimerization activity|SUMO binding|transcription coactivator activity|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding|zinc ion binding	p.A273A(1)		central_nervous_system(2)|kidney(2)	4										214				0.55	34.927937	34.971811	11	9	CC		KEEP	---	---	---	---	capture			Silent	SNP	72102438	72102438	12561	15	C	T	T	23	23	PML	T	1	1
VWA3A	146177	broad.mit.edu	36	16	22050423	22050423	+	Missense_Mutation	SNP	C	T	T			TCGA-06-0173-01	TCGA-06-0173-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr16:22050423C>T	uc002dkf.2	+	c.1165C>T	c.(1165-1167)CGG>TGG	p.R389W	VWA3A_uc010bxc.1_Missense_Mutation_p.R590W|VWA3A_uc010bxd.1_Non-coding_Transcript	NM_173615	NP_775886	A6NCI4	VWA3A_HUMAN	von Willebrand factor A domain containing 3A	582	VWFA 1.					extracellular region				skin(1)	1														0.333333	26.941532	27.678785	10	20	CC		KEEP	---	---	---	---	capture		GBM - Glioblastoma multiforme(48;0.0439)	Missense_Mutation	SNP	22050423	22050423	17809	16	C	T	T	27	27	VWA3A	T	1	1
ZNF597	146434	broad.mit.edu	36	16	3430933	3430933	+	Missense_Mutation	SNP	C	A	A			TCGA-06-0173-01	TCGA-06-0173-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr16:3430933C>A	uc002cvd.1	-	c.35G>T	c.(34-36)GGA>GTA	p.G12V	NAT15_uc002cvh.2_5'Flank	NM_152457	NP_689670	Q96LX8	ZN597_HUMAN	zinc finger protein 597	12					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0														0.41573	102.25331	102.806254	37	52	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	3430933	3430933	18622	16	C	A	A	30	30	ZNF597	A	3	3
DNAH9	1770	broad.mit.edu	36	17	11463751	11463751	+	Missense_Mutation	SNP	G	T	T			TCGA-06-0173-01	TCGA-06-0173-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr17:11463751G>T	uc002gne.1	+	c.1278G>T	c.(1276-1278)AAG>AAT	p.K426N		NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	426	Stem (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	10		Breast(5;0.0122)|all_epithelial(5;0.131)												0.230337	99.976585	111.84547	41	137	GG		KEEP	---	---	---	---	capture		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)	Missense_Mutation	SNP	11463751	11463751	4791	17	G	T	T	35	35	DNAH9	T	3	3
FOXN1	8456	broad.mit.edu	36	17	23885484	23885484	+	Silent	SNP	C	T	T			TCGA-06-0173-01	TCGA-06-0173-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr17:23885484C>T	uc010crm.1	+	c.936C>T	c.(934-936)CCC>CCT	p.P312P	FOXN1_uc002hbj.1_Silent_p.P312P	NM_003593	NP_003584	O15353	FOXN1_HUMAN	forkhead box N1	312	Fork-head.				defense response|embryo development|epithelial cell proliferation|keratinocyte differentiation|negative regulation of gene-specific transcription from RNA polymerase II promoter|organ morphogenesis|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|thymus development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			skin(1)	1	Lung NSC(42;0.00431)													0.230216	81.329773	90.601657	32	107	CC		KEEP	---	---	---	---	capture			Silent	SNP	23885484	23885484	6265	17	C	T	T	23	23	FOXN1	T	1	1
SLFN13	146857	broad.mit.edu	36	17	30792315	30792315	+	Silent	SNP	C	T	T			TCGA-06-0173-01	TCGA-06-0173-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr17:30792315C>T	uc002hjk.1	-	c.2106G>A	c.(2104-2106)CTG>CTA	p.L702L	SLFN13_uc002hjl.1_Silent_p.L702L|SLFN13_uc010ctt.1_Silent_p.L384L|SLFN13_uc002hjm.1_Silent_p.L371L	NM_144682	NP_653283	Q68D06	SLN13_HUMAN	schlafen family member 13	702						intracellular	ATP binding			ovary(1)|breast(1)	2														0.647687	581.464279	586.853534	182	99	CC		KEEP	---	---	---	---	capture		UCEC - Uterine corpus endometrioid carcinoma (308;0.0185)	Silent	SNP	30792315	30792315	15233	17	C	T	T	21	21	SLFN13	T	2	2
MYBBP1A	10514	broad.mit.edu	36	17	4402014	4402014	+	Silent	SNP	C	T	T			TCGA-06-0173-01	TCGA-06-0173-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr17:4402014C>T	uc002fxz.2	-	c.933G>A	c.(931-933)GCG>GCA	p.A311A	MYBBP1A_uc002fyb.2_Silent_p.A311A	NM_001105538	NP_001099008	Q9BQG0	MBB1A_HUMAN	MYB binding protein 1a isoform 1	311	Interaction with MYB (By similarity).				nucleocytoplasmic transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NLS-dependent protein nuclear import complex|nucleolus	DNA binding|DNA-directed DNA polymerase activity|transcription factor binding			ovary(1)|skin(1)	2														0.54717	270.932236	271.240507	87	72	CC		KEEP	---	---	---	---	capture			Silent	SNP	4402014	4402014	10403	17	C	T	T	23	23	MYBBP1A	T	1	1
DSC3	1825	broad.mit.edu	36	18	26852685	26852685	+	Missense_Mutation	SNP	C	A	A			TCGA-06-0173-01	TCGA-06-0173-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr18:26852685C>A	uc002kwj.2	-	c.1022G>T	c.(1021-1023)TGT>TTT	p.C341F	DSC3_uc002kwi.2_Missense_Mutation_p.C341F	NM_001941	NP_001932	Q14574	DSC3_HUMAN	desmocollin 3 isoform Dsc3a preproprotein	341	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion|protein stabilization	desmosome|integral to membrane|membrane fraction	calcium ion binding|gamma-catenin binding			ovary(2)	2														0.415493	182.798364	183.68422	59	83	CC		KEEP	---	---	---	---	capture	OV - Ovarian serous cystadenocarcinoma(10;0.125)		Missense_Mutation	SNP	26852685	26852685	4951	18	C	A	A	17	17	DSC3	A	3	3
MYOM1	8736	broad.mit.edu	36	18	3057533	3057533	+	Silent	SNP	G	A	A			TCGA-06-0173-01	TCGA-06-0173-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr18:3057533G>A	uc002klp.1	-	c.4785C>T	c.(4783-4785)AAC>AAT	p.N1595N	MYOM1_uc002klq.1_Silent_p.N1499N	NM_003803	NP_003794	P52179	MYOM1_HUMAN	myomesin 1 isoform a	1595	Ig-like C2-type 5.					striated muscle myosin thick filament	structural constituent of muscle			ovary(3)|central_nervous_system(1)|pancreas(1)	5														0.380952	68.786675	69.568982	24	39	GG		KEEP	---	---	---	---	capture			Silent	SNP	3057533	3057533	10486	18	G	A	A	40	40	MYOM1	A	1	1
NETO1	81832	broad.mit.edu	36	18	68568278	68568278	+	Missense_Mutation	SNP	G	A	A			TCGA-06-0173-01	TCGA-06-0173-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr18:68568278G>A	uc002lkw.2	-	c.1540C>T	c.(1540-1542)CGG>TGG	p.R514W	NETO1_uc002lkx.1_Missense_Mutation_p.R513W|NETO1_uc002lky.1_Missense_Mutation_p.R514W	NM_138966	NP_620416	Q8TDF5	NETO1_HUMAN	neuropilin- and tolloid-like protein 1 isoform 3	514	Cytoplasmic (Potential).				memory|regulation of long-term neuronal synaptic plasticity|visual learning	cell junction|excitatory synapse|extracellular region|integral to membrane|postsynaptic density|postsynaptic membrane	receptor activity			ovary(2)	2		Esophageal squamous(42;0.129)												0.463415	115.542939	115.638256	38	44	GG		KEEP	---	---	---	---	capture		READ - Rectum adenocarcinoma(1;0.0487)	Missense_Mutation	SNP	68568278	68568278	10738	18	G	A	A	38	38	NETO1	A	1	1
CALR	811	broad.mit.edu	36	19	12912173	12912173	+	Silent	SNP	G	T	T			TCGA-06-0173-01	TCGA-06-0173-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr19:12912173G>T	uc002mvu.1	+	c.609G>T	c.(607-609)CTG>CTT	p.L203L		NM_004343	NP_004334	P27797	CALR_HUMAN	calreticulin precursor	203	P-domain.|4 X approximate repeats.				cell cycle arrest|cellular senescence|glucocorticoid receptor signaling pathway|negative regulation of neuron differentiation|negative regulation of retinoic acid receptor signaling pathway|negative regulation of steroid hormone receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative regulation of translation|peptide antigen assembly with MHC class I protein complex|positive regulation of cell cycle|positive regulation of cell proliferation|positive regulation of DNA replication|positive regulation of phagocytosis|post-translational protein modification|protein export from nucleus|protein maturation by protein folding|protein N-linked glycosylation via asparagine|protein stabilization|regulation of apoptosis|sequestering of calcium ion	cytosol|endoplasmic reticulum lumen|extracellular space|MHC class I peptide loading complex|nucleus|perinuclear region of cytoplasm|polysome|proteinaceous extracellular matrix	androgen receptor binding|calcium ion binding|chaperone binding|complement component C1q binding|DNA binding|integrin binding|mRNA binding|protein binding involved in protein folding|sugar binding|transcription repressor activity|ubiquitin protein ligase binding|unfolded protein binding|zinc ion binding			ovary(1)	1					Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Reteplase(DB00015)|Tenecteplase(DB00031)									0.347826	135.665957	138.482997	48	90	GG		KEEP	---	---	---	---	capture			Silent	SNP	12912173	12912173	2709	19	G	T	T	46	46	CALR	T	3	3
CACNA1A	773	broad.mit.edu	36	19	13201971	13201971	+	Missense_Mutation	SNP	C	T	T			TCGA-06-0173-01	TCGA-06-0173-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr19:13201971C>T	uc010dzd.1	-	c.5471G>A	c.(5470-5472)CGA>CAA	p.R1824Q	CACNA1A_uc002mwx.2_Missense_Mutation_p.R524Q|CACNA1A_uc010dzc.1_Missense_Mutation_p.R1344Q|CACNA1A_uc002mwz.2_Missense_Mutation_p.R1824Q|CACNA1A_uc002mwy.2_Missense_Mutation_p.R1818Q|CACNA1A_uc010dze.1_Missense_Mutation_p.R1819Q|CACNA1A_uc002mwv.2_Missense_Mutation_p.R335Q	NM_023035	NP_075461	O00555	CAC1A_HUMAN	Voltage-dependent P/Q-type calcium channel subunit alpha-1A (Voltage- gated calcium channel subunit alpha Cav2.1) (Calcium channel, L type, alpha-1 polypeptide isoform 4) (Brain calcium channel I) (BI).	1819	Cytoplasmic (Potential).				cell death|elevation of cytosolic calcium ion concentration|energy reserve metabolic process|membrane depolarization|regulation of insulin secretion	cytoplasm|nucleus	syntaxin binding			large_intestine(2)	2					Bepridil(DB01244)|Cinnarizine(DB00568)|Loperamide(DB00836)|Nisoldipine(DB00401)|Pregabalin(DB00230)									0.152542	15.540161	22.354136	9	50	CC		KEEP	---	---	---	---	capture	OV - Ovarian serous cystadenocarcinoma(19;5.07e-21)		Missense_Mutation	SNP	13201971	13201971	2654	19	C	T	T	31	31	CACNA1A	T	1	1
CAPNS1	826	broad.mit.edu	36	19	41325442	41325442	+	Missense_Mutation	SNP	G	T	T			TCGA-06-0173-01	TCGA-06-0173-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr19:41325442G>T	uc002odi.1	+	c.292G>T	c.(292-294)GTC>TTC	p.V98F	CAPNS1_uc002odk.1_Missense_Mutation_p.V98F|CAPNS1_uc002odj.1_Missense_Mutation_p.V98F|CAPNS1_uc002odl.1_Missense_Mutation_p.V98F	NM_001749	NP_001740	P04632	CPNS1_HUMAN	calpain, small subunit 1	98	EF-hand 1; atypical.				positive regulation of cell proliferation	cytoplasm|plasma membrane	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity				0	Esophageal squamous(110;0.162)					Esophageal Squamous(129;1541 1691 5780 18353 34150)								0.345291	222.839827	227.53813	77	146	GG		KEEP	---	---	---	---	capture	LUSC - Lung squamous cell carcinoma(66;0.06)		Missense_Mutation	SNP	41325442	41325442	2752	19	G	T	T	44	44	CAPNS1	T	3	3
ZNF585A	199704	broad.mit.edu	36	19	42334701	42334701	+	Nonsense_Mutation	SNP	G	C	C			TCGA-06-0173-01	TCGA-06-0173-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr19:42334701G>C	uc002ofo.1	-	c.1940C>G	c.(1939-1941)TCA>TGA	p.S647*	ZNF585A_uc002ofm.1_Nonsense_Mutation_p.S592*|ZNF585A_uc002ofn.1_Nonsense_Mutation_p.S592*	NM_199126	NP_954577	Q6P3V2	Z585A_HUMAN	zinc finger protein 585A	647	C2H2-type 18.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2														0.190476	13.570148	17.33855	8	34	GG		KEEP	---	---	---	---	capture	COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)		Nonsense_Mutation	SNP	42334701	42334701	18612	19	G	C	C	45	45	ZNF585A	C	5	3
CEACAM4	1089	broad.mit.edu	36	19	46823891	46823891	+	Silent	SNP	G	A	A			TCGA-06-0173-01	TCGA-06-0173-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr19:46823891G>A	uc002orh.1	-	c.348C>T	c.(346-348)GAC>GAT	p.D116D		NM_001817	NP_001808	O75871	CEAM4_HUMAN	carcinoembryonic antigen-related cell adhesion	116	Extracellular (Potential).|Ig-like V-type.					integral to plasma membrane|membrane fraction					0														0.305221	198.126316	206.542566	76	173	GG		KEEP	---	---	---	---	capture			Silent	SNP	46823891	46823891	3327	19	G	A	A	40	40	CEACAM4	A	1	1
ZNF229	7772	broad.mit.edu	36	19	49625125	49625125	+	Silent	SNP	G	A	A			TCGA-06-0173-01	TCGA-06-0173-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr19:49625125G>A	uc002oze.1	-	c.1671C>T	c.(1669-1671)TCC>TCT	p.S557S	ZNF229_uc010ejk.1_Silent_p.S211S|ZNF229_uc010ejl.1_Silent_p.S551S	NM_014518	NP_055333	Q9UJW7	ZN229_HUMAN	zinc finger protein 229	557	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2		Prostate(69;0.0352)												0.32967	85.532526	87.865945	30	61	GG		KEEP	---	---	---	---	capture			Silent	SNP	49625125	49625125	18373	19	G	A	A	39	39	ZNF229	A	1	1
CEACAM20	125931	broad.mit.edu	36	19	49713024	49713024	+	Missense_Mutation	SNP	C	T	T			TCGA-06-0173-01	TCGA-06-0173-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr19:49713024C>T	uc010ejn.1	-	c.1132G>A	c.(1132-1134)GAG>AAG	p.E378K	CEACAM20_uc010ejo.1_Missense_Mutation_p.E378K|CEACAM20_uc010ejp.1_Intron|CEACAM20_uc010ejq.1_Intron	NM_001102597	NP_001096067	Q6UY09	CEA20_HUMAN	carcinoembryonic antigen-related cell adhesion	378	Ig-like C2-type 4.|Extracellular (Potential).					integral to membrane				large_intestine(2)	2		Prostate(69;0.0352)												0.413793	33.694656	33.882665	12	17	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	49713024	49713024	3324	19	C	T	T	31	31	CEACAM20	T	1	1
LENG8	114823	broad.mit.edu	36	19	59659431	59659431	+	Silent	SNP	C	A	A			TCGA-06-0173-01	TCGA-06-0173-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr19:59659431C>A	uc002qfw.1	+	c.1420C>A	c.(1420-1422)CGA>AGA	p.R474R	LENG8_uc002qfv.1_Silent_p.R437R	NM_052925	NP_443157	Q96PV6	LENG8_HUMAN	leukocyte receptor cluster member 8	437							protein binding			central_nervous_system(1)|pancreas(1)	2	Ovarian(34;0.19)													0.470588	53.103298	53.128277	16	18	CC		KEEP	---	---	---	---	capture		GBM - Glioblastoma multiforme(193;0.139)	Silent	SNP	59659431	59659431	9048	19	C	A	A	23	23	LENG8	A	3	3
LILRB1	10859	broad.mit.edu	36	19	59838545	59838545	+	Missense_Mutation	SNP	A	G	G			TCGA-06-0173-01	TCGA-06-0173-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr19:59838545A>G	uc002qgm.1	+	c.1586A>G	c.(1585-1587)CAG>CGG	p.Q529R	LILRB1_uc010erp.1_Missense_Mutation_p.Q143R|LILRB1_uc002qgj.1_Missense_Mutation_p.Q528R|LILRB1_uc002qgk.1_Missense_Mutation_p.Q529R|LILRB1_uc002qgl.1_Missense_Mutation_p.Q528R|LILRB1_uc010erq.1_Missense_Mutation_p.Q512R|LILRB1_uc010err.1_Non-coding_Transcript	NM_001081637	NP_001075106	Q8NHL6	LIRB1_HUMAN	leukocyte immunoglobulin-like receptor,	528	Cytoplasmic (Potential).				regulation of immune response|response to virus	integral to membrane|plasma membrane	protein phosphatase 1 binding|receptor activity			large_intestine(1)|ovary(1)	2														0.287671	124.493036	130.393911	42	104	AA		KEEP	---	---	---	---	capture		GBM - Glioblastoma multiforme(193;0.0188)	Missense_Mutation	SNP	59838545	59838545	9116	19	A	G	G	7	7	LILRB1	G	4	4
GALP	85569	broad.mit.edu	36	19	61383770	61383770	+	Nonsense_Mutation	SNP	C	T	T			TCGA-06-0173-01	TCGA-06-0173-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr19:61383770C>T	uc002qmo.1	+	c.91C>T	c.(91-93)CGA>TGA	p.R31*	GALP_uc010eti.1_Intron	NM_033106	NP_149097	Q9UBC7	GALP_HUMAN	galanin-like peptide precursor	31					neuropeptide signaling pathway	extracellular region	hormone activity				0		Colorectal(82;0.000147)|Ovarian(87;0.243)												0.112245	10.955399	25.508589	11	87	CC		KEEP	---	---	---	---	capture		GBM - Glioblastoma multiforme(193;0.0507)	Nonsense_Mutation	SNP	61383770	61383770	6490	19	C	T	T	19	19	GALP	T	5	1
MUC16	94025	broad.mit.edu	36	19	8930201	8930201	+	Missense_Mutation	SNP	C	T	T			TCGA-06-0173-01	TCGA-06-0173-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr19:8930201C>T	uc002mkp.1	-	c.18245G>A	c.(18244-18246)AGC>AAC	p.S6082N		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	6084	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			ovary(15)|large_intestine(1)|pancreas(1)|breast(1)|skin(1)	19														0.297872	73.473598	76.901199	28	66	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	8930201	8930201	10367	19	C	T	T	28	28	MUC16	T	2	2
TMCO4	255104	broad.mit.edu	36	1	19979743	19979743	+	Silent	SNP	C	T	T			TCGA-06-0173-01	TCGA-06-0173-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr1:19979743C>T	uc001bcn.1	-	c.96G>A	c.(94-96)CGG>CGA	p.R32R	TMCO4_uc001bcm.1_Silent_p.R32R|TMCO4_uc001bco.1_Silent_p.R32R|TMCO4_uc001bcp.1_Silent_p.R32R|TMCO4_uc009vpn.1_Silent_p.R32R|TMCO4_uc001bcq.1_Silent_p.R32R	NM_181719	NP_859070	Q5TGY1	TMCO4_HUMAN	transmembrane and coiled-coil domains 4	32						integral to membrane					0		Colorectal(325;0.000147)|Renal(390;0.000469)|all_lung(284;0.00519)|Breast(348;0.00526)|Lung NSC(340;0.00544)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)												0.291667	54.971073	57.756212	21	51	CC		KEEP	---	---	---	---	capture		UCEC - Uterine corpus endometrioid carcinoma (279;0.00708)|COAD - Colon adenocarcinoma(152;2.28e-05)|BRCA - Breast invasive adenocarcinoma(304;5.8e-05)|Kidney(64;0.000367)|GBM - Glioblastoma multiforme(114;0.000377)|KIRC - Kidney renal clear cell carcinoma(64;0.00459)|STAD - Stomach adenocarcinoma(196;0.0072)|READ - Rectum adenocarcinoma(331;0.0862)|Lung(427;0.223)	Silent	SNP	19979743	19979743	16528	1	C	T	T	22	22	TMCO4	T	2	2
NFASC	23114	broad.mit.edu	36	1	203210523	203210523	+	Missense_Mutation	SNP	G	A	A			TCGA-06-0173-01	TCGA-06-0173-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr1:203210523G>A	uc001hbj.1	+	c.1507G>A	c.(1507-1509)GCC>ACC	p.A503T	NFASC_uc001hbh.1_Missense_Mutation_p.A503T|NFASC_uc001hbi.1_Missense_Mutation_p.A514T|NFASC_uc001hbk.1_Missense_Mutation_p.A324T	NM_015090	NP_055905	O94856	NFASC_HUMAN	neurofascin precursor	503	Extracellular (Potential).|Ig-like C2-type 5.				axon guidance|cell adhesion|myelination|peripheral nervous system development	integral to membrane|node of Ranvier|plasma membrane	protein binding			ovary(3)|breast(1)	4	all_cancers(21;0.0375)|Breast(84;0.0437)|all_epithelial(62;0.171)|Prostate(682;0.19)													0.320988	141.44812	146.056819	52	110	GG		KEEP	---	---	---	---	capture	KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.158)		Missense_Mutation	SNP	203210523	203210523	10759	1	G	A	A	38	38	NFASC	A	1	1
OBSCN	84033	broad.mit.edu	36	1	226587617	226587617	+	Missense_Mutation	SNP	C	T	T			TCGA-06-0173-01	TCGA-06-0173-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr1:226587617C>T	uc009xez.1	+	c.15826C>T	c.(15826-15828)CGC>TGC	p.R5276C	OBSCN_uc001hsn.1_Missense_Mutation_p.R5276C|OBSCN_uc001hsr.1_5'Flank	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	5276	Ig-like 50.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|protein phosphorylation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			large_intestine(7)|breast(5)|ovary(4)|skin(2)|stomach(1)|central_nervous_system(1)|pancreas(1)	21		Prostate(94;0.0405)								4006				0.545455	18.753072	18.773306	6	5	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	226587617	226587617	11217	1	C	T	T	19	19	OBSCN	T	1	1
OR2W5	441932	broad.mit.edu	36	1	245721388	245721388	+	Silent	SNP	C	T	T			TCGA-06-0173-01	TCGA-06-0173-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr1:245721388C>T	uc001icz.1	+	c.336C>T	c.(334-336)TGC>TGT	p.C112C		NM_001004698	NP_001004698	A6NFC9	OR2W5_HUMAN	olfactory receptor, family 2, subfamily W,	112	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.222)												0.361702	140.988244	143.360604	51	90	CC		KEEP	---	---	---	---	capture	OV - Ovarian serous cystadenocarcinoma(106;0.0188)		Silent	SNP	245721388	245721388	11440	1	C	T	T	27	27	OR2W5	T	1	1
MEGF6	1953	broad.mit.edu	36	1	3400879	3400879	+	Missense_Mutation	SNP	A	G	G			TCGA-06-0173-01	TCGA-06-0173-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr1:3400879A>G	uc001akl.1	-	c.4045T>C	c.(4045-4047)TCC>CCC	p.S1349P	MEGF6_uc001akk.1_Missense_Mutation_p.S1114P	NM_001409	NP_001400	O75095	MEGF6_HUMAN	EGF-like-domain, multiple 3	1349	EGF-like 25.					extracellular region	calcium ion binding			large_intestine(1)	1	all_cancers(77;0.00681)|all_epithelial(69;0.00301)|Ovarian(185;0.0634)|Lung NSC(156;0.0969)|all_lung(157;0.105)	all_epithelial(116;7.41e-22)|all_lung(118;8.3e-09)|Lung NSC(185;3.55e-06)|Breast(487;0.000659)|Renal(390;0.00121)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Lung SC(97;0.0262)|Ovarian(437;0.0308)|Medulloblastoma(700;0.211)				Ovarian(73;978 3658)								0.6	6.913671	6.955301	3	2	AA		KEEP	---	---	---	---	capture		Epithelial(90;3.78e-37)|OV - Ovarian serous cystadenocarcinoma(86;6.86e-22)|GBM - Glioblastoma multiforme(42;1.96e-12)|Colorectal(212;6.15e-05)|COAD - Colon adenocarcinoma(227;0.000241)|Kidney(185;0.000448)|BRCA - Breast invasive adenocarcinoma(365;0.000779)|KIRC - Kidney renal clear cell carcinoma(229;0.00645)|STAD - Stomach adenocarcinoma(132;0.00669)|Lung(427;0.213)	Missense_Mutation	SNP	3400879	3400879	9851	1	A	G	G	11	11	MEGF6	G	4	4
PARD6B	84612	broad.mit.edu	36	20	48800056	48800056	+	Missense_Mutation	SNP	C	T	T			TCGA-06-0173-01	TCGA-06-0173-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr20:48800056C>T	uc002xvo.1	+	c.743C>T	c.(742-744)CCG>CTG	p.P248L		NM_032521	NP_115910	Q9BYG5	PAR6B_HUMAN	PAR-6 beta	248	PDZ.|Interaction with PARD3 and CDC42 (By similarity).				axonogenesis|cell cycle|cell division|establishment or maintenance of cell polarity|protein complex assembly|regulation of cell migration|tight junction assembly	cytosol|tight junction	protein binding			kidney(1)	1														0.254032	171.713193	185.325536	63	185	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	48800056	48800056	11863	20	C	T	T	23	23	PARD6B	T	1	1
RTEL1	51750	broad.mit.edu	36	20	61787335	61787335	+	Missense_Mutation	SNP	G	A	A			TCGA-06-0173-01	TCGA-06-0173-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr20:61787335G>A	uc002yft.1	+	c.1207G>A	c.(1207-1209)GAC>AAC	p.D403N	RTEL1_uc002yfu.1_Missense_Mutation_p.D403N|RTEL1_uc002yfw.1_Non-coding_Transcript	NM_032957	NP_116575	Q9NZ71	RTEL1_HUMAN	regulator of telomere elongation helicase 1	403					DNA repair|regulation of double-strand break repair via homologous recombination|telomere maintenance	nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding|iron-sulfur cluster binding|metal ion binding				0	all_cancers(38;6.47e-12)|all_epithelial(29;3.75e-13)													0.243243	20.555544	22.780412	9	28	GG		KEEP	---	---	---	---	capture	Epithelial(9;1.25e-09)|all cancers(9;5.13e-09)|BRCA - Breast invasive adenocarcinoma(10;7.26e-05)|OV - Ovarian serous cystadenocarcinoma(5;0.00223)|Colorectal(105;0.107)		Missense_Mutation	SNP	61787335	61787335	14200	20	G	A	A	41	41	RTEL1	A	2	2
TXNRD2	10587	broad.mit.edu	36	22	18250868	18250868	+	Missense_Mutation	SNP	C	T	T			TCGA-06-0173-01	TCGA-06-0173-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr22:18250868C>T	uc002zqk.1	-	c.1066G>A	c.(1066-1068)GCC>ACC	p.A356T	TXNRD2_uc002zqj.1_Non-coding_Transcript|TXNRD2_uc002zqm.1_Non-coding_Transcript|TXNRD2_uc002zqn.1_Non-coding_Transcript|TXNRD2_uc002zqo.1_Non-coding_Transcript|TXNRD2_uc002zql.1_Missense_Mutation_p.A110T|TXNRD2_uc002zqp.1_Non-coding_Transcript|TXNRD2_uc002zqq.1_5'Flank|TXNRD2_uc002zqr.1_Missense_Mutation_p.A355T	NM_006440		Q9NNW7	TRXR2_HUMAN	thioredoxin reductase 2 precursor	356					cell redox homeostasis|oxidation-reduction process|response to oxygen radical	mitochondrion	flavin adenine dinucleotide binding|NADP binding|thioredoxin-disulfide reductase activity			ovary(2)	2	Colorectal(54;0.0993)													0.492308	178.68202	178.688887	64	66	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	18250868	18250868	17364	22	C	T	T	27	27	TXNRD2	T	1	1
MARCH4	57574	broad.mit.edu	36	2	216943131	216943131	+	Missense_Mutation	SNP	C	T	T			TCGA-06-0173-01	TCGA-06-0173-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr2:216943131C>T	uc002vgb.1	-	c.98G>A	c.(97-99)CGC>CAC	p.R33H		NM_020814	NP_065865	Q9P2E8	MARH4_HUMAN	membrane-associated ring finger (C3HC4) 4	33						Golgi membrane|Golgi stack|integral to membrane|trans-Golgi network	ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1		Renal(323;0.0854)												0.3125	11.869412	12.370104	5	11	CC		KEEP	---	---	---	---	capture		Epithelial(149;2.19e-05)|all cancers(144;0.00121)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Lung(261;0.0125)	Missense_Mutation	SNP	216943131	216943131	9686	2	C	T	T	27	27	MARCH4	T	1	1
GPR113	165082	broad.mit.edu	36	2	26387160	26387160	+	Silent	SNP	G	T	T			TCGA-06-0173-01	TCGA-06-0173-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr2:26387160G>T	uc002rhe.2	-	c.2940C>A	c.(2938-2940)CCC>CCA	p.P980P	GPR113_uc002rhb.1_Silent_p.P583P|GPR113_uc010eyk.1_Silent_p.P781P|GPR113_uc002rhc.1_Silent_p.P583P|GPR113_uc002rhd.1_Non-coding_Transcript	NM_153835	NP_722577	Q8IZF5	GP113_HUMAN	G-protein coupled receptor 113 isoform 3	980	Helical; Name=6; (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)													0.297297	30.109597	31.469413	11	26	GG		KEEP	---	---	---	---	capture			Silent	SNP	26387160	26387160	6904	2	G	T	T	47	47	GPR113	T	3	3
GUCA1C	9626	broad.mit.edu	36	3	110109711	110109711	+	Missense_Mutation	SNP	C	A	A			TCGA-06-0173-01	TCGA-06-0173-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr3:110109711C>A	uc003dxj.1	-	c.478G>T	c.(478-480)GCA>TCA	p.A160S	GUCA1C_uc003dxk.1_Missense_Mutation_p.G173V	NM_005459	NP_005450	O95843	GUC1C_HUMAN	guanylate cyclase activator 1C	160	EF-hand 4.				signal transduction|visual perception		calcium ion binding|calcium sensitive guanylate cyclase activator activity				0						NSCLC(157;1360 1999 30631 40189 44208)								0.407895	92.208122	92.772224	31	45	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	110109711	110109711	7170	3	C	A	A	26	26	GUCA1C	A	3	3
ABHD10	55347	broad.mit.edu	36	3	113180639	113180639	+	Missense_Mutation	SNP	C	T	T			TCGA-06-0173-01	TCGA-06-0173-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr3:113180639C>T	uc003dyk.2	+	c.41C>T	c.(40-42)CCT>CTT	p.P14L		NM_018394	NP_060864	Q9NUJ1	ABHDA_HUMAN	abhydrolase domain containing 10	14						mitochondrion	serine-type peptidase activity				0														0.489796	75.800591	75.80493	24	25	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	113180639	113180639	75	3	C	T	T	24	24	ABHD10	T	2	2
LRAT	9227	broad.mit.edu	36	4	155889613	155889613	+	Missense_Mutation	SNP	C	T	T			TCGA-06-0173-01	TCGA-06-0173-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr4:155889613C>T	uc003iom.1	+	c.568C>T	c.(568-570)CGT>TGT	p.R190C	LRAT_uc003ion.1_Missense_Mutation_p.R190C	NM_004744	NP_004735	O95237	LRAT_HUMAN	lecithin retinol acyltransferase	190	Cytoplasmic (By similarity).				response to stimulus|retinoid metabolic process|steroid metabolic process|visual perception	endoplasmic reticulum membrane|integral to membrane|multivesicular body|perinuclear region of cytoplasm|rough endoplasmic reticulum	phosphatidylcholine-retinol O-acyltransferase activity			central_nervous_system(1)	1	all_hematologic(180;0.215)	Renal(120;0.0458)			Vitamin A(DB00162)									0.413174	204.13928	205.240007	69	98	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	155889613	155889613	9303	4	C	T	T	31	31	LRAT	T	1	1
ANP32C	23520	broad.mit.edu	36	4	165338095	165338095	+	Silent	SNP	T	A	A			TCGA-06-0173-01	TCGA-06-0173-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr4:165338095T>A	uc003iqt.1	-	c.219A>T	c.(217-219)TCA>TCT	p.S73S	MARCH1_uc003iqs.1_Intron	NM_012403	NP_036535	O43423	AN32C_HUMAN	acidic nuclear phosphoprotein 32C	73	LRR 2.										0	all_hematologic(180;0.203)	Prostate(90;0.0138)|Melanoma(52;0.18)|all_neural(102;0.223)												0.387352	308.098274	310.909665	98	155	TT		KEEP	---	---	---	---	capture		KIRC - Kidney renal clear cell carcinoma(143;0.242)	Silent	SNP	165338095	165338095	715	4	T	A	A	55	55	ANP32C	A	4	4
TRIML1	339976	broad.mit.edu	36	4	189305283	189305283	+	Missense_Mutation	SNP	G	T	T			TCGA-06-0173-01	TCGA-06-0173-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr4:189305283G>T	uc003izm.1	+	c.1170G>T	c.(1168-1170)TGG>TGT	p.W390C	TRIML1_uc003izn.1_Missense_Mutation_p.W114C	NM_178556	NP_848651	Q8N9V2	TRIML_HUMAN	tripartite motif family-like 1	390	B30.2/SPRY.				multicellular organismal development		ligase activity|zinc ion binding			ovary(1)|breast(1)|pancreas(1)	3		all_cancers(14;1.33e-43)|all_epithelial(14;7.86e-31)|all_lung(41;4.3e-13)|Lung NSC(41;9.69e-13)|Melanoma(20;7.86e-05)|Breast(6;0.000148)|Hepatocellular(41;0.0218)|Renal(120;0.0376)|Prostate(90;0.0513)|all_hematologic(60;0.062)				Melanoma(31;213 1036 16579 23968 32372)								0.430622	260.410997	261.288985	90	119	GG		KEEP	---	---	---	---	capture		OV - Ovarian serous cystadenocarcinoma(60;1.52e-11)|BRCA - Breast invasive adenocarcinoma(30;4.19e-06)|GBM - Glioblastoma multiforme(59;0.000232)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.156)	Missense_Mutation	SNP	189305283	189305283	17100	4	G	T	T	43	43	TRIML1	T	3	3
CCDC112	153733	broad.mit.edu	36	5	114635180	114635180	+	Missense_Mutation	SNP	C	T	T			TCGA-06-0173-01	TCGA-06-0173-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr5:114635180C>T	uc003kqz.2	-	c.961G>A	c.(961-963)GAA>AAA	p.E321K	CCDC112_uc003kqy.2_Missense_Mutation_p.E238K|CCDC112_uc003kra.2_Missense_Mutation_p.E321K	NM_001040440	NP_689762	Q8NEF3	CC112_HUMAN	coiled-coil domain containing 112 isoform 1	238	Potential.										0		all_cancers(142;0.000523)|all_epithelial(76;6.44e-06)|Prostate(80;0.00955)|Ovarian(225;0.0443)|all_lung(232;0.132)|Breast(839;0.195)												0.217687	77.818862	88.620675	32	115	CC		KEEP	---	---	---	---	capture		OV - Ovarian serous cystadenocarcinoma(64;4.09e-08)|Epithelial(69;5.28e-08)|all cancers(49;7.06e-06)	Missense_Mutation	SNP	114635180	114635180	2869	5	C	T	T	30	30	CCDC112	T	2	2
ODZ2	57451	broad.mit.edu	36	5	167607441	167607441	+	Missense_Mutation	SNP	C	T	T			TCGA-06-0173-01	TCGA-06-0173-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr5:167607441C>T	uc010jjd.1	+	c.6892C>T	c.(6892-6894)CGG>TGG	p.R2298W	ODZ2_uc003lzr.2_Missense_Mutation_p.R2068W|ODZ2_uc003lzt.2_Missense_Mutation_p.R1671W|ODZ2_uc010jje.1_Missense_Mutation_p.R1562W	NM_001122679	NP_001116151			odz, odd Oz/ten-m homolog 2											ovary(6)|central_nervous_system(4)	10	Renal(175;0.00124)|Lung NSC(126;0.136)|all_lung(126;0.242)	Medulloblastoma(196;0.0241)|all_neural(177;0.026)												0.350282	166.30026	169.798634	62	115	CC		KEEP	---	---	---	---	capture	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0444)|OV - Ovarian serous cystadenocarcinoma(192;0.0694)|Epithelial(171;0.124)	Missense_Mutation	SNP	167607441	167607441	11240	5	C	T	T	19	19	ODZ2	T	1	1
CDH9	1007	broad.mit.edu	36	5	26938468	26938468	+	Missense_Mutation	SNP	T	A	A			TCGA-06-0173-01	TCGA-06-0173-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr5:26938468T>A	uc003jgs.1	-	c.1127A>T	c.(1126-1128)GAT>GTT	p.D376V		NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	376	Cadherin 3.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)	5						Melanoma(8;187 585 15745 40864 52829)								0.129944	30.799597	54.394368	23	154	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	26938468	26938468	3246	5	T	A	A	50	50	CDH9	A	4	4
AIM1	202	broad.mit.edu	36	6	107074627	107074627	+	Missense_Mutation	SNP	T	C	C			TCGA-06-0173-01	TCGA-06-0173-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr6:107074627T>C	uc003prh.1	+	c.1627T>C	c.(1627-1629)TCC>CCC	p.S543P		NM_001624	NP_001615	Q9Y4K1	AIM1_HUMAN	absent in melanoma 1	543							sugar binding			breast(4)|ovary(2)|large_intestine(1)	7	Breast(9;0.0138)|all_epithelial(6;0.169)	all_cancers(87;4.67e-25)|all_epithelial(87;5.46e-21)|Acute lymphoblastic leukemia(125;2.15e-07)|all_hematologic(75;5.28e-06)|Colorectal(196;3.46e-05)|all_lung(197;5.94e-05)|Lung NSC(302;7.26e-05)|Ovarian(999;0.00473)								659				0.458333	144.591754	144.736552	44	52	TT		KEEP	---	---	---	---	capture	Epithelial(6;0.00114)|all cancers(7;0.00726)|BRCA - Breast invasive adenocarcinoma(8;0.0114)|OV - Ovarian serous cystadenocarcinoma(5;0.0305)	all cancers(137;1.73e-50)|Epithelial(106;2.42e-48)|OV - Ovarian serous cystadenocarcinoma(136;1.51e-27)|BRCA - Breast invasive adenocarcinoma(108;0.00104)|GBM - Glioblastoma multiforme(226;0.00858)	Missense_Mutation	SNP	107074627	107074627	433	6	T	C	C	50	50	AIM1	C	4	4
C6orf170	221322	broad.mit.edu	36	6	121684560	121684560	+	Missense_Mutation	SNP	T	C	C			TCGA-06-0173-01	TCGA-06-0173-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr6:121684560T>C	uc003pyo.1	-	c.235A>G	c.(235-237)ACA>GCA	p.T79A	C6orf170_uc003pyq.1_Non-coding_Transcript	NM_152730	NP_689943	Q96NH3	BROMI_HUMAN	hypothetical protein LOC221322	79					multicellular organismal development	cilium|cytoplasm	Rab GTPase activator activity			central_nervous_system(2)|ovary(1)	3														0.361011	285.027174	289.735447	100	177	TT		KEEP	---	---	---	---	capture		GBM - Glioblastoma multiforme(226;0.00521)	Missense_Mutation	SNP	121684560	121684560	2449	6	T	C	C	59	59	C6orf170	C	4	4
FNDC1	84624	broad.mit.edu	36	6	159573406	159573406	+	Silent	SNP	G	A	A			TCGA-06-0173-01	TCGA-06-0173-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr6:159573406G>A	uc010kjv.1	+	c.1872G>A	c.(1870-1872)GCG>GCA	p.A624A	FNDC1_uc010kjw.1_Silent_p.A509A	NM_032532	NP_115921	Q4ZHG4	FNDC1_HUMAN	fibronectin type III domain containing 1	624						extracellular region				large_intestine(4)|ovary(3)|central_nervous_system(1)	8		Breast(66;0.000781)|Ovarian(120;0.0308)|Prostate(117;0.195)												0.425532	56.270305	56.501331	20	27	GG		KEEP	---	---	---	---	capture		OV - Ovarian serous cystadenocarcinoma(65;2.6e-16)|BRCA - Breast invasive adenocarcinoma(81;1.06e-05)	Silent	SNP	159573406	159573406	6210	6	G	A	A	40	40	FNDC1	A	1	1
SLC22A2	6582	broad.mit.edu	36	6	160599413	160599413	+	Missense_Mutation	SNP	G	A	A			TCGA-06-0173-01	TCGA-06-0173-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr6:160599413G>A	uc003qte.1	-	c.367C>T	c.(367-369)CGG>TGG	p.R123W	SLC22A2_uc003qtf.1_Missense_Mutation_p.R123W|SLC22A2_uc003qth.1_Missense_Mutation_p.R123W	NM_003058	NP_003049	O15244	S22A2_HUMAN	solute carrier family 22 member 2	123	Extracellular (Potential).				body fluid secretion|neurotransmitter biosynthetic process|neurotransmitter secretion	integral to plasma membrane|membrane fraction	neurotransmitter transporter activity|organic cation transmembrane transporter activity			breast(1)	1		Breast(66;0.000776)|Ovarian(120;0.0303)												0.441718	221.780642	222.262207	72	91	GG		KEEP	---	---	---	---	capture		OV - Ovarian serous cystadenocarcinoma(65;2.28e-17)|BRCA - Breast invasive adenocarcinoma(81;6.29e-06)	Missense_Mutation	SNP	160599413	160599413	14947	6	G	A	A	39	39	SLC22A2	A	1	1
OR10C1	442194	broad.mit.edu	36	6	29516212	29516212	+	Silent	SNP	G	A	A			TCGA-06-0173-01	TCGA-06-0173-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr6:29516212G>A	uc003nmh.1	+	c.441G>A	c.(439-441)GCG>GCA	p.A147A	OR11A1_uc010jrh.1_Intron	NM_013941	NP_039229	Q6IFQ5	Q6IFQ5_HUMAN	olfactory receptor, family 10, subfamily C,	147						integral to membrane	olfactory receptor activity				0														0.409938	187.345792	188.47796	66	95	GG		KEEP	---	---	---	---	capture			Silent	SNP	29516212	29516212	11304	6	G	A	A	40	40	OR10C1	A	1	1
GRM4	2914	broad.mit.edu	36	6	34208979	34208979	+	Silent	SNP	G	A	A			TCGA-06-0173-01	TCGA-06-0173-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr6:34208979G>A	uc003oir.2	-	c.273C>T	c.(271-273)AAC>AAT	p.N91N	GRM4_uc010jvh.1_Silent_p.N91N|GRM4_uc010jvi.1_De_novo_Start_OutOfFrame|GRM4_uc010jvj.1_Intron|GRM4_uc010jvk.1_Silent_p.N10N	NM_000841	NP_000832	Q14833	GRM4_HUMAN	glutamate receptor, metabotropic 4	91	Extracellular (Potential).				activation of MAPK activity|inhibition of adenylate cyclase activity by metabotropic glutamate receptor signaling pathway|neuroprotection|neurotransmitter secretion|positive regulation of MAPKKK cascade	cytoplasmic vesicle|integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			ovary(1)	1					L-Glutamic Acid(DB00142)									0.348485	58.986937	60.331992	23	43	GG		KEEP	---	---	---	---	capture			Silent	SNP	34208979	34208979	7078	6	G	A	A	40	40	GRM4	A	1	1
DNAH8	1769	broad.mit.edu	36	6	38812914	38812914	+	Missense_Mutation	SNP	A	G	G			TCGA-06-0173-01	TCGA-06-0173-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr6:38812914A>G	uc003ooe.1	+	c.205A>G	c.(205-207)ACA>GCA	p.T69A		NM_001371	NP_001362	Q96JB1	DYH8_HUMAN	dynein, axonemal, heavy polypeptide 8	69					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(5)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	17										2979				0.413043	264.4769	265.689615	76	108	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	38812914	38812914	4790	6	A	G	G	2	2	DNAH8	G	4	4
TTBK1	84630	broad.mit.edu	36	6	43329359	43329359	+	Missense_Mutation	SNP	A	G	G			TCGA-06-0173-01	TCGA-06-0173-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr6:43329359A>G	uc003ouq.1	+	c.406A>G	c.(406-408)AAG>GAG	p.K136E		NM_032538	NP_115927	Q5TCY1	TTBK1_HUMAN	tau tubulin kinase 1	136	Protein kinase.				protein phosphorylation	cell junction|cytoplasm|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			lung(4)|ovary(2)|skin(2)|upper_aerodigestive_tract(1)	9										85				0.333333	10.095941	10.391178	4	8	AA		KEEP	---	---	---	---	capture	Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0125)|OV - Ovarian serous cystadenocarcinoma(102;0.0399)		Missense_Mutation	SNP	43329359	43329359	17230	6	A	G	G	5	5	TTBK1	G	4	4
PIK3CG	5294	broad.mit.edu	36	7	106311882	106311882	+	Missense_Mutation	SNP	G	C	C			TCGA-06-0173-01	TCGA-06-0173-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr7:106311882G>C	uc003vdv.2	+	c.2807G>C	c.(2806-2808)TGT>TCT	p.C936S	PIK3CG_uc003vdu.1_Missense_Mutation_p.C936S|PIK3CG_uc003vdw.1_Missense_Mutation_p.C936S	NM_002649	NP_002640	P48736	PK3CG_HUMAN	phosphoinositide-3-kinase, catalytic, gamma	936	PI3K/PI4K.				G-protein coupled receptor protein signaling pathway|phosphatidylinositol-mediated signaling|platelet activation	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding	p.C936S(1)		central_nervous_system(8)|lung(7)|pancreas(3)|ovary(2)|skin(1)	21									p.C936fs(NCIH358-Tumor)	292				0.23262	246.867134	271.322343	87	287	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	106311882	106311882	12340	7	G	C	C	48	48	PIK3CG	C	3	3
IMPDH1	3614	broad.mit.edu	36	7	127825726	127825726	+	Missense_Mutation	SNP	G	A	A			TCGA-06-0173-01	TCGA-06-0173-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr7:127825726G>A	uc003vmu.2	-	c.1052C>T	c.(1051-1053)GCG>GTG	p.A351V	IMPDH1_uc003vmt.1_Missense_Mutation_p.A241V|IMPDH1_uc003vmw.2_Missense_Mutation_p.A341V|IMPDH1_uc003vmv.2_Missense_Mutation_p.A315V|IMPDH1_uc003vmx.2_Missense_Mutation_p.A274V|IMPDH1_uc003vmy.2_Missense_Mutation_p.A282V	NM_000883	NP_000874	P20839	IMDH1_HUMAN	inosine monophosphate dehydrogenase 1 isoform a	266	NAD (By similarity).				GMP biosynthetic process|oxidation-reduction process|purine base metabolic process|response to stimulus|visual perception	cytosol	IMP dehydrogenase activity|metal ion binding			lung(1)|central_nervous_system(1)	2					Mycophenolate mofetil(DB00688)|Mycophenolic acid(DB01024)|NADH(DB00157)|Ribavirin(DB00811)|Thioguanine(DB00352)							OREG0018292	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	0.359551	178.613257	181.677523	64	114	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	127825726	127825726	8027	7	G	A	A	38	38	IMPDH1	A	1	1
OR2F2	135948	broad.mit.edu	36	7	143263902	143263902	+	Missense_Mutation	SNP	T	A	A			TCGA-06-0173-01	TCGA-06-0173-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr7:143263902T>A	uc003wdq.1	+	c.644T>A	c.(643-645)CTG>CAG	p.L215Q		NM_001004685	NP_001004685	O95006	OR2F2_HUMAN	olfactory receptor, family 2, subfamily F,	215	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)	3	Melanoma(164;0.0903)													0.222222	85.463131	96.329437	34	119	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	143263902	143263902	11403	7	T	A	A	55	55	OR2F2	A	4	4
SSPO	23145	broad.mit.edu	36	7	149110321	149110321	+	Splice_Site_SNP	SNP	G	T	T			TCGA-06-0173-01	TCGA-06-0173-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr7:149110321G>T	uc010lpk.1	+	c.1900_splice	c.e14+1	p.G634_splice	SSPO_uc010lpl.1_Splice_Site_SNP_p.Q27_splice	NM_198455	NP_940857			SCO-spondin						cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)													0.205882	7.640907	10.366207	7	27	GG		KEEP	---	---	---	---	capture	OV - Ovarian serous cystadenocarcinoma(82;0.00625)		Splice_Site_SNP	SNP	149110321	149110321	15705	7	G	T	T	44	44	SSPO	T	5	3
UBE3C	9690	broad.mit.edu	36	7	156669345	156669345	+	Missense_Mutation	SNP	A	T	T			TCGA-06-0173-01	TCGA-06-0173-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr7:156669345A>T	uc010lqs.1	+	c.1004A>T	c.(1003-1005)GAG>GTG	p.E335V	UBE3C_uc003wnf.2_Missense_Mutation_p.E292V|UBE3C_uc003wng.2_Missense_Mutation_p.E335V	NM_014671	NP_055486	Q15386	UBE3C_HUMAN	ubiquitin protein ligase E3C	335					protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus|proteasome complex	protein binding|ubiquitin-protein ligase activity			large_intestine(1)|ovary(1)	2		all_hematologic(28;0.0185)|all_epithelial(9;0.0664)												0.140992	83.587577	131.228202	54	329	AA		KEEP	---	---	---	---	capture	OV - Ovarian serous cystadenocarcinoma(82;0.00448)	UCEC - Uterine corpus endometrioid carcinoma (81;0.19)	Missense_Mutation	SNP	156669345	156669345	17439	7	A	T	T	11	11	UBE3C	T	4	4
HECW1	23072	broad.mit.edu	36	7	43485804	43485804	+	Missense_Mutation	SNP	G	A	A			TCGA-06-0173-01	TCGA-06-0173-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr7:43485804G>A	uc003tid.1	+	c.3170G>A	c.(3169-3171)CGT>CAT	p.R1057H		NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	1057					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(7)|breast(2)|skin(2)|pancreas(1)|lung(1)	13									p.R1057P(NCIH1048-Tumor)	944				0.313472	322.422394	334.383745	121	265	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	43485804	43485804	7325	7	G	A	A	40	40	HECW1	A	1	1
BAZ1B	9031	broad.mit.edu	36	7	72530577	72530577	+	Missense_Mutation	SNP	T	A	A			TCGA-06-0173-01	TCGA-06-0173-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr7:72530577T>A	uc003tyc.1	-	c.1150A>T	c.(1150-1152)ATT>TTT	p.I384F		NM_032408	NP_115784	Q9UIG0	BAZ1B_HUMAN	bromodomain adjacent to zinc finger domain, 1B	384	Lys-rich.				ATP-dependent chromatin remodeling|chromatin-mediated maintenance of transcription|DNA replication-dependent nucleosome disassembly|double-strand break repair|heart morphogenesis|transcription, DNA-dependent	WINAC complex	ATP binding|chromatin binding|histone acetyl-lysine binding|histone kinase activity|non-membrane spanning protein tyrosine kinase activity|protein complex scaffold|transcription regulator activity|vitamin D receptor activator activity|vitamin D receptor binding|zinc ion binding			ovary(4)|breast(1)	5		Lung NSC(55;0.0659)|all_lung(88;0.152)				Esophageal Squamous(112;1167 1561 21085 43672 48228)								0.307229	149.669295	155.165237	51	115	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	72530577	72530577	1351	7	T	A	A	51	51	BAZ1B	A	4	4
RIMS2	9699	broad.mit.edu	36	8	105070711	105070711	+	Missense_Mutation	SNP	G	A	A			TCGA-06-0173-01	TCGA-06-0173-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr8:105070711G>A	uc003yls.2	+	c.2264G>A	c.(2263-2265)CGG>CAG	p.R755Q	RIMS2_uc003ylp.2_Missense_Mutation_p.R977Q|RIMS2_uc003ylw.2_Missense_Mutation_p.R769Q|RIMS2_uc003ylq.2_Missense_Mutation_p.R769Q|RIMS2_uc003ylr.2_Missense_Mutation_p.R816Q	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	1039					intracellular protein transport	cell junction|presynaptic membrane	Rab GTPase binding|zinc ion binding			ovary(6)|lung(2)|breast(2)|large_intestine(1)|central_nervous_system(1)|skin(1)|pancreas(1)	14										728				0.298137	139.345114	145.204747	48	113	GG		KEEP	---	---	---	---	capture	OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)		Missense_Mutation	SNP	105070711	105070711	13845	8	G	A	A	39	39	RIMS2	A	1	1
EPPK1	83481	broad.mit.edu	36	8	145019324	145019324	+	Missense_Mutation	SNP	G	A	A			TCGA-06-0173-01	TCGA-06-0173-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr8:145019324G>A	uc003zaa.1	-	c.11C>T	c.(10-12)ACG>ATG	p.T4M		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	29						cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)	1	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)													0.456522	58.468745	58.544323	21	25	GG		KEEP	---	---	---	---	capture	OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)		Missense_Mutation	SNP	145019324	145019324	5383	8	G	A	A	40	40	EPPK1	A	1	1
NRG1	3084	broad.mit.edu	36	8	31617526	31617526	+	Missense_Mutation	SNP	G	C	C			TCGA-06-0173-01	TCGA-06-0173-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr8:31617526G>C	uc003xip.1	+	c.484G>C	c.(484-486)GTG>CTG	p.V162L		NM_013962	NP_039256	Q02297	NRG1_HUMAN	neuregulin 1 isoform GGF2	Error:Variant_position_missing_in_Q02297_after_alignment					activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|cardiac muscle cell differentiation|cell communication|cell proliferation|cellular protein complex disassembly|embryo development|mammary gland development|negative regulation of cardiac muscle cell apoptosis|negative regulation of secretion|negative regulation of transcription, DNA-dependent|nervous system development|neural crest cell development|Notch signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of cell adhesion|positive regulation of cell growth|positive regulation of striated muscle cell differentiation|regulation of protein heterodimerization activity|regulation of protein homodimerization activity|transmembrane receptor protein tyrosine kinase signaling pathway|ventricular cardiac muscle cell differentiation|wound healing|wound healing	apical plasma membrane|extracellular region|extracellular space|integral to membrane|nucleus|plasma membrane	cytokine activity|ErbB-3 class receptor binding|growth factor activity|growth factor activity|protein binding|protein tyrosine kinase activator activity|receptor tyrosine kinase binding|transcription cofactor activity|transmembrane receptor protein tyrosine kinase activator activity|transmembrane receptor protein tyrosine kinase activator activity				0		Breast(100;0.203)												0.272727	8.620966	9.13256	3	8	GG		KEEP	---	---	---	---	capture		KIRC - Kidney renal clear cell carcinoma(67;0.0768)|Kidney(114;0.0943)	Missense_Mutation	SNP	31617526	31617526	11052	8	G	C	C	44	44	NRG1	C	3	3
SULF1	23213	broad.mit.edu	36	8	70678007	70678007	+	Missense_Mutation	SNP	A	T	T			TCGA-06-0173-01	TCGA-06-0173-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr8:70678007A>T	uc010lza.1	+	c.1088A>T	c.(1087-1089)GAC>GTC	p.D363V	SULF1_uc003xyd.2_Missense_Mutation_p.D363V|SULF1_uc003xye.2_Missense_Mutation_p.D363V|SULF1_uc003xyf.2_Missense_Mutation_p.D363V|SULF1_uc003xyg.2_Missense_Mutation_p.D363V|SULF1_uc003xyh.1_Non-coding_Transcript	NM_015170	NP_055985	Q8IWU6	SULF1_HUMAN	sulfatase 1	363					apoptosis|bone development|heparan sulfate proteoglycan metabolic process|kidney development|negative regulation of fibroblast growth factor receptor signaling pathway	cell surface|endoplasmic reticulum|extracellular space|Golgi stack	arylsulfatase activity|calcium ion binding			ovary(2)|central_nervous_system(2)|pancreas(1)	5	Breast(64;0.0654)									473				0.415094	326.607073	328.273427	110	155	AA		KEEP	---	---	---	---	capture	Epithelial(68;0.0124)|OV - Ovarian serous cystadenocarcinoma(28;0.0265)|all cancers(69;0.0534)		Missense_Mutation	SNP	70678007	70678007	15890	8	A	T	T	10	10	SULF1	T	4	4
ZFHX4	79776	broad.mit.edu	36	8	77928994	77928994	+	Missense_Mutation	SNP	G	C	C			TCGA-06-0173-01	TCGA-06-0173-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr8:77928994G>C	uc003yav.1	+	c.7147G>C	c.(7147-7149)GCC>CCC	p.A2383P	ZFHX4_uc003yau.1_Missense_Mutation_p.A2428P|ZFHX4_uc003yaw.1_Missense_Mutation_p.A2383P	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2383	Pro-rich.				regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulator activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15														0.428571	6.605115	6.63946	3	4	GG		KEEP	---	---	---	---	capture	BRCA - Breast invasive adenocarcinoma(89;0.0895)		Missense_Mutation	SNP	77928994	77928994	18223	8	G	C	C	34	34	ZFHX4	C	3	3
LAMC3	10319	broad.mit.edu	36	9	132917767	132917767	+	Missense_Mutation	SNP	G	A	A			TCGA-06-0173-01	TCGA-06-0173-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr9:132917767G>A	uc004caa.1	+	c.1699G>A	c.(1699-1701)GGG>AGG	p.G567R		NM_006059	NP_006050	Q9Y6N6	LAMC3_HUMAN	laminin, gamma 3 precursor	567	Laminin IV type A.				cell adhesion	basement membrane|membrane	structural molecule activity			ovary(2)|pancreas(1)	3	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)										OREG0019556	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	0.374101	152.102933	154.022088	52	87	GG		KEEP	---	---	---	---	capture		OV - Ovarian serous cystadenocarcinoma(145;5.06e-05)|Epithelial(140;0.000551)	Missense_Mutation	SNP	132917767	132917767	8939	9	G	A	A	39	39	LAMC3	A	1	1
C9orf66	157983	broad.mit.edu	36	9	204916	204916	+	Missense_Mutation	SNP	G	A	A			TCGA-06-0173-01	TCGA-06-0173-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr9:204916G>A	uc003zge.2	-	c.481C>T	c.(481-483)CGC>TGC	p.R161C	DOCK8_uc003zgf.1_5'UTR	NM_152569	NP_689782	Q5T8R8	CI066_HUMAN	hypothetical protein LOC157983	161								p.R161C(1)		central_nervous_system(1)	1	all_lung(41;0.218)	all_cancers(5;2.09e-12)|all_epithelial(5;6.16e-09)|all_lung(10;1.15e-08)|Lung NSC(10;1.91e-08)|Acute lymphoblastic leukemia(5;0.00457)|all_hematologic(5;0.0332)|Breast(48;0.0646)|Prostate(43;0.137)												0.68	46.282172	47.020177	17	8	GG		KEEP	---	---	---	---	capture	Kidney(42;0.112)|KIRC - Kidney renal clear cell carcinoma(5;0.157)	all cancers(5;0.000704)|Lung(218;0.00755)|GBM - Glioblastoma multiforme(5;0.0149)|Epithelial(6;0.0154)	Missense_Mutation	SNP	204916	204916	2606	9	G	A	A	38	38	C9orf66	A	1	1
FAM120A	23196	broad.mit.edu	36	9	95329287	95329287	+	Missense_Mutation	SNP	A	G	G			TCGA-06-0173-01	TCGA-06-0173-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr9:95329287A>G	uc004atw.1	+	c.1448A>G	c.(1447-1449)GAG>GGG	p.E483G	FAM120A_uc004atv.2_Missense_Mutation_p.E483G|FAM120A_uc004atx.2_Missense_Mutation_p.E265G|FAM120A_uc004aty.1_Missense_Mutation_p.E264G|FAM120A_uc004atz.1_Missense_Mutation_p.E132G|FAM120A_uc010mrf.1_Non-coding_Transcript	NM_014612	NP_055427	Q9NZB2	F120A_HUMAN	hypothetical protein LOC23196	483						cytoplasm|plasma membrane	RNA binding				0														0.26	11.871642	14.593342	13	37	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	95329287	95329287	5612	9	A	G	G	11	11	FAM120A	G	4	4
GATA1	2623	broad.mit.edu	36	X	48537290	48537290	+	Silent	SNP	G	A	A			TCGA-06-0173-01	TCGA-06-0173-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chrX:48537290G>A	uc004dkq.2	+	c.1017G>A	c.(1015-1017)GGG>GGA	p.G339G		NM_002049	NP_002040	P15976	GATA1_HUMAN	GATA binding protein 1	339					blood coagulation|regulation of transcription from RNA polymerase II promoter	nuclear membrane|nucleolus|nucleoplasm	sequence-specific DNA binding transcription factor activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(213)|lung(2)	215						Pancreas(9;429 505 11287 29617)				37				0.315789	17.951458	18.520455	6	13	GG		KEEP	---	---	---	---	capture			Silent	SNP	48537290	48537290	6517	23	G	A	A	43	43	GATA1	A	2	2
YIPF6	286451	broad.mit.edu	36	X	67659444	67659444	+	Silent	SNP	G	T	T			TCGA-06-0173-01	TCGA-06-0173-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chrX:67659444G>T	uc004dwy.1	+	c.552G>T	c.(550-552)CGG>CGT	p.R184R		NM_173834	NP_776195	Q96EC8	YIPF6_HUMAN	Yip1 domain family, member 6	184						endoplasmic reticulum|integral to membrane					0														0.382514	200.197917	202.415669	70	113	GG		KEEP	---	---	---	---	capture			Silent	SNP	67659444	67659444	18065	23	G	T	T	42	42	YIPF6	T	3	3
CDX4	1046	broad.mit.edu	36	X	72583987	72583987	+	Missense_Mutation	SNP	A	G	G			TCGA-06-0173-01	TCGA-06-0173-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chrX:72583987A>G	uc004ebj.1	+	c.173A>G	c.(172-174)CAT>CGT	p.H58R		NM_005193	NP_005184	O14627	CDX4_HUMAN	caudal type homeobox 4	58						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulator activity				0	Renal(35;0.156)													0.292308	48.914412	51.416444	19	46	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	72583987	72583987	3313	23	A	G	G	8	8	CDX4	G	4	4
CPXCR1	53336	broad.mit.edu	36	X	87895900	87895900	+	Missense_Mutation	SNP	T	C	C			TCGA-06-0173-01	TCGA-06-0173-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chrX:87895900T>C	uc004efd.2	+	c.829T>C	c.(829-831)TTT>CTT	p.F277L	CPXCR1_uc004efc.2_Missense_Mutation_p.F277L|CPXCR1_uc010nms.1_Missense_Mutation_p.F277L	NM_033048	NP_149037	Q8N123	CPXCR_HUMAN	CPX chromosome region, candidate 1	277						intracellular	zinc ion binding			ovary(3)	3														0.329545	93.1507	95.414274	29	59	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	87895900	87895900	3975	23	T	C	C	56	56	CPXCR1	C	4	4
SDC4	6385	broad.mit.edu	36	20	43410429	43410430	+	Frame_Shift_Ins	INS	-	G	G			TCGA-06-0173-01	TCGA-06-0173-01										Phase_I	Unspecified				Illumina GAIIx	g.chr20:43410429_43410430insG	uc002xnu.1	-	c.9_10insC	c.(7-12)CCCGCCfs	p.P3fs		NM_002999	NP_002990	P31431	SDC4_HUMAN	syndecan 4 precursor	3_4						integral to plasma membrane	cytoskeletal protein binding|thrombospondin receptor activity				0		Myeloproliferative disorder(115;0.0122)												0.36			10	18				---	---	---	---	capture_indel			Frame_Shift_Ins	INS	43410429	43410430	14439	20	-	G	G	27	27	SDC4	G	5	5
TTLL3	26140	broad.mit.edu	36	3	9814460	9814463	+	Splice_Site_Del	DEL	AGGT	-	-			TCGA-06-0173-01	TCGA-06-0173-01										Phase_I	Unspecified				Illumina GAIIx	g.chr3:9814460_9814463delAGGT	uc003btd.2	+	c.e1_splice_site			ARPC4_uc003btc.1_Splice_Site_Del|ARPC4_uc003bsz.1_Splice_Site_Del|ARPC4_uc003bta.1_Splice_Site_Del|ARPC4_uc003btb.1_Splice_Site_Del					Tubulin--tyrosine ligase-like protein 3 (HOTTL).						axoneme assembly|cilium assembly|protein polyglycylation	cilium axoneme|cytoplasm|microtubule	protein-glycine ligase activity, initiating|tubulin-tyrosine ligase activity			large_intestine(2)	2	Medulloblastoma(99;0.227)													0.35			24	45				---	---	---	---	capture_indel			Splice_Site_Del	DEL	9814460	9814463	17283	3	AGGT	-	-	7	7	TTLL3	-	5	5
C4orf21	55345	broad.mit.edu	36	4	113730416	113730417	+	Frame_Shift_Del	DEL	TT	-	-			TCGA-06-0173-01	TCGA-06-0173-01										Phase_I	Unspecified				Illumina GAIIx	g.chr4:113730416_113730417delTT	uc003iaw.1	-	c.3039_3040delAA	c.(3037-3042)TCAAGAfs	p.S1013fs		NM_018392	NP_060862	Q6ZU11	YD002_HUMAN	hypothetical protein LOC55345	Error:Variant_position_missing_in_Q6ZU11_after_alignment						integral to membrane	zinc ion binding				0		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000676)										0.34			61	116				---	---	---	---	capture_indel			Frame_Shift_Del	DEL	113730416	113730417	2349	4	TT	-	-	56	56	C4orf21	-	5	5
