Hugo_Symbol	Entrez_Gene_Id	Center	NCBI_Build	Chromosome	Start_position	End_position	Strand	Variant_Classification	Variant_Type	Reference_Allele	Tumor_Seq_Allele1	Tumor_Seq_Allele2	dbSNP_RS	dbSNP_Val_Status	Tumor_Sample_Barcode	Matched_Norm_Sample_Barcode	Match_Norm_Seq_Allele1	Match_Norm_Seq_Allele2	Tumor_Validation_Allele1	Tumor_Validation_Allele2	Match_Norm_Validation_Allele1	Match_Norm_Validation_Allele2	Verification_Status	Validation_Status	Mutation_Status	Sequencing_Phase	Sequence_Source	Validation_Method	Score	BAM_file	Sequencer	Tumor_Sample_UUID	Matched_Norm_Sample_UUID	Genome_Change	Annotation_Transcript	Transcript_Strand	Transcript_Exon	Transcript_Position	cDNA_Change	Codon_Change	Protein_Change	Other_Transcripts	Refseq_mRNA_Id	Refseq_prot_Id	SwissProt_acc_Id	SwissProt_entry_Id	Description	UniProt_AApos	UniProt_Region	UniProt_Site	UniProt_Natural_Variations	UniProt_Experimental_Info	GO_Biological_Process	GO_Cellular_Component	GO_Molecular_Function	COSMIC_overlapping_mutations	COSMIC_fusion_genes	COSMIC_tissue_types_affected	COSMIC_total_alterations_in_gene	Tumorscape_Amplification_Peaks	Tumorscape_Deletion_Peaks	TCGAscape_Amplification_Peaks	TCGAscape_Deletion_Peaks	DrugBank	ref_context	gc_content	CCLE_ONCOMAP_overlapping_mutations	CCLE_ONCOMAP_total_mutations_in_gene	CGC_Mutation_Type	CGC_Translocation_Partner	CGC_Tumor_Types_Somatic	CGC_Tumor_Types_Germline	CGC_Other_Diseases	DNARepairGenes_Role	FamilialCancerDatabase_Syndromes	MUTSIG_Published_Results	OREGANNO_ID	OREGANNO_Values	t_alt_count	t_ref_count	validation_status	validation_method	validation_tumor_sample	validation_alt_allele	pox	qox	pox_cutoff	isArtifactMode	oxoGCut
C1orf158	93190	broad.mit.edu	37	1	12820859	12820859	+	Missense_Mutation	SNP	G	A	A			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr1:12820859G>A	uc001auh.2	+	4	776	c.560G>A	c.(559-561)CGC>CAC	p.R187H		NM_152290	NP_689503	Q8N1D5	CA158_HUMAN	hypothetical protein LOC93190	187										ovary(1)|central_nervous_system(1)|skin(1)	3	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.0042)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.06e-06)|COAD - Colon adenocarcinoma(227;0.000273)|BRCA - Breast invasive adenocarcinoma(304;0.000311)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00575)|STAD - Stomach adenocarcinoma(313;0.00743)|READ - Rectum adenocarcinoma(331;0.0649)		CCTCCCCATCGCCTGCATCCT	0.577													7	35					0	0	0.278610	0	0
EDN2	1907	broad.mit.edu	37	1	41948222	41948222	+	Missense_Mutation	SNP	G	A	A			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr1:41948222G>A	uc001cgx.2	-	3	331	c.259C>T	c.(259-261)CGC>TGC	p.R87C	EDN2_uc001cgu.2_RNA|EDN2_uc001cgv.2_RNA|EDN2_uc009vwh.2_Translation_Start_Site|EDN2_uc001cgw.2_RNA|EDN2_uc009vwi.2_Intron|EDN2_uc009vwj.2_Intron	NM_001956	NP_001947	P20800	EDN2_HUMAN	endothelin 2 preproprotein	87					artery smooth muscle contraction|calcium-mediated signaling|cytokine-mediated signaling pathway|elevation of cytosolic calcium ion concentration|hormonal regulation of the force of heart contraction|inositol phosphate-mediated signaling|macrophage activation|macrophage chemotaxis|neutrophil chemotaxis|positive regulation of cell proliferation|positive regulation of heart rate|positive regulation of leukocyte chemotaxis|positive regulation of prostaglandin-endoperoxide synthase activity|positive regulation of the force of heart contraction by chemical signal|prostaglandin biosynthetic process|regulation of systemic arterial blood pressure by endothelin|regulation of vasoconstriction|vein smooth muscle contraction	extracellular space	endothelin B receptor binding|hormone activity				0	Ovarian(52;0.00769)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				CGGCGCCGGCGTCTTGGCGGG	0.597													9	24					0	0	0.307466	0	0
SNX7	51375	broad.mit.edu	37	1	99157205	99157205	+	Missense_Mutation	SNP	A	G	G			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr1:99157205A>G	uc010ouc.1	+	4	641	c.589A>G	c.(589-591)ACT>GCT	p.T197A	SNX7_uc001dsa.2_Missense_Mutation_p.T133A|SNX7_uc010oud.1_Intron	NM_015976	NP_057060	Q9UNH6	SNX7_HUMAN	sorting nexin 7 isoform a	133	PX.				cell communication|protein transport	cytoplasmic vesicle membrane	phosphatidylinositol binding|protein binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3		all_epithelial(167;7.64e-07)|all_lung(203;0.0006)|Lung NSC(277;0.00137)		Epithelial(280;0.0521)|all cancers(265;0.0687)|COAD - Colon adenocarcinoma(174;0.15)|Lung(183;0.207)|Colorectal(170;0.234)		TGATCATCCAACTTTAACATT	0.328													11	43					0	0	0.361761	0	0
OR10J3	441911	broad.mit.edu	37	1	159283478	159283478	+	Silent	SNP	C	T	T			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr1:159283478C>T	uc010piu.1	-	1	972	c.972G>A	c.(970-972)GCG>GCA	p.A324A		NM_001004467	NP_001004467	Q5JRS4	O10J3_HUMAN	olfactory receptor, family 10, subfamily J,	324	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	all_hematologic(112;0.0429)					TATTTATAAACGCAAAGGAAA	0.398													7	60					0	0	0.248553	0	0
SLC45A3	85414	broad.mit.edu	37	1	205628648	205628648	+	Missense_Mutation	SNP	G	A	A	rs140263007	byFrequency	TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr1:205628648G>A	uc001hda.1	-	5	1715	c.1376C>T	c.(1375-1377)GCG>GTG	p.A459V	SLC45A3_uc010prn.1_Intron|SLC45A3_uc010pro.1_Intron|SLC45A3_uc010prp.1_Intron|ELK4_uc010prq.1_Intron	NM_033102	NP_149093	Q96JT2	S45A3_HUMAN	prostein	459					transmembrane transport	integral to membrane			SLC45A3/BRAF(2)	ovary(2)|prostate(2)	4	Breast(84;0.07)		BRCA - Breast invasive adenocarcinoma(75;0.0194)			CCCGCAGAGCGCGGGTGGAGG	0.677			T	ETV1|ETV5|ELK4|ERG	prostate 						OREG0014161	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	8					0	0	0.248553	0	0
HEATR1	55127	broad.mit.edu	37	1	236766587	236766587	+	Missense_Mutation	SNP	C	G	G			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr1:236766587C>G	uc001hyd.1	-	3	357	c.232G>C	c.(232-234)GAG>CAG	p.E78Q	HEATR1_uc001hye.1_Missense_Mutation_p.E78Q	NM_018072	NP_060542	Q9H583	HEAT1_HUMAN	protein BAP28	78					rRNA processing	nucleolus|ribonucleoprotein complex	protein binding			ovary(2)|skin(1)	3	Ovarian(103;0.0634)|Breast(184;0.133)	all_cancers(173;0.0255)|Prostate(94;0.175)	OV - Ovarian serous cystadenocarcinoma(106;0.00117)			ACACTTCGCTCCAAGGTTTTT	0.418													14	48					0	0	0.479597	0	0
OR2L8	391190	broad.mit.edu	37	1	248112581	248112581	+	Missense_Mutation	SNP	T	A	A			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr1:248112581T>A	uc001idt.1	+	1	422	c.422T>A	c.(421-423)GTG>GAG	p.V141E	OR2L13_uc001ids.2_Intron	NM_001001963	NP_001001963	Q8NGY9	OR2L8_HUMAN	olfactory receptor, family 2, subfamily L,	141	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0152)			AGAGTGTGTGTGCTGATGATA	0.448													49	133					0	0	0.870114	0	0
RRAS2	22800	broad.mit.edu	37	11	14303174	14303174	+	Silent	SNP	A	C	C			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr11:14303174A>C	uc001mlf.3	-	5	814	c.501T>G	c.(499-501)GCT>GCG	p.A167A	RRAS2_uc009ygq.2_Silent_p.A90A|RRAS2_uc010rco.1_Silent_p.A173A	NM_012250	NP_036382	P62070	RRAS2_HUMAN	related RAS viral (r-ras) oncogene homolog 2	167						endoplasmic reticulum|plasma membrane	GTP binding|GTPase activity|protein binding			breast(1)	1				Epithelial(150;0.203)		GTTCATGGAAAGCTTGATCTA	0.348													18	64					0	0	0.557998	0	0
OR4C6	219432	broad.mit.edu	37	11	55433000	55433000	+	Missense_Mutation	SNP	C	T	T	rs146965889	byFrequency	TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr11:55433000C>T	uc001nht.3	+	3	623	c.358C>T	c.(358-360)CGC>TGC	p.R120C	OR4C6_uc010rik.1_Missense_Mutation_p.R120C	NM_001004704	NP_001004704	Q8NH72	OR4C6_HUMAN	olfactory receptor, family 4, subfamily C,	120	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						GGCCTATGACCGCTACGTGGC	0.552													15	58					0	0	0.457914	0	0
A2ML1	144568	broad.mit.edu	37	12	9004550	9004550	+	Missense_Mutation	SNP	G	A	A			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr12:9004550G>A	uc001quz.3	+	19	2503	c.2405G>A	c.(2404-2406)CGT>CAT	p.R802H	A2ML1_uc001qva.1_Missense_Mutation_p.R382H|A2ML1_uc010sgm.1_Missense_Mutation_p.R302H	NM_144670	NP_653271	A8K2U0	A2ML1_HUMAN	alpha-2-macroglobulin-like 1 precursor	646						extracellular space	endopeptidase inhibitor activity			ovary(2)|skin(1)	3						TCAGTAGTCCGTGGGGAATCC	0.502													28	93					0	0	0.769981	0	0
KRT3	3850	broad.mit.edu	37	12	53187985	53187985	+	Missense_Mutation	SNP	C	T	T			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr12:53187985C>T	uc001say.2	-	2	842	c.776G>A	c.(775-777)CGG>CAG	p.R259Q		NM_057088	NP_476429	P12035	K2C3_HUMAN	keratin 3	259	Rod.|Coil 1B.				epithelial cell differentiation|intermediate filament cytoskeleton organization	keratin filament	structural molecule activity				0						CAGGTAGCTCCGCAGGTAGTT	0.532													29	111					0	0	0.740014	0	0
MORN3	283385	broad.mit.edu	37	12	122091088	122091088	+	Missense_Mutation	SNP	C	T	T			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr12:122091088C>T	uc001uax.2	-	4	712	c.541G>A	c.(541-543)GGC>AGC	p.G181S	MORN3_uc001uay.2_Intron	NM_173855	NP_776254	Q6PF18	MORN3_HUMAN	MORN repeat containing 3	181	MORN 6.										0	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;0.000409)|Epithelial(86;0.00145)		AACAGCTGGCCGTGGTCCAGA	0.607													8	33					0	0	0.307466	0	0
TMEM132B	114795	broad.mit.edu	37	12	126139203	126139203	+	Missense_Mutation	SNP	G	A	A			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr12:126139203G>A	uc001uhe.1	+	9	3192	c.3184G>A	c.(3184-3186)GGG>AGG	p.G1062R	TMEM132B_uc001uhf.1_Missense_Mutation_p.G574R	NM_052907	NP_443139	Q14DG7	T132B_HUMAN	transmembrane protein 132B	1062	Cytoplasmic (Potential).					integral to membrane				skin(11)|ovary(5)|large_intestine(1)|pancreas(1)|breast(1)	19	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000423)|Epithelial(86;0.00394)|all cancers(50;0.0362)		TATGGGGCTGGGGGATTCACA	0.463													16	54					0	0	0.500413	0	0
LIG4	3981	broad.mit.edu	37	13	108863573	108863573	+	Missense_Mutation	SNP	G	C	C			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr13:108863573G>C	uc001vqn.2	-	2	317	c.44C>G	c.(43-45)CCT>CGT	p.P15R	LIG4_uc001vqo.2_Missense_Mutation_p.P15R|LIG4_uc010agg.1_Intron|LIG4_uc010agf.2_Missense_Mutation_p.P15R|LIG4_uc001vqp.2_Missense_Mutation_p.P15R	NM_002312	NP_002303	P49917	DNLI4_HUMAN	DNA ligase IV	15					cell cycle|cell division|cell proliferation|central nervous system development|chromosome organization|DNA ligation involved in DNA recombination|DNA ligation involved in DNA repair|DNA replication|double-strand break repair via nonhomologous end joining|in utero embryonic development|initiation of viral infection|isotype switching|negative regulation of neuron apoptosis|neuron apoptosis|nucleotide-excision repair, DNA gap filling|positive regulation of fibroblast proliferation|positive regulation of neurogenesis|pro-B cell differentiation|provirus integration|response to gamma radiation|response to X-ray|single strand break repair|somatic stem cell maintenance|T cell differentiation in thymus|T cell receptor V(D)J recombination	condensed chromosome|cytoplasm|DNA ligase IV complex|DNA-dependent protein kinase-DNA ligase 4 complex|focal adhesion|nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|metal ion binding|protein C-terminus binding				0	all_lung(23;0.000238)|all_neural(89;0.00256)|Lung NSC(43;0.0056)|Medulloblastoma(90;0.00596)|Lung SC(71;0.104)					ATCTGCAAAAGGAACGTGAGA	0.358								NHEJ					12	48					0	0	0.411799	0	0
C14orf145	145508	broad.mit.edu	37	14	81329142	81329142	+	Missense_Mutation	SNP	G	A	A			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr14:81329142G>A	uc001xux.2	-	8	892	c.721C>T	c.(721-723)CGC>TGC	p.R241C	C14orf145_uc001xuz.2_Missense_Mutation_p.R241C|C14orf145_uc001xuy.1_Missense_Mutation_p.R99C	NM_152446	NP_689659	Q6ZU80	CE128_HUMAN	hypothetical protein LOC145508	241	Potential.					centriole|spindle pole		p.R241C(1)			0				BRCA - Breast invasive adenocarcinoma(234;0.0586)		TGATCCTGGCGTCTTTCCACC	0.463													18	68					0	0	0.557998	0	0
ADAM6	8755	broad.mit.edu	37	14	107078546	107078546	+	RNA	SNP	G	A	A			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr14:107078546G>A	uc010tyt.1	-	117		c.5744C>T								Parts of antibodies, mostly variable regions.												0						CGTTGTCCACGAGCCTGTCGC	0.532													16	49					0	0	0.575678	0	0
GABRB3	2562	broad.mit.edu	37	15	27184436	27184436	+	Nonsense_Mutation	SNP	G	A	A			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr15:27184436G>A	uc001zbb.2	-	1	251	c.148C>T	c.(148-150)CGA>TGA	p.R50*	GABRA5_uc001zbd.1_Intron	NM_021912	NP_068712	P28472	GBRB3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	Error:Variant_position_missing_in_P28472_after_alignment					synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			upper_aerodigestive_tract(1)|ovary(1)|lung(1)|liver(1)|central_nervous_system(1)	5		all_cancers(20;1.89e-22)|all_lung(180;6.35e-15)|Breast(32;0.000279)|Colorectal(260;0.232)		all cancers(64;1.46e-07)|Epithelial(43;2.89e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0251)|COAD - Colon adenocarcinoma(236;0.235)|Lung(196;0.243)	Ethchlorvynol(DB00189)|Flurazepam(DB00690)|Lorazepam(DB00186)|Midazolam(DB00683)	AGGTCTCCTCGTGCCTCCCAC	0.582													18	41					0	0	0.557998	0	0
TRIM69	140691	broad.mit.edu	37	15	45050860	45050860	+	Silent	SNP	T	C	C			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr15:45050860T>C	uc001zuf.2	+	5	1516	c.621T>C	c.(619-621)TTT>TTC	p.F207F	TRIM69_uc001zui.1_Silent_p.F3F|TRIM69_uc010bdy.1_Silent_p.F3F|TRIM69_uc001zug.1_Silent_p.F207F|TRIM69_uc001zuh.1_Silent_p.F48F	NM_182985	NP_892030	Q86WT6	TRI69_HUMAN	tripartite motif-containing 69 isoform a	207	Potential.				apoptosis	nuclear speck	zinc ion binding				0		all_cancers(109;2.47e-13)|all_epithelial(112;2.84e-11)|Lung NSC(122;2.23e-07)|all_lung(180;1.81e-06)|Melanoma(134;0.0122)		all cancers(107;5.5e-19)|GBM - Glioblastoma multiforme(94;1.07e-06)|Colorectal(105;0.138)|COAD - Colon adenocarcinoma(120;0.141)		CCATGGAGTTTCTAAAGCTGC	0.463													14	37					0	0	0.479597	0	0
NCOR1	9611	broad.mit.edu	37	17	16029417	16029417	+	Missense_Mutation	SNP	T	C	C			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr17:16029417T>C	uc002gpo.2	-	15	1853	c.1613A>G	c.(1612-1614)AAA>AGA	p.K538R	NCOR1_uc002gpn.2_Missense_Mutation_p.K538R|NCOR1_uc002gpp.1_Missense_Mutation_p.K429R|NCOR1_uc002gpr.2_Missense_Mutation_p.K429R|NCOR1_uc002gps.1_Missense_Mutation_p.K547R|NCOR1_uc010coz.1_Missense_Mutation_p.K354R	NM_006311	NP_006302	O75376	NCOR1_HUMAN	nuclear receptor co-repressor 1	538	Potential.				cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		tttttcatctttttcctcttc	0.08													2	7					0	0	0.115264	0	0
FLJ36000	284124	broad.mit.edu	37	17	21904125	21904125	+	RNA	SNP	G	A	A			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr17:21904125G>A	uc002gza.2	+	1		c.64G>A				NR_027084				Homo sapiens cDNA FLJ36000 fis, clone TESTI2015180.												0						ggagtcgcaaggggccgagca	0													6	23					0	0	0.217242	0	0
LOC653653	653653	broad.mit.edu	37	17	58179806	58179806	+	Missense_Mutation	SNP	T	A	A			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr17:58179806T>A	uc010wot.1	-	1	475	c.359A>T	c.(358-360)CAG>CTG	p.Q120L		NM_003916	NP_003907			adaptor-related protein complex 1 sigma 2												0						TTCATTGTCCTGATCCTCAAT	0.368													11	259					0	0	0.387290	0	0
MUC16	94025	broad.mit.edu	37	19	9046352	9046352	+	Missense_Mutation	SNP	G	T	T			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr19:9046352G>T	uc002mkp.2	-	5	35483	c.35279C>A	c.(35278-35280)ACT>AAT	p.T11760N		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	11762	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						ATGAGTCAAAGTTGGAACAGT	0.478													14	69					1.5842e-08	1.74971e-08	0.435327	1	0
MUC16	94025	broad.mit.edu	37	19	9090675	9090675	+	Missense_Mutation	SNP	G	T	T			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr19:9090675G>T	uc002mkp.2	-	1	1344	c.1140C>A	c.(1138-1140)CAC>CAA	p.H380Q		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	380	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TCTTGGCTATGTGGGTGCTGG	0.507													13	42					2.27111e-07	2.4715e-07	0.411799	1	0
CCDC108	255101	broad.mit.edu	37	2	219868992	219868992	+	Missense_Mutation	SNP	G	A	A			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr2:219868992G>A	uc002vjl.1	-	33	5321	c.5237C>T	c.(5236-5238)CCG>CTG	p.P1746L	uc010fvz.1_5'Flank|MIR375_hsa-mir-375|MI0000783_5'Flank	NM_194302	NP_919278	Q6ZU64	CC108_HUMAN	coiled-coil domain containing 108 isoform 1	1746						integral to membrane	structural molecule activity			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Renal(207;0.0915)		Epithelial(149;1.12e-06)|all cancers(144;0.000196)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GTCTTCCTTCGGCTGCTTGCC	0.368													29	66					0	0	0.717897	0	0
SNPH	9751	broad.mit.edu	37	20	1286246	1286246	+	Missense_Mutation	SNP	G	T	T	rs140720029		TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr20:1286246G>T	uc002wes.2	+	6	1269	c.1033G>T	c.(1033-1035)GGG>TGG	p.G345W	SNPH_uc002wet.2_Missense_Mutation_p.G389W	NM_014723	NP_055538	O15079	SNPH_HUMAN	syntaphilin	345					synaptic vesicle docking involved in exocytosis	cell junction|integral to membrane|synapse|synaptosome	syntaxin-1 binding			ovary(2)	2						CCCTGAGTCAGGGGACAGGTG	0.622													4	91					0.00909568	0.00934834	0.150653	1	0
C21orf99	149992	broad.mit.edu	37	21	14414902	14414902	+	RNA	SNP	G	A	A	rs2821609	by1000genomes	TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr21:14414902G>A	uc002yiy.3	+	2		c.339G>A			C21orf99_uc002yja.3_RNA					Homo sapiens C21orf99 protein (C21orf99) mRNA, complete cds.												0						CCAGCTTGACGTCCTTGATGG	0.443													3	20					0	0	0.150653	0	0
RIPK4	54101	broad.mit.edu	37	21	43161994	43161994	+	Silent	SNP	G	A	A			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr21:43161994G>A	uc002yzn.1	-	8	1407	c.1359C>T	c.(1357-1359)TGC>TGT	p.C453C		NM_020639	NP_065690	P57078	RIPK4_HUMAN	ankyrin repeat domain 3	453						cytoplasm|nucleus	ATP binding|protein serine/threonine kinase activity	p.C453C(1)		ovary(2)|central_nervous_system(2)|large_intestine(1)|lung(1)|skin(1)	7						GCCACTTGGCGCACTCCTCTT	0.657													31	69					0	0	0.779181	0	0
RIMBP3	85376	broad.mit.edu	37	22	20457203	20457203	+	Missense_Mutation	SNP	C	T	T			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr22:20457203C>T	uc002zsd.3	-	1	4584	c.4099G>A	c.(4099-4101)GCC>ACC	p.A1367T		NM_015672	NP_056487			RIMS binding protein 3												0	Colorectal(54;0.0993)|Melanoma(16;0.165)		LUSC - Lung squamous cell carcinoma(15;0.0405)|Lung(15;0.224)			TGTTGGCTGGCGCCCAGCTGG	0.572													4	20					0	0	0.150653	0	0
OR5H14	403273	broad.mit.edu	37	3	97868995	97868995	+	Missense_Mutation	SNP	G	A	A	rs148799830		TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr3:97868995G>A	uc003dsg.1	+	1	766	c.766G>A	c.(766-768)GCC>ACC	p.A256T		NM_001005514	NP_001005514	A6NHG9	O5H14_HUMAN	olfactory receptor, family 5, subfamily H,	256	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						TGGGCCCCTCGCCTTCATGTA	0.413													18	39					0	0	0.520397	0	0
KALRN	8997	broad.mit.edu	37	3	124393414	124393414	+	Silent	SNP	G	A	A			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr3:124393414G>A	uc003ehg.2	+	49	7273	c.7146G>A	c.(7144-7146)GCG>GCA	p.A2382A	KALRN_uc003ehi.2_Silent_p.A722A|KALRN_uc003ehk.2_Silent_p.A685A|KALRN_uc011bjz.1_Silent_p.A473A	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	2381	SH3 2.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|nervous system development|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|vesicle-mediated transport	actin cytoskeleton|cytosol	ATP binding|GTPase activator activity|metal ion binding|protein binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			large_intestine(2)|ovary(2)|central_nervous_system(1)|skin(1)	6						GCATCCTGGCGCCCCTCACCA	0.592													3	15					0	0	0.150653	0	0
ZNF518B	85460	broad.mit.edu	37	4	10445887	10445887	+	Missense_Mutation	SNP	C	T	T			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr4:10445887C>T	uc003gmn.2	-	3	2553	c.2066G>A	c.(2065-2067)CGT>CAT	p.R689H		NM_053042	NP_444270	Q9C0D4	Z518B_HUMAN	zinc finger protein 518B	689					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)	4						TACAGAGCGACGATGTGCACT	0.448													22	94					0	0	0.592651	0	0
PGM2	55276	broad.mit.edu	37	4	37848566	37848566	+	Missense_Mutation	SNP	T	G	G			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr4:37848566T>G	uc011byb.1	+	9	1095	c.1022T>G	c.(1021-1023)GTG>GGG	p.V341G	PGM2_uc011bya.1_Missense_Mutation_p.V202G|PGM2_uc011byc.1_Missense_Mutation_p.V181G	NM_018290	NP_060760	Q96G03	PGM2_HUMAN	phosphoglucomutase 2	341					glucose 1-phosphate metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol	magnesium ion binding|phosphoglucomutase activity|phosphopentomutase activity			ovary(1)	1						GAATGGAGGGTGTTTTCAGGC	0.428													8	74					0	0	0.608945	0	0
PDGFRA	5156	broad.mit.edu	37	4	55139758	55139758	+	Silent	SNP	C	T	T			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr4:55139758C>T	uc003han.3	+	10	1750	c.1419C>T	c.(1417-1419)ATC>ATT	p.I473I	PDGFRA_uc003haa.2_Intron|PDGFRA_uc010igq.1_Silent_p.I367I|PDGFRA_uc003ham.2_RNA	NM_006206	NP_006197	P16234	PGFRA_HUMAN	platelet-derived growth factor receptor alpha	473	Ig-like C2-type 5.|Extracellular (Potential).				cardiac myofibril assembly|cell activation|luteinization|metanephric glomerular capillary formation|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of DNA replication|positive regulation of fibroblast proliferation|protein autophosphorylation|retina vasculature development in camera-type eye	cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet-derived growth factor alpha-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein homodimerization activity|vascular endothelial growth factor receptor activity			soft_tissue(572)|small_intestine(40)|stomach(16)|lung(16)|central_nervous_system(13)|haematopoietic_and_lymphoid_tissue(7)|skin(3)|ovary(3)|gastrointestinal_tract_(site_indeterminate)(1)|autonomic_ganglia(1)|prostate(1)|bone(1)	674	all_cancers(7;0.000425)|all_lung(4;0.000343)|Lung NSC(11;0.000467)|all_epithelial(27;0.0131)|all_neural(26;0.0209)|Glioma(25;0.08)		GBM - Glioblastoma multiforme(1;4.18e-71)|all cancers(1;4.76e-45)|LUSC - Lung squamous cell carcinoma(32;0.00256)		Becaplermin(DB00102)|Imatinib(DB00619)|Sunitinib(DB01268)	CAAACATCATCACGGAGATCC	0.498			Mis|O|T	FIP1L1	GIST|idiopathic hypereosinophilic syndrome				Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Intestinal_Neurofibromatosis	TSP Lung(21;0.16)			26	30					0	0	0.706142	0	0
AGA	175	broad.mit.edu	37	4	178361475	178361475	+	Missense_Mutation	SNP	C	T	T			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr4:178361475C>T	uc003iuu.1	-	2	295	c.233G>A	c.(232-234)AGT>AAT	p.S78N	AGA_uc003iuv.1_5'Flank|AGA_uc003iuw.2_5'Flank	NM_000027	NP_000018	P20933	ASPG_HUMAN	aspartylglucosaminidase precursor	78					asparagine catabolic process via L-aspartate|protein deglycosylation|protein maturation	endoplasmic reticulum|intermediate filament cytoskeleton|lysosome|microtubule cytoskeleton	N4-(beta-N-acetylglucosaminyl)-L-asparaginase activity				0		all_lung(41;1.27e-09)|Lung NSC(41;1.1e-08)|Breast(14;6.27e-05)|Melanoma(52;0.00102)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|Hepatocellular(41;0.148)|all_neural(102;0.164)|Colorectal(36;0.245)		all cancers(43;1.37e-22)|Epithelial(43;3.86e-20)|OV - Ovarian serous cystadenocarcinoma(60;3.8e-11)|Colorectal(24;6.98e-05)|GBM - Glioblastoma multiforme(59;0.000362)|COAD - Colon adenocarcinoma(29;0.000462)|STAD - Stomach adenocarcinoma(60;0.0029)|LUSC - Lung squamous cell carcinoma(193;0.0328)|READ - Rectum adenocarcinoma(43;0.163)		TTCATCAGGACTTCCTCCAAA	0.493													27	85					0	0	0.729181	0	0
Unknown	0	broad.mit.edu	37	5	28927072	28927072	+	RNA	SNP	A	G	G			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr5:28927072A>G	uc003jgz.1	+	1		c.96A>G								Homo sapiens similar to Striatin, mRNA (cDNA clone MGC:150339 IMAGE:40119616), complete cds.																		TTGTGGCTGGAGACATGAGCA	0.562													4	12					0	0	0.184627	0	0
GABRA1	2554	broad.mit.edu	37	5	161324340	161324340	+	Missense_Mutation	SNP	C	T	T			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr5:161324340C>T	uc010jiw.2	+	11	1751	c.1283C>T	c.(1282-1284)CCG>CTG	p.P428L	GABRA1_uc010jix.2_Missense_Mutation_p.P428L|GABRA1_uc010jiy.2_Missense_Mutation_p.P428L|GABRA1_uc003lyx.3_Missense_Mutation_p.P428L|GABRA1_uc010jiz.2_Missense_Mutation_p.P428L|GABRA1_uc010jja.2_Missense_Mutation_p.P428L|GABRA1_uc010jjb.2_Missense_Mutation_p.P428L	NM_000806	NP_000797	P14867	GBRA1_HUMAN	gamma-aminobutyric acid (GABA) A receptor, alpha	428	Helical; (Probable).				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|GABA-A receptor activity			ovary(2)|pancreas(1)	3	Renal(175;0.00259)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.228)	Alprazolam(DB00404)|Butabarbital(DB00237)|Butalbital(DB00241)|Butethal(DB01353)|Chlordiazepoxide(DB00475)|Clobazam(DB00349)|Clonazepam(DB01068)|Clorazepate(DB00628)|Desflurane(DB01189)|Diazepam(DB00829)|Enflurane(DB00228)|Ethanol(DB00898)|Ethchlorvynol(DB00189)|Etomidate(DB00292)|Flumazenil(DB01205)|Flurazepam(DB00690)|Halazepam(DB00801)|Halothane(DB01159)|Hexobarbital(DB01355)|Isoflurane(DB00753)|Lorazepam(DB00186)|Meprobamate(DB00371)|Metharbital(DB00463)|Methohexital(DB00474)|Methoxyflurane(DB01028)|Methylphenobarbital(DB00849)|Methyprylon(DB01107)|Midazolam(DB00683)|Nitrazepam(DB01595)|Oxazepam(DB00842)|Pentobarbital(DB00312)|Phenobarbital(DB01174)|Picrotoxin(DB00466)|Prazepam(DB01588)|Primidone(DB00794)|Progabide(DB00837)|Propofol(DB00818)|Quazepam(DB01589)|Secobarbital(DB00418)|Sevoflurane(DB01236)|Talbutal(DB00306)|Thiamylal(DB01154)|Thiopental(DB00599)|Topiramate(DB00273)|Zaleplon(DB00962)|Zolpidem(DB00425)	ATAGCCTTCCCGCTGCTATTT	0.423													34	78					0	0	0.750413	0	0
RNF130	55819	broad.mit.edu	37	5	179393883	179393883	+	Missense_Mutation	SNP	C	T	T			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr5:179393883C>T	uc003mll.1	-	7	1480	c.1073G>A	c.(1072-1074)CGA>CAA	p.R358Q	RNF130_uc003mlm.1_Missense_Mutation_p.R358Q	NM_018434	NP_060904	Q86XS8	GOLI_HUMAN	ring finger protein 130 precursor	358	Cytoplasmic (Potential).				apoptosis	cytoplasm|integral to membrane|nucleus	ubiquitin-protein ligase activity|zinc ion binding			lung(2)|ovary(1)	3	all_cancers(89;5.49e-05)|all_epithelial(37;1.94e-05)|Renal(175;0.000159)|Lung NSC(126;0.00118)|all_lung(126;0.00212)	all_cancers(40;0.0294)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CCCCGAAGTTCGAAGTGGCTC	0.562													12	49					0	0	0.411799	0	0
FANCE	2178	broad.mit.edu	37	6	35427183	35427183	+	Missense_Mutation	SNP	C	A	A			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr6:35427183C>A	uc003oko.1	+	6	1374	c.1189C>A	c.(1189-1191)CCT>ACT	p.P397T	FANCE_uc010jvw.1_Missense_Mutation_p.P390T	NM_021922	NP_068741	Q9HB96	FANCE_HUMAN	Fanconi anemia, complementation group E	397					DNA repair	nucleoplasm	protein binding			ovary(1)|lung(1)|skin(1)	3						ATATACATACCCTGTCTGCAG	0.567			N|F|S			AML|leukemia		Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				4	58					0.00909568	0.00934834	0.150653	1	0
FAM83B	222584	broad.mit.edu	37	6	54735366	54735366	+	Missense_Mutation	SNP	T	C	C			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr6:54735366T>C	uc003pck.2	+	2	438	c.322T>C	c.(322-324)TGG>CGG	p.W108R		NM_001010872	NP_001010872	Q5T0W9	FA83B_HUMAN	hypothetical protein LOC222584	108										ovary(6)	6	Lung NSC(77;0.0178)|Renal(3;0.122)					TGACTTAGGCTGGCCATATGT	0.458													23	83					0	0	0.624587	0	0
RFX6	222546	broad.mit.edu	37	6	117248565	117248565	+	Missense_Mutation	SNP	C	T	T			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr6:117248565C>T	uc003pxm.2	+	17	2324	c.2261C>T	c.(2260-2262)CCG>CTG	p.P754L		NM_173560	NP_775831	Q8HWS3	RFX6_HUMAN	regulatory factor X, 6	754					glucose homeostasis|pancreatic A cell differentiation|pancreatic D cell differentiation|pancreatic E cell differentiation|positive regulation of transcription, DNA-dependent|regulation of insulin secretion|transcription, DNA-dependent|type B pancreatic cell differentiation	nucleus	protein binding|transcription regulatory region DNA binding			ovary(1)|pancreas(1)|skin(1)	3						TCCCGGCCACCGTCTAGCTAT	0.517													7	35					0	0	0.278610	0	0
LPA	4018	broad.mit.edu	37	6	161006128	161006128	+	Silent	SNP	C	T	T			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr6:161006128C>T	uc003qtl.2	-	27	4359	c.4239G>A	c.(4237-4239)TCG>TCA	p.S1413S		NM_005577	NP_005568	P08519	APOA_HUMAN	lipoprotein Lp(a) precursor	3921	Kringle 35.				blood circulation|lipid metabolic process|lipid transport|lipoprotein metabolic process|proteolysis|receptor-mediated endocytosis	plasma lipoprotein particle	apolipoprotein binding|endopeptidase inhibitor activity|fibronectin binding|heparin binding|serine-type endopeptidase activity			ovary(3)|skin(2)|pancreas(1)	6		Breast(66;0.000496)|Ovarian(120;0.0303)|Prostate(117;0.0965)		OV - Ovarian serous cystadenocarcinoma(65;2.5e-17)|BRCA - Breast invasive adenocarcinoma(81;6.48e-06)	Aminocaproic Acid(DB00513)	GTGTCATAGACGACCAAGACT	0.448													31	143					0	0	0.717897	0	0
C7orf16	10842	broad.mit.edu	37	7	31746856	31746856	+	Missense_Mutation	SNP	G	A	A			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr7:31746856G>A	uc003tcl.2	+	5	585	c.427G>A	c.(427-429)GTG>ATG	p.V143M	C7orf16_uc011kaf.1_Missense_Mutation_p.V92M	NM_006658	NP_006649	O96001	GSUB_HUMAN	G-substrate isoform 1	143					behavior|central nervous system development|intracellular protein kinase cascade|protein phosphorylation	soluble fraction				ovary(2)|central_nervous_system(1)	3			GBM - Glioblastoma multiforme(11;0.216)			CAAAGCAATCGTGGAAGATGA	0.433													6	27					0	0	0.217242	0	0
ZNF804B	219578	broad.mit.edu	37	7	88965634	88965634	+	Missense_Mutation	SNP	A	G	G			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr7:88965634A>G	uc011khi.1	+	4	3876	c.3338A>G	c.(3337-3339)AAT>AGT	p.N1113S		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	1113						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			GTAGAGGGAAATATAAACTCT	0.353										HNSCC(36;0.09)			16	68					0	0	0.479597	0	0
COL1A2	1278	broad.mit.edu	37	7	94038721	94038721	+	Missense_Mutation	SNP	G	A	A	rs145693444	byFrequency	TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr7:94038721G>A	uc003ung.1	+	17	1351	c.880G>A	c.(880-882)GTT>ATT	p.V294I	COL1A2_uc011kib.1_Intron	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	294					axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)	CTCCGGCCCCGTTGGACCTCC	0.502										HNSCC(75;0.22)			28	76					0	0	0.769981	0	0
PLXNA4	91584	broad.mit.edu	37	7	131859587	131859587	+	Missense_Mutation	SNP	G	A	A			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr7:131859587G>A	uc003vra.3	-	21	4196	c.3967C>T	c.(3967-3969)CGG>TGG	p.R1323W		NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	1323	Cytoplasmic (Potential).					integral to membrane|intracellular|plasma membrane				ovary(1)	1						AACAGCACCCGCATGGTGTAA	0.512													34	116					0	0	0.779181	0	0
TRPV6	55503	broad.mit.edu	37	7	142573227	142573227	+	Silent	SNP	T	C	C			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr7:142573227T>C	uc003wbx.1	-	8	1332	c.1116A>G	c.(1114-1116)CTA>CTG	p.L372L	TRPV6_uc003wbw.1_Silent_p.L158L|TRPV6_uc010lou.1_Silent_p.L243L	NM_018646	NP_061116	Q9H1D0	TRPV6_HUMAN	transient receptor potential cation channel,	372	Extracellular (Potential).				regulation of calcium ion-dependent exocytosis	integral to plasma membrane	calcium channel activity|calmodulin binding			ovary(2)	2	Melanoma(164;0.059)					TCACCTGAAGTAGCTTCTGCT	0.572													15	53					0	0	0.479597	0	0
ZNF282	8427	broad.mit.edu	37	7	148910879	148910879	+	Missense_Mutation	SNP	G	A	A			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr7:148910879G>A	uc003wfm.2	+	7	1258	c.1153G>A	c.(1153-1155)GGA>AGA	p.G385R	ZNF282_uc011kun.1_Missense_Mutation_p.G385R|ZNF282_uc003wfn.2_Missense_Mutation_p.G325R|ZNF282_uc003wfo.2_Intron	NM_003575	NP_003566	Q9UDV7	ZN282_HUMAN	zinc finger protein 282	385					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00171)	Lung(243;0.145)		CTCAATGGACGGAGAGCTTGG	0.542													3	30					0	0	0.115264	0	0
RNF32	140545	broad.mit.edu	37	7	156437272	156437272	+	Missense_Mutation	SNP	G	A	A			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr7:156437272G>A	uc003wmo.2	+	3	277	c.95G>A	c.(94-96)CGA>CAA	p.R32Q	RNF32_uc010lql.1_RNA|RNF32_uc010lqm.2_Missense_Mutation_p.R32Q|RNF32_uc003wmp.2_Missense_Mutation_p.R32Q|RNF32_uc003wmq.2_Missense_Mutation_p.R32Q|RNF32_uc003wmr.2_Missense_Mutation_p.R32Q|RNF32_uc003wms.2_Missense_Mutation_p.R32Q|RNF32_uc003wmu.2_RNA|RNF32_uc003wmt.2_Missense_Mutation_p.R32Q	NM_030936	NP_112198	Q9H0A6	RNF32_HUMAN	ring finger protein 32	32						aggresome|endosome	protein binding|zinc ion binding				0	Ovarian(565;0.218)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.00291)	UCEC - Uterine corpus endometrioid carcinoma (81;0.169)		CTTCAACTTCGAAATCTTTCA	0.328													12	40					0	0	0.387290	0	0
NRG1	3084	broad.mit.edu	37	8	32621577	32621577	+	Missense_Mutation	SNP	C	T	T			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr8:32621577C>T	uc003xiv.2	+	12	2097	c.1580C>T	c.(1579-1581)ACG>ATG	p.T527M	NRG1_uc010lvo.2_3'UTR|NRG1_uc003xiu.2_Missense_Mutation_p.T532M|NRG1_uc003xiw.2_Missense_Mutation_p.T524M|NRG1_uc003xit.2_3'UTR|NRG1_uc010lvr.2_Missense_Mutation_p.T269M|NRG1_uc010lvs.2_Missense_Mutation_p.T269M|NRG1_uc010lvp.2_Missense_Mutation_p.T481M|NRG1_uc010lvq.2_Missense_Mutation_p.T464M|NRG1_uc011lbg.1_3'UTR|NRG1_uc011lbh.1_Missense_Mutation_p.T370M|NRG1_uc003xja.2_Missense_Mutation_p.T338M	NM_013964	NP_039258	Q02297	NRG1_HUMAN	neuregulin 1 isoform HRG-alpha	527	Cytoplasmic (Potential).				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				0		Breast(100;0.203)		KIRC - Kidney renal clear cell carcinoma(67;0.0768)|Kidney(114;0.0943)		GAGTATGAAACGACCCAAGAG	0.552													9	19					0	0	0.307466	0	0
RAB11FIP1	80223	broad.mit.edu	37	8	37729072	37729072	+	Missense_Mutation	SNP	G	T	T	rs146365728		TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr8:37729072G>T	uc003xkm.1	-	4	3292	c.3248C>A	c.(3247-3249)CCA>CAA	p.P1083Q	RAB11FIP1_uc010lvz.1_Intron|RAB11FIP1_uc003xkn.1_Intron|RAB11FIP1_uc003xkl.1_Missense_Mutation_p.P412Q|RAB11FIP1_uc003xko.1_Missense_Mutation_p.P412Q|RAB11FIP1_uc003xkp.1_Intron	NM_001002814	NP_001002814	Q6WKZ4	RFIP1_HUMAN	RAB11 family interacting protein 1 isoform 3	1083					protein transport	centrosome|phagocytic vesicle membrane|recycling endosome	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(58;0.118)|all_lung(54;0.195)	LUSC - Lung squamous cell carcinoma(8;3.62e-11)			AGGCGGGCTTGGACTCCCATT	0.542											OREG0018713	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	60	186					1.34159e-35	1.50421e-35	0.870114	1	0
RECK	8434	broad.mit.edu	37	9	36102223	36102223	+	Nonsense_Mutation	SNP	C	A	A			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr9:36102223C>A	uc003zyv.2	+	12	1517	c.1431C>A	c.(1429-1431)TAC>TAA	p.Y477*	RECK_uc003zyw.2_Nonsense_Mutation_p.Y349*|RECK_uc003zyx.2_RNA	NM_021111	NP_066934	O95980	RECK_HUMAN	RECK protein precursor	477						anchored to membrane|peripheral to membrane of membrane fraction|plasma membrane	metalloendopeptidase inhibitor activity|serine-type endopeptidase inhibitor activity			skin(2)|ovary(1)	3			LUSC - Lung squamous cell carcinoma(32;0.112)|STAD - Stomach adenocarcinoma(86;0.228)			TGGATACATACCTCAGTAAGT	0.343													9	50					3.86212e-05	4.14198e-05	0.361761	1	0
C9orf71	169693	broad.mit.edu	37	9	71155606	71155606	+	Missense_Mutation	SNP	G	A	A			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr9:71155606G>A	uc004agt.2	-	1	178	c.125C>T	c.(124-126)GCG>GTG	p.A42V		NM_153237	NP_694969	Q8N6L7	CI071_HUMAN	hypothetical protein LOC169693	42	Helical; (Potential).					integral to membrane					0						CAAATAGGCCGCAATCAGGCT	0.537													9	20					0	0	0.335167	0	0
LMX1B	4010	broad.mit.edu	37	9	129453250	129453250	+	Silent	SNP	C	T	T			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr9:129453250C>T	uc004bqj.2	+	3	443	c.393C>T	c.(391-393)GAC>GAT	p.D131D	LMX1B_uc004bqi.2_Silent_p.D131D|LMX1B_uc011maa.1_Silent_p.D131D	NM_002316	NP_002307	O60663	LMX1B_HUMAN	LIM homeobox transcription factor 1, beta	131	LIM zinc-binding 2.				dorsal/ventral pattern formation|in utero embryonic development	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						GCAAGGGCGACGAATTCGTGC	0.637									Nail-Patella_Syndrome				4	23					0	0	0.150653	0	0
MXRA5	25878	broad.mit.edu	37	X	3228242	3228242	+	Missense_Mutation	SNP	G	A	A			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chrX:3228242G>A	uc004crg.3	-	7	8159	c.8002C>T	c.(8002-8004)CGT>TGT	p.R2668C		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	2668	Ig-like C2-type 11.					extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				CAGGAGAAACGTCCCTGCCCA	0.592													29	56					0	0	0.750413	0	0
HDX	139324	broad.mit.edu	37	X	83724443	83724443	+	Silent	SNP	A	C	C			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chrX:83724443A>C	uc004eek.1	-	3	397	c.288T>G	c.(286-288)TCT>TCG	p.S96S	HDX_uc011mqv.1_Silent_p.S96S|HDX_uc004eel.1_Silent_p.S38S	NM_144657	NP_653258	Q7Z353	HDX_HUMAN	highly divergent homeobox	96						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			upper_aerodigestive_tract(1)|ovary(1)	2						ATGTCCAAGAAGACTGCTGGC	0.428													38	84					0	0	0.812448	0	0
CXorf57	55086	broad.mit.edu	37	X	105855370	105855370	+	Silent	SNP	G	A	A			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chrX:105855370G>A	uc004emi.3	+	1	211	c.60G>A	c.(58-60)CCG>CCA	p.P20P	CXorf57_uc004emj.3_Silent_p.P20P|CXorf57_uc004emh.2_Silent_p.P20P	NM_018015	NP_060485	Q6NSI4	CX057_HUMAN	hypothetical protein LOC55086	20										ovary(1)|lung(1)|breast(1)	3						TAGATTGGCCGAACCCTGAGA	0.572													27	85					0	0	0.681144	0	0
SAGE1	55511	broad.mit.edu	37	X	134994995	134994995	+	Missense_Mutation	SNP	C	T	T	rs139129211	by1000genomes	TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chrX:134994995C>T	uc004ezh.2	+	20	2821	c.2654C>T	c.(2653-2655)GCG>GTG	p.A885V	SAGE1_uc010nry.1_3'UTR|SAGE1_uc011mvv.1_Missense_Mutation_p.A509V	NM_018666	NP_061136	Q9NXZ1	SAGE1_HUMAN	sarcoma antigen 1	885										ovary(2)|skin(1)	3	Acute lymphoblastic leukemia(192;0.000127)					CTCGAGAAGGCGCTTAAAGAA	0.368													7	31					0	0	0.248553	0	0
MTM1	4534	broad.mit.edu	37	X	149831912	149831912	+	Missense_Mutation	SNP	A	G	G			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chrX:149831912A>G	uc004fef.3	+	14	1550	c.1474A>G	c.(1474-1476)ACA>GCA	p.T492A	MTM1_uc011mxx.1_RNA|MTM1_uc011mxy.1_Missense_Mutation_p.T455A|MTM1_uc011mxz.1_Missense_Mutation_p.T377A|MTM1_uc010nte.2_Missense_Mutation_p.T360A	NM_000252	NP_000243	Q13496	MTM1_HUMAN	myotubularin	492	Myotubularin phosphatase.				endosome to lysosome transport|intermediate filament organization|mitochondrion distribution|mitochondrion morphogenesis|phosphatidylinositol dephosphorylation|protein transport|regulation of vacuole organization	filopodium|late endosome|plasma membrane|ruffle	intermediate filament binding|phosphatidylinositol binding|phosphatidylinositol-3,5-bisphosphate 3-phosphatase activity|phosphatidylinositol-3-phosphatase activity|protein tyrosine phosphatase activity			upper_aerodigestive_tract(1)|ovary(1)|kidney(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					GTAGAAGGTTACAGAAAGGAC	0.353													8	29					0	0	0.278610	0	0
PNMA5	114824	broad.mit.edu	37	X	152159963	152159963	+	Silent	SNP	G	A	A			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chrX:152159963G>A	uc010ntw.2	-	3	519	c.180C>T	c.(178-180)GAC>GAT	p.D60D	PNMA5_uc004fha.3_Silent_p.D60D|PNMA5_uc010ntx.2_Silent_p.D60D|PNMA5_uc004fgy.3_Silent_p.D60D	NM_001103151	NP_001096621	Q96PV4	PNMA5_HUMAN	paraneoplastic antigen like 5	60					apoptosis					ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(192;6.56e-05)					ccttggcattgtcttccctcc	0													44	106					0	0	0.840704	0	0
MTCP1	4515	broad.mit.edu	37	X	154293907	154293907	+	Missense_Mutation	SNP	T	C	C			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chrX:154293907T>C	uc004fmz.2	-	3	889	c.263A>G	c.(262-264)CAG>CGG	p.Q88R	MTCP1NB_uc004fmy.2_Intron	NM_001018025	NP_001018025	P56278	MTCP1_HUMAN	mature T-cell proliferation 1	88					cell proliferation					lung(1)	1	all_cancers(53;3.51e-17)|all_epithelial(53;5.13e-11)|all_lung(58;3.84e-07)|Lung NSC(58;1.2e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					TAAATGATGCTGTATCTGCCA	0.453			T	TRA@	T cell prolymphocytic leukemia								30	74					0	0	0.760397	0	0
Unknown	0	broad.mit.edu	37	X	155254735	155254735	+	Missense_Mutation	SNP	C	G	G			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chrX:155254735C>G	uc004fnx.3	+	8	1085	c.631C>G	c.(631-633)CTC>GTC	p.L211V		NM_182905	NP_878908			WAS protein family homolog 1																		GATGTCGGATCTCTTCAACAA	0.587													2	3					0	0	0.115264	0	0
NBPF9	400818	broad.mit.edu	37	1	144615246	144615247	+	Splice_Site	INS	-	AG	AG			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr1:144615246_144615247insAG	uc009wig.1	+	3	190	c.114_splice	c.e3+2	p.L38_splice	NBPF9_uc010oxn.1_Intron|NBPF9_uc010oxo.1_Intron|NBPF9_uc010oxr.1_Intron|NBPF9_uc010oxt.1_Intron|NBPF9_uc001ekg.1_Intron|NBPF9_uc001ekk.1_Intron|NBPF10_uc009wir.2_Intron|NBPF9_uc010oyd.1_Intron|NBPF9_uc010oye.1_5'UTR|NBPF9_uc001eli.3_RNA|NBPF9_uc010oyf.1_5'UTR|NBPF9_uc010oyg.1_Frame_Shift_Ins_p.K39fs|NBPF9_uc009wii.1_5'UTR|NBPF9_uc009wif.1_RNA|C1orf152_uc001elf.3_5'Flank	NM_001037675	NP_001032764	Q3BBV1	NBPFK_HUMAN	hypothetical protein LOC400818							cytoplasm					0						GTAAACCTCAAAGAGATGTTTT	0.470													7	207	---	---	---	---					
C12orf39	80763	broad.mit.edu	37	12	21684077	21684077	+	Frame_Shift_Del	DEL	A	-	-			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr12:21684077delA	uc001rfa.1	+	6	450	c.299delA	c.(298-300)GAAfs	p.E100fs	C12orf39_uc009ziv.1_RNA|C12orf39_uc009ziw.1_RNA	NM_030572	NP_085049	Q9BT56	SPXN_HUMAN	spexin precursor	100						extracellular region|nucleus|transport vesicle					0						ACAGATGAAGAAAAAAACTTT	0.284													7	14	---	---	---	---					
STT3B	201595	broad.mit.edu	37	3	31641930	31641931	+	Frame_Shift_Ins	INS	-	A	A			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr3:31641930_31641931insA	uc011axe.1	+	5	856_857	c.856_857insA	c.(856-858)TACfs	p.Y286fs	STT3B_uc010hft.1_Frame_Shift_Ins_p.Y286fs|STT3B_uc003cer.1_Frame_Shift_Ins_p.Y286fs|STT3B_uc003cet.2_Frame_Shift_Ins_p.Y37fs	NM_178862	NP_849193	Q8TCJ2	STT3B_HUMAN	source of immunodominant MHC-associated	286					protein N-linked glycosylation via asparagine	integral to membrane|oligosaccharyltransferase complex	dolichyl-diphosphooligosaccharide-protein glycotransferase activity|protein binding				0						GATGCAGAGATACAGCAAAAGA	0.322													9	28	---	---	---	---					
MECOM	2122	broad.mit.edu	37	3	168833251	168833251	+	Frame_Shift_Del	DEL	G	-	-	rs141957464	byFrequency	TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr3:168833251delG	uc003ffi.3	-	7	2114	c.1845delC	c.(1843-1845)AGCfs	p.S615fs	MECOM_uc010hwk.1_Frame_Shift_Del_p.S638fs|MECOM_uc003ffj.3_Frame_Shift_Del_p.S680fs|MECOM_uc011bpi.1_Frame_Shift_Del_p.S616fs|MECOM_uc003ffn.3_Frame_Shift_Del_p.S615fs|MECOM_uc003ffk.2_Frame_Shift_Del_p.S615fs|MECOM_uc003ffl.2_Frame_Shift_Del_p.S775fs|MECOM_uc011bpj.1_Frame_Shift_Del_p.S803fs|MECOM_uc011bpk.1_Frame_Shift_Del_p.S605fs|MECOM_uc010hwn.2_Frame_Shift_Del_p.S803fs	NM_005241	NP_005232	Q03112	EVI1_HUMAN	MDS1 and EVI1 complex locus isoform b	615					apoptosis|cell differentiation|hemopoietic stem cell proliferation|negative regulation of JNK cascade|negative regulation of programmed cell death|negative regulation of transcription, DNA-dependent|regulation of cell cycle	nuclear speck	DNA binding|protein binding|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(5)|skin(5)|upper_aerodigestive_tract(1)|central_nervous_system(1)|ovary(1)|pancreas(1)	14						ATTCGACGTTGCTTCCTTTTT	0.488													15	35	---	---	---	---					
RPL7	6129	broad.mit.edu	37	8	74205020	74205022	+	In_Frame_Del	DEL	CTT	-	-	rs151181576		TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr8:74205020_74205022delCTT	uc003xzg.2	-	2	47_49	c.25_27delAAG	c.(25-27)AAGdel	p.K9del	RPL7_uc003xzh.1_5'UTR|RDH10_uc003xzi.2_5'Flank	NM_000971	NP_000962	P18124	RL7_HUMAN	ribosomal protein L7	9	1.|4 X 12 AA tandem repeats.				endocrine pancreas development|ribosomal large subunit biogenesis|rRNA processing|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit	DNA binding|mRNA binding|protein homodimerization activity|structural constituent of ribosome				0	Breast(64;0.0954)		Epithelial(68;0.0193)|all cancers(69;0.0766)|BRCA - Breast invasive adenocarcinoma(89;0.134)			CAGGAACCTCCTTCTTCTTCTCT	0.414													11	56	---	---	---	---					
JRK	8629	broad.mit.edu	37	8	143746154	143746154	+	Frame_Shift_Del	DEL	C	-	-			TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr8:143746154delC	uc003ywo.2	-	2	1838	c.1324delG	c.(1324-1326)GTAfs	p.V442fs	JRK_uc003ywp.2_Frame_Shift_Del_p.V442fs|JRK_uc010mew.1_Frame_Shift_Del_p.V442fs	NM_001077527	NP_001070995			jerky isoform b												0	all_cancers(97;3.96e-12)|all_epithelial(106;1.19e-08)|Lung NSC(106;0.000413)|all_lung(105;0.00106)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)	Acute lymphoblastic leukemia(644;2.31e-05)				cttcccgctaccccccagctg	0.000													5	6	---	---	---	---					
PNPLA7	375775	broad.mit.edu	37	9	140356449	140356450	+	Frame_Shift_Ins	INS	-	C	C	rs71493670		TCGA-DU-5854-01A-11D-1705-08	TCGA-DU-5854-10A-01D-1705-08									Somatic	Phase_I	Capture				Illumina GAIIx	2defa773-3cbd-4c3c-9437-5f6db860284e	fb3c685f-0ff5-4ea1-b28f-1b037edc40db	g.chr9:140356449_140356450insC	uc004cnf.2	-	31	3951_3952	c.3614_3615insG	c.(3613-3615)GGCfs	p.G1205fs	C9orf167_uc011mew.1_Intron|PNPLA7_uc004cnd.1_Frame_Shift_Ins_p.G452fs|PNPLA7_uc004cne.1_Frame_Shift_Ins_p.G471fs|PNPLA7_uc011mfa.1_Frame_Shift_Ins_p.G613fs|PNPLA7_uc010ncj.1_Frame_Shift_Ins_p.G1230fs|NELF_uc004cna.2_5'Flank|NELF_uc011mez.1_5'Flank|NELF_uc004cmz.2_5'Flank|NELF_uc004cnc.2_5'Flank|NELF_uc004cnb.2_5'Flank	NM_152286	NP_689499	Q6ZV29	PLPL7_HUMAN	patatin-like phospholipase domain containing 7	1205					lipid metabolic process	endoplasmic reticulum|integral to membrane|lysosomal membrane|microsome|mitochondrial membrane|nuclear membrane	hydrolase activity			skin(1)	1	all_cancers(76;0.126)			OV - Ovarian serous cystadenocarcinoma(145;0.000268)|Epithelial(140;0.000839)		CGCCGCTGCGGCCCCAGATGTC	0.698													4	6	---	---	---	---					
