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	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	filter
MTOR	2475	broad.mit.edu	37	1	11168294	11168294	+	Silent	SNP	C	T	T			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:11168294C>T	uc001asd.2	-	57	7699	c.7578G>A	c.(7576-7578)GAG>GAA	p.E2526E	MTOR_uc001asc.2_Silent_p.E731E	NM_004958	NP_004949	P42345	MTOR_HUMAN	FK506 binding protein 12-rapamycin associated	2526	FATC.				cell growth|cellular response to hypoxia|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|protein autophosphorylation|protein catabolic process|response to amino acid stimulus|response to nutrient|T cell costimulation|TOR signaling cascade	endoplasmic reticulum membrane|Golgi membrane|lysosome|mitochondrial outer membrane|phosphatidylinositol 3-kinase complex|PML body|TORC1 complex|TORC2 complex	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(7)|lung(6)|ovary(6)|skin(3)|kidney(3)|large_intestine(2)|breast(2)	29						TGATGAGCAGCTCAACTTGCG	0.458													52	151	---	---	---	---	PASS
ATP13A2	23400	broad.mit.edu	37	1	17322948	17322948	+	Missense_Mutation	SNP	G	T	T			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:17322948G>T	uc001baa.2	-	13	1429	c.1239C>A	c.(1237-1239)CAC>CAA	p.H413Q	ATP13A2_uc001bab.2_Missense_Mutation_p.H408Q|ATP13A2_uc001bac.2_Missense_Mutation_p.H408Q|ATP13A2_uc009vpa.1_Intron|ATP13A2_uc001bad.1_Missense_Mutation_p.H126Q	NM_022089	NP_071372	Q9NQ11	AT132_HUMAN	ATPase type 13A2 isoform 1	413	Cytoplasmic (Potential).				ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			skin(2)|ovary(1)|central_nervous_system(1)	4		Colorectal(325;0.000147)|Breast(348;0.00104)|Renal(390;0.00145)|Lung NSC(340;0.00566)|all_lung(284;0.00797)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0646)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00462)|COAD - Colon adenocarcinoma(227;1.11e-05)|BRCA - Breast invasive adenocarcinoma(304;1.99e-05)|Kidney(64;0.000171)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00645)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.182)		TGGGCCGGGGGTGCAAGATGG	0.627													18	41	---	---	---	---	PASS
ALDH4A1	8659	broad.mit.edu	37	1	19199314	19199314	+	3'UTR	SNP	C	A	A			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:19199314C>A	uc001bbb.2	-	15					ALDH4A1_uc010ocu.1_3'UTR|ALDH4A1_uc001bbc.2_3'UTR	NM_170726	NP_733844	P30038	AL4A1_HUMAN	aldehyde dehydrogenase 4A1 isoform a precursor						proline biosynthetic process|proline catabolic process	mitochondrial matrix	1-pyrroline-5-carboxylate dehydrogenase activity|aldehyde dehydrogenase (NAD) activity|electron carrier activity				0		Colorectal(325;3.46e-05)|all_lung(284;0.000321)|Lung NSC(340;0.000398)|Renal(390;0.000518)|Breast(348;0.000812)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00479)|BRCA - Breast invasive adenocarcinoma(304;3.67e-05)|Kidney(64;0.000182)|KIRC - Kidney renal clear cell carcinoma(64;0.00269)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)	NADH(DB00157)	GGACAGACAGCTGGACGGTGG	0.627													5	28	---	---	---	---	PASS
TRIM63	84676	broad.mit.edu	37	1	26385106	26385106	+	Missense_Mutation	SNP	A	C	C			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:26385106A>C	uc001bli.1	-	5	742	c.606T>G	c.(604-606)AGT>AGG	p.S202R		NM_032588	NP_115977	Q969Q1	TRI63_HUMAN	muscle specific ring finger protein 1	202	Interaction with TTN.					cytoplasm|microtubule|nucleus	ligase activity|signal transducer activity|titin binding|zinc ion binding			kidney(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;0.000154)|all_lung(284;0.00021)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0133)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0298)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;9.15e-26)|Colorectal(126;3.16e-08)|COAD - Colon adenocarcinoma(152;1.72e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000767)|BRCA - Breast invasive adenocarcinoma(304;0.00101)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.00655)|READ - Rectum adenocarcinoma(331;0.0649)		TTACCTGGTGACTGTTCTCCT	0.507													54	113	---	---	---	---	PASS
FHL3	2275	broad.mit.edu	37	1	38463440	38463440	+	Missense_Mutation	SNP	A	G	G			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:38463440A>G	uc001ccj.2	-	5	691	c.604T>C	c.(604-606)TCC>CCC	p.S202P	FHL3_uc001cck.2_Missense_Mutation_p.S202P|FHL3_uc001ccl.2_Missense_Mutation_p.S202P|FHL3_uc001ccm.2_Missense_Mutation_p.S94P|FHL3_uc009vvl.1_3'UTR	NM_004468	NP_004459	Q13643	FHL3_HUMAN	four and a half LIM domains 3	202	LIM zinc-binding 3.				muscle organ development		zinc ion binding				0	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				TCATCCCGGGAGGTGAACTGC	0.582													4	57	---	---	---	---	PASS
PCSK9	255738	broad.mit.edu	37	1	55527082	55527082	+	Silent	SNP	C	T	T			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:55527082C>T	uc001cyf.1	+	11	2007	c.1716C>T	c.(1714-1716)GGC>GGT	p.G572G	PCSK9_uc010oom.1_RNA	NM_174936	NP_777596	Q8NBP7	PCSK9_HUMAN	proprotein convertase subtilisin/kexin type 9	572					cellular response to insulin stimulus|cellular response to starvation|cholesterol homeostasis|cholesterol metabolic process|kidney development|liver development|low-density lipoprotein particle receptor catabolic process|lysosomal transport|negative regulation of catalytic activity|negative regulation of low-density lipoprotein particle clearance|negative regulation of receptor recycling|neuron differentiation|positive regulation of neuron apoptosis|positive regulation of receptor internalization|protein autoprocessing|regulation of receptor activity	extracellular space|late endosome|lysosome|perinuclear region of cytoplasm	apolipoprotein receptor binding|identical protein binding|low-density lipoprotein particle receptor binding|serine-type endopeptidase activity|very-low-density lipoprotein particle receptor binding			ovary(2)|central_nervous_system(1)|skin(1)	4						AGGACCTTGGCACCCACAAGC	0.657													7	7	---	---	---	---	PASS
NOTCH2	4853	broad.mit.edu	37	1	120496185	120496185	+	Silent	SNP	A	G	G			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:120496185A>G	uc001eik.2	-	14	2602	c.2346T>C	c.(2344-2346)ACT>ACC	p.T782T	NOTCH2_uc001eil.2_Silent_p.T782T|NOTCH2_uc001eim.3_Silent_p.T699T	NM_024408	NP_077719	Q04721	NOTC2_HUMAN	notch 2 preproprotein	782	Extracellular (Potential).|EGF-like 20; calcium-binding (Potential).				anti-apoptosis|bone remodeling|cell cycle arrest|cell fate determination|cell growth|hemopoiesis|induction of apoptosis|negative regulation of cell proliferation|nervous system development|Notch receptor processing|Notch signaling pathway|organ morphogenesis|positive regulation of Ras protein signal transduction|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|ligand-regulated transcription factor activity|protein binding|receptor activity			lung(8)|haematopoietic_and_lymphoid_tissue(7)|ovary(4)|central_nervous_system(2)|skin(2)|kidney(2)|breast(1)|prostate(1)	27	all_neural(166;0.153)	all_lung(203;1.96e-06)|Lung NSC(69;1.47e-05)|all_epithelial(167;0.000809)		Lung(183;0.0242)|LUSC - Lung squamous cell carcinoma(189;0.133)		CCTTCTTGCAAGTACACCTGT	0.423			N|F|Mis		marginal zone lymphoma|DLBCL				Alagille_Syndrome				6	290	---	---	---	---	PASS
PRPF3	9129	broad.mit.edu	37	1	150325386	150325386	+	Silent	SNP	C	T	T			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:150325386C>T	uc001eum.3	+	16	2145	c.1983C>T	c.(1981-1983)TTC>TTT	p.F661F	PRPF3_uc010pca.1_Silent_p.F620F|PRPF3_uc010pcb.1_Silent_p.F612F	NM_004698	NP_004689	O43395	PRPF3_HUMAN	PRP3 pre-mRNA processing factor 3 homolog	661					nuclear mRNA splicing, via spliceosome	Cajal body|cytoplasm|nuclear speck|spliceosomal complex	protein binding			ovary(1)	1	Lung NSC(24;5.57e-29)|Breast(34;0.000844)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)	Colorectal(1306;0.0149)		GTGAGCATTTCAAAAAGCATG	0.458													5	130	---	---	---	---	PASS
XDH	7498	broad.mit.edu	37	2	31571778	31571778	+	Missense_Mutation	SNP	G	T	T			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:31571778G>T	uc002rnv.1	-	27	3117	c.3038C>A	c.(3037-3039)CCT>CAT	p.P1013H		NM_000379	NP_000370	P47989	XDH_HUMAN	xanthine dehydrogenase	1013					purine nucleotide catabolic process|xanthine catabolic process	cytosol|extracellular region|peroxisome	2 iron, 2 sulfur cluster binding|electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|molybdopterin cofactor binding|protein homodimerization activity|xanthine dehydrogenase activity|xanthine oxidase activity			skin(4)|breast(2)|ovary(1)|central_nervous_system(1)	8	Acute lymphoblastic leukemia(172;0.155)				Allopurinol(DB00437)|Carvedilol(DB01136)|Daunorubicin(DB00694)|Deferoxamine(DB00746)|Desflurane(DB01189)|Menadione(DB00170)|Mercaptopurine(DB01033)|Methotrexate(DB00563)|NADH(DB00157)|Nitrofurazone(DB00336)|Papaverine(DB01113)|Procarbazine(DB01168)|Pyrazinamide(DB00339)|Rasburicase(DB00049)|Spermine(DB00127)|Trifluoperazine(DB00831)|Vitamin E(DB00163)	ATTCAGAAAAGGAACTGTAAA	0.383													113	241	---	---	---	---	PASS
GEMIN6	79833	broad.mit.edu	37	2	39008932	39008932	+	Silent	SNP	T	G	G			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:39008932T>G	uc002rrc.2	+	3	518	c.402T>G	c.(400-402)ACT>ACG	p.T134T	GEMIN6_uc002rrb.2_RNA	NM_024775	NP_079051	Q8WXD5	GEMI6_HUMAN	gemin 6	134					ncRNA metabolic process|spliceosomal snRNP assembly|spliceosome assembly	Cajal body|cytosol|spliceosomal complex	protein binding				0		all_hematologic(82;0.21)				GGGTCCTGACTATAGACCCAC	0.468													31	71	---	---	---	---	PASS
SOS1	6654	broad.mit.edu	37	2	39285889	39285889	+	Silent	SNP	G	T	T			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:39285889G>T	uc002rrk.3	-	3	311	c.270C>A	c.(268-270)GCC>GCA	p.A90A	SOS1_uc010ynr.1_RNA	NM_005633	NP_005624	Q07889	SOS1_HUMAN	son of sevenless homolog 1	90					apoptosis|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|induction of apoptosis by extracellular signals|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol	DNA binding|protein binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			ovary(4)|breast(3)|lung(2)|central_nervous_system(1)	10		all_hematologic(82;0.21)				TAGCTGATTGGGCATCAGCTA	0.343									Noonan_syndrome				87	184	---	---	---	---	PASS
SLC3A1	6519	broad.mit.edu	37	2	44513173	44513173	+	Missense_Mutation	SNP	A	T	T	rs149252863		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:44513173A>T	uc002ruc.3	+	4	846	c.768A>T	c.(766-768)TTA>TTT	p.L256F	SLC3A1_uc002rty.2_Missense_Mutation_p.L256F|SLC3A1_uc002rtz.2_Missense_Mutation_p.L256F|SLC3A1_uc002rua.2_Missense_Mutation_p.L256F|SLC3A1_uc002rub.2_Missense_Mutation_p.L256F|SLC3A1_uc002rud.3_5'UTR	NM_000341	NP_000332	Q07837	SLC31_HUMAN	solute carrier family 3, member 1	256	Extracellular (Potential).				carbohydrate metabolic process|cellular amino acid metabolic process|ion transport	integral to plasma membrane|membrane fraction	basic amino acid transmembrane transporter activity|catalytic activity|cation binding|L-cystine transmembrane transporter activity				0		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)			L-Cystine(DB00138)	TTTGCCAGTTAAGTGTGTATG	0.398													5	307	---	---	---	---	PASS
VRK2	7444	broad.mit.edu	37	2	58358987	58358987	+	Silent	SNP	C	T	T			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:58358987C>T	uc002rzo.2	+	12	1466	c.721C>T	c.(721-723)CTG>TTG	p.L241L	VRK2_uc010fcb.2_Silent_p.L241L|VRK2_uc002rzs.2_Silent_p.L241L|VRK2_uc002rzr.2_Silent_p.L241L|VRK2_uc010fcc.2_Silent_p.L123L|VRK2_uc002rzv.2_Silent_p.L241L|VRK2_uc010fcd.2_Silent_p.L218L|VRK2_uc002rzp.2_Silent_p.L241L|VRK2_uc010ypg.1_Silent_p.L241L|VRK2_uc002rzq.2_Silent_p.L241L|VRK2_uc002rzu.2_Silent_p.L241L|VRK2_uc002rzt.2_Silent_p.L123L|VRK2_uc010yph.1_Silent_p.L123L	NM_001130482	NP_001123954	Q86Y07	VRK2_HUMAN	vaccinia related kinase 2 isoform 2	241	Protein kinase.					integral to membrane	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(1)	1						CTACTGCATGCTGCGGTGGTT	0.458													76	164	---	---	---	---	PASS
MIR663B	100302269	broad.mit.edu	37	2	133015476	133015476	+	5'Flank	SNP	A	T	T	rs437455		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:133015476A>T	hsa-mir-663b|MI0006336	-						NCRNA00164_uc002ttj.3_RNA																	0						CTCCAAGTAAACCCACACACA	0.692													3	26	---	---	---	---	PASS
THSD7B	80731	broad.mit.edu	37	2	137852450	137852450	+	Missense_Mutation	SNP	C	A	A			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:137852450C>A	uc002tva.1	+	3	865	c.865C>A	c.(865-867)CTT>ATT	p.L289I	THSD7B_uc010zbj.1_RNA|THSD7B_uc002tvb.2_Missense_Mutation_p.L179I	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		CAGCCTTTGCCTTCAAGATTC	0.438													6	152	---	---	---	---	PASS
THSD7B	80731	broad.mit.edu	37	2	138033500	138033500	+	Missense_Mutation	SNP	C	A	A			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:138033500C>A	uc002tva.1	+	11	2311	c.2311C>A	c.(2311-2313)CCA>ACA	p.P771T	THSD7B_uc010zbj.1_Intron|THSD7B_uc002tvb.2_Missense_Mutation_p.P661T	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		CAGGTGGAAGCCACAGAAATG	0.423													79	187	---	---	---	---	PASS
HTR2B	3357	broad.mit.edu	37	2	231973291	231973291	+	Silent	SNP	A	G	G			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:231973291A>G	uc002vro.2	-	4	1891	c.1386T>C	c.(1384-1386)GAT>GAC	p.D462D	PSMD1_uc002vrm.1_Intron|PSMD1_uc010fxu.1_Intron|PSMD1_uc002vrn.1_Intron|HTR2B_uc010fxv.2_Silent_p.D395D	NM_000867	NP_000858	P41595	5HT2B_HUMAN	5-hydroxytryptamine (serotonin) receptor 2B	462	Cytoplasmic (By similarity).				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|calcium-mediated signaling|cardiac muscle hypertrophy|cellular response to calcium ion|cellular response to temperature stimulus|cGMP biosynthetic process|embryonic morphogenesis|ERK1 and ERK2 cascade|G-protein coupled receptor internalization|heart morphogenesis|intestine smooth muscle contraction|negative regulation of apoptosis|negative regulation of autophagy|neural crest cell migration|phosphatidylinositol 3-kinase cascade|phosphatidylinositol biosynthetic process|phosphorylation|positive regulation of cell division|positive regulation of cytokine production|positive regulation of cytokine secretion|positive regulation of endothelial cell proliferation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of MAP kinase activity|positive regulation of nitric-oxide synthase activity|protein kinase C signaling cascade|regulation of behavior|release of sequestered calcium ion into cytosol|response to drug|vasoconstriction	cytoplasm|integral to membrane|plasma membrane	calcium channel activity|drug binding|G-protein alpha-subunit binding|phosphatidylinositol phospholipase C activity|Ras GTPase activator activity|serotonin binding|serotonin receptor activity				0		Renal(207;0.025)|all_hematologic(139;0.094)|Acute lymphoblastic leukemia(138;0.164)|Medulloblastoma(418;0.232)		Epithelial(121;4.48e-11)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.0141)	Chlorprothixene(DB01239)|Eletriptan(DB00216)|Fenfluramine(DB00574)|Methotrimeprazine(DB01403)|Minaprine(DB00805)|Quetiapine(DB01224)|Sumatriptan(DB00669)|Tegaserod(DB01079)|Triflupromazine(DB00508)	GGAGAAGCGTATCTAGTAGAA	0.398													81	220	---	---	---	---	PASS
TATDN2	9797	broad.mit.edu	37	3	10326626	10326626	+	Intron	SNP	A	C	C			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:10326626A>C	uc011ats.1	+						TATDN2_uc011att.1_Intron|TATDN2_uc011atu.1_Intron|TATDN2_uc011atv.1_Intron|GHRLOS_uc011atw.1_Intron|GHRLOS_uc011atx.1_Intron|GHRLOS_uc011aty.1_Intron|GHRLOS_uc011atz.1_Intron|GHRLOS_uc011aua.1_Intron|GHRLOS_uc010hdl.2_Intron|GHRLOS_uc011aub.1_Intron|GHRLOS_uc010hdm.2_Intron|GHRLOS_uc011auc.1_Intron|GHRLOS_uc011aud.1_Intron|GHRLOS_uc011aue.1_Intron|GHRLOS_uc011auf.1_Intron|GHRLOS_uc011aug.1_Intron|C3orf42_uc010hcz.2_RNA|GHRLOS_uc011auh.1_5'Flank|GHRLOS_uc011aui.1_5'Flank|GHRLOS_uc011auj.1_5'Flank|GHRLOS_uc010hdn.2_5'Flank|GHRLOS_uc011auk.1_5'Flank			Q93075	TATD2_HUMAN	Synthetic construct DNA, clone: pF1KSDA0218, Homo sapiens TATDN2 gene for TatD DNase domain-containing deoxyribonuclease 2, complete cds, without stop codon, in Flexi system.							nucleus	endodeoxyribonuclease activity, producing 5'-phosphomonoesters|metal ion binding			pancreas(2)	2						TAAGGTGGGCATGACCGAGTG	0.532													21	53	---	---	---	---	PASS
FAM86D	692099	broad.mit.edu	37	3	75476735	75476735	+	Silent	SNP	C	T	T			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:75476735C>T	uc003dpp.3	-	6	689	c.330G>A	c.(328-330)GAG>GAA	p.E110E	FAM86D_uc003dpo.3_Intron|FAM86D_uc003dps.3_Intron|FAM86D_uc003dpq.3_Silent_p.E18E|FAM86D_uc003dpr.3_Intron	NR_024241				RecName: Full=Protein FAM86B1;												0						CTCGGAGCTGCTCGAGGACCC	0.602													4	13	---	---	---	---	PASS
FAM86D	692099	broad.mit.edu	37	3	75476737	75476737	+	Missense_Mutation	SNP	C	T	T			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:75476737C>T	uc003dpp.3	-	6	687	c.328G>A	c.(328-330)GAG>AAG	p.E110K	FAM86D_uc003dpo.3_Intron|FAM86D_uc003dps.3_Intron|FAM86D_uc003dpq.3_Missense_Mutation_p.E18K|FAM86D_uc003dpr.3_Intron	NR_024241				RecName: Full=Protein FAM86B1;												0						CGGAGCTGCTCGAGGACCCGG	0.602													4	12	---	---	---	---	PASS
VPS8	23355	broad.mit.edu	37	3	184633235	184633235	+	Silent	SNP	A	G	G			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:184633235A>G	uc003fpb.1	+	27	2520	c.2349A>G	c.(2347-2349)ACA>ACG	p.T783T	VPS8_uc010hyd.1_Silent_p.T693T|VPS8_uc010hye.1_Silent_p.T212T	NM_015303	NP_056118	Q8N3P4	VPS8_HUMAN	vacuolar protein sorting 8 homolog isoform b	785							zinc ion binding			ovary(1)	1	all_cancers(143;2.51e-11)|Ovarian(172;0.0339)|Breast(254;0.247)		Epithelial(37;1.02e-33)|OV - Ovarian serous cystadenocarcinoma(80;4.81e-22)			ATTTTGACACAAGAGAATTTC	0.323													6	370	---	---	---	---	PASS
ST6GAL1	6480	broad.mit.edu	37	3	186761061	186761061	+	Silent	SNP	G	A	A	rs141692826		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:186761061G>A	uc003frb.2	+	4	1002	c.570G>A	c.(568-570)GCG>GCA	p.A190A	ST6GAL1_uc003frc.2_Intron|ST6GAL1_uc003frd.2_Silent_p.A190A	NM_173216	NP_775323	P15907	SIAT1_HUMAN	ST6 beta-galactosamide	190	Lumenal (Potential).				humoral immune response|post-translational protein modification|protein N-linked glycosylation via asparagine	extracellular region|Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,6-sialyltransferase activity			central_nervous_system(1)	1	all_cancers(143;2.33e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;8.53e-19)	GBM - Glioblastoma multiforme(93;0.0939)		TGTCGTCAGCGGGATCTCTGA	0.522													24	85	---	---	---	---	PASS
MUC4	4585	broad.mit.edu	37	3	195505867	195505867	+	Missense_Mutation	SNP	A	T	T			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:195505867A>T	uc011bto.1	-	3	12660	c.12200T>A	c.(12199-12201)GTC>GAC	p.V4067D	MUC4_uc003fva.2_5'Flank|MUC4_uc003fvb.2_5'Flank|MUC4_uc003fvc.2_5'Flank|MUC4_uc003fvd.2_5'Flank|MUC4_uc003fve.2_5'Flank|MUC4_uc010hzr.2_5'Flank|MUC4_uc011btf.1_Intron|MUC4_uc011btg.1_Intron|MUC4_uc011bth.1_Intron|MUC4_uc011bti.1_Intron|MUC4_uc011btj.1_Intron|MUC4_uc011btk.1_Intron|MUC4_uc011btl.1_Intron|MUC4_uc011btm.1_Intron|MUC4_uc011btn.1_Intron|MUC4_uc003fvo.2_Intron|MUC4_uc003fvp.2_Intron|MUC4_uc010hzu.1_Intron	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		AGTGTCGGTGACAGGAAGAGG	0.607													3	17	---	---	---	---	PASS
MUC4	4585	broad.mit.edu	37	3	195513730	195513730	+	Missense_Mutation	SNP	G	A	A			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:195513730G>A	uc011bto.1	-	2	5181	c.4721C>T	c.(4720-4722)CCT>CTT	p.P1574L	MUC4_uc003fvo.2_Intron|MUC4_uc003fvp.2_Intron|MUC4_uc010hzu.1_Intron	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		TGCTGAGGAAGGGCTGGTGAC	0.587													4	50	---	---	---	---	PASS
ZNF595	152687	broad.mit.edu	37	4	86237	86237	+	Silent	SNP	G	A	A			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:86237G>A	uc003fzv.1	+	6	999	c.843G>A	c.(841-843)GAG>GAA	p.E281E	ZNF595_uc003fzu.1_Intron|ZNF718_uc003fzt.3_Intron|ZNF595_uc011bus.1_Silent_p.E49E|ZNF595_uc011but.1_Silent_p.E49E	NM_182524	NP_872330	Q7Z3I0	Q7Z3I0_HUMAN	zinc finger protein 595	281					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding				0		all_cancers(4;0.0738)|all_epithelial(65;0.139)		Lung(54;0.0654)|Epithelial(2;0.0921)|all cancers(2;0.146)|LUSC - Lung squamous cell carcinoma(95;0.173)		ATACTGGAGAGAAACCCTACA	0.378													19	28	---	---	---	---	PASS
HTT	3064	broad.mit.edu	37	4	3182315	3182315	+	Silent	SNP	A	G	G			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:3182315A>G	uc011bvq.1	+	37	4837	c.4692A>G	c.(4690-4692)AAA>AAG	p.K1564K		NM_002111	NP_002102	P42858	HD_HUMAN	huntingtin	1562					establishment of mitotic spindle orientation|Golgi organization|retrograde vesicle-mediated transport, Golgi to ER|vesicle transport along microtubule	autophagic vacuole|axon|cytoplasmic vesicle membrane|cytosol|dendrite|endoplasmic reticulum|Golgi apparatus|late endosome|membrane fraction|nucleus|protein complex	beta-tubulin binding|dynactin binding|dynein intermediate chain binding|p53 binding|transcription factor binding			skin(2)|ovary(1)|lung(1)	4		all_epithelial(65;0.18)		UCEC - Uterine corpus endometrioid carcinoma (64;0.187)		ATGCAGGAAAAGAGCTTGAAA	0.458													7	263	---	---	---	---	PASS
HSD17B11	51170	broad.mit.edu	37	4	88293948	88293948	+	Missense_Mutation	SNP	G	A	A			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:88293948G>A	uc003hqp.2	-	4	703	c.470C>T	c.(469-471)CCT>CTT	p.P157L		NM_016245	NP_057329	Q8NBQ5	DHB11_HUMAN	estradiol 17-beta-dehydrogenase 11	157					androgen catabolic process|steroid biosynthetic process	cytoplasm|extracellular region	binding|estradiol 17-beta-dehydrogenase activity			ovary(2)	2		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.000339)		CGTCATTGCAGGAAGAAATGC	0.388													40	125	---	---	---	---	PASS
CLDN22	53842	broad.mit.edu	37	4	184240902	184240902	+	Missense_Mutation	SNP	A	G	G			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:184240902A>G	uc010isa.1	-	1	1026	c.470T>C	c.(469-471)GTC>GCC	p.V157A	WWC2_uc010irx.2_3'UTR|WWC2_uc003ivk.3_3'UTR|WWC2_uc003ivl.3_RNA|WWC2_uc010iry.2_3'UTR|WWC2_uc003ivn.3_3'UTR|WWC2_uc010irz.2_3'UTR|WWC2_uc003ivo.3_3'UTR	NM_001111319	NP_001104789	Q8N7P3	CLD22_HUMAN	claudin 22	157	Extracellular (Potential).				calcium-independent cell-cell adhesion|tight junction assembly	integral to membrane|tight junction	identical protein binding|structural molecule activity				0		all_lung(41;6.9e-12)|Lung NSC(41;1.28e-11)|Colorectal(36;0.0172)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_hematologic(60;0.0749)|Esophageal squamous(56;0.176)		all cancers(43;4.1e-26)|Epithelial(43;6.45e-22)|OV - Ovarian serous cystadenocarcinoma(60;7.64e-10)|Colorectal(24;5.87e-06)|GBM - Glioblastoma multiforme(59;6.5e-06)|STAD - Stomach adenocarcinoma(60;2.09e-05)|COAD - Colon adenocarcinoma(29;5.15e-05)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.155)		CCACCTGGGGACAAAGTCTGG	0.592													4	58	---	---	---	---	PASS
FAT1	2195	broad.mit.edu	37	4	187549904	187549904	+	Missense_Mutation	SNP	A	T	T			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:187549904A>T	uc003izf.2	-	8	4525	c.4337T>A	c.(4336-4338)GTA>GAA	p.V1446E		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	1446	Extracellular (Potential).|Cadherin 12.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						TGTGTCTATTACTTTGATGAA	0.318										HNSCC(5;0.00058)			52	139	---	---	---	---	PASS
ERBB2IP	55914	broad.mit.edu	37	5	65288621	65288621	+	Silent	SNP	T	C	C			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:65288621T>C	uc003juk.1	+	3	383	c.75T>C	c.(73-75)ACT>ACC	p.T25T	ERBB2IP_uc003juh.1_Silent_p.T25T|ERBB2IP_uc003jui.1_Silent_p.T25T|ERBB2IP_uc003juj.1_Silent_p.T25T|ERBB2IP_uc011cqx.1_Silent_p.T25T|ERBB2IP_uc011cqy.1_Silent_p.T25T|ERBB2IP_uc011cqz.1_Silent_p.T25T|ERBB2IP_uc010iwx.1_Silent_p.T25T|ERBB2IP_uc003jul.1_Silent_p.T25T	NM_018695	NP_061165	Q96RT1	LAP2_HUMAN	ERBB2 interacting protein isoform 2	25	LRR 1.				basal protein localization|cell adhesion|cell cycle|cell growth|epidermal growth factor receptor signaling pathway|establishment or maintenance of epithelial cell apical/basal polarity|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization	basement membrane|cytoplasm|hemidesmosome|nucleus	ErbB-2 class receptor binding|integrin binding|structural constituent of cytoskeleton			ovary(3)|lung(2)|central_nervous_system(2)	7		Lung NSC(167;9.45e-06)|Prostate(74;0.0139)|Ovarian(174;0.0547)|Breast(144;0.093)|Colorectal(97;0.234)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0767)|Lung(70;0.00191)		AGACTGTCACTACTCTTGATT	0.378													94	186	---	---	---	---	PASS
ERAP2	64167	broad.mit.edu	37	5	96253377	96253377	+	3'UTR	SNP	G	T	T			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:96253377G>T	uc003kmq.2	+	19					uc003kmo.1_Intron|ERAP2_uc003kmt.2_3'UTR|ERAP2_uc003kmr.2_RNA|ERAP2_uc003kms.2_3'UTR|ERAP2_uc003kmu.2_RNA	NM_022350	NP_071745	Q6P179	ERAP2_HUMAN	endoplasmic reticulum aminopeptidase 2						antigen processing and presentation of endogenous peptide antigen via MHC class I|proteolysis|regulation of blood pressure	endoplasmic reticulum lumen|endoplasmic reticulum membrane|integral to membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding				0		all_cancers(142;0.000311)|all_epithelial(76;1.54e-06)|all_lung(232;0.0131)|Lung NSC(167;0.0161)|Colorectal(57;0.0596)|Ovarian(225;0.105)		COAD - Colon adenocarcinoma(37;0.0703)		ttgggaggctgagaagggcgg	0.085													14	35	---	---	---	---	PASS
ZNF608	57507	broad.mit.edu	37	5	123982880	123982880	+	Missense_Mutation	SNP	A	G	G			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:123982880A>G	uc003ktq.1	-	4	3320	c.3197T>C	c.(3196-3198)GTG>GCG	p.V1066A	ZNF608_uc003ktr.1_Intron|ZNF608_uc003kts.1_Missense_Mutation_p.V1066A|ZNF608_uc003ktt.1_Missense_Mutation_p.V1066A|ZNF608_uc003ktp.1_5'Flank	NM_020747	NP_065798	Q9ULD9	ZN608_HUMAN	zinc finger protein 608	1066						intracellular	zinc ion binding			skin(3)|ovary(2)|lung(1)	6		all_cancers(142;0.186)|Prostate(80;0.081)	KIRC - Kidney renal clear cell carcinoma(527;0.159)|Kidney(363;0.221)	OV - Ovarian serous cystadenocarcinoma(64;0.00126)|Epithelial(69;0.00238)|all cancers(49;0.00783)		TTGTGTGATCACCGACTGGTG	0.483													23	88	---	---	---	---	PASS
PCDHB8	56128	broad.mit.edu	37	5	140559876	140559876	+	Missense_Mutation	SNP	T	C	C			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140559876T>C	uc011dai.1	+	1	2447	c.2261T>C	c.(2260-2262)GTG>GCG	p.V754A	PCDHB16_uc003liv.2_5'Flank|PCDHB16_uc010jfw.1_5'Flank	NM_019120	NP_061993	Q9UN66	PCDB8_HUMAN	protocadherin beta 8 precursor	754	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CAGTACGAGGTGTGCCTGGCA	0.562													23	62	---	---	---	---	PASS
CDX1	1044	broad.mit.edu	37	5	149562381	149562381	+	Missense_Mutation	SNP	C	A	A			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:149562381C>A	uc003lrq.2	+	2	592	c.496C>A	c.(496-498)CGC>AGC	p.R166S		NM_001804	NP_001795	P47902	CDX1_HUMAN	caudal type homeobox 1	166	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CGACCACCAACGCCTGGAGCT	0.567													28	67	---	---	---	---	PASS
TNIP1	10318	broad.mit.edu	37	5	150444657	150444657	+	5'UTR	SNP	G	A	A			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:150444657G>A	uc003ltf.2	-	2					TNIP1_uc010jhl.2_5'Flank|TNIP1_uc010jhm.2_5'UTR|TNIP1_uc010jhn.2_5'UTR|TNIP1_uc011dco.1_5'UTR|TNIP1_uc003lth.2_RNA|TNIP1_uc003lti.2_5'UTR|TNIP1_uc003ltg.2_Intron|TNIP1_uc003ltj.2_5'UTR|TNIP1_uc010jho.1_5'Flank|TNIP1_uc010jhq.1_5'Flank|TNIP1_uc010jhp.1_5'Flank|TNIP1_uc010jhr.1_5'UTR|TNIP1_uc003ltk.2_5'UTR|TNIP1_uc010jhs.1_Intron	NM_006058	NP_006049	Q15025	TNIP1_HUMAN	TNFAIP3 interacting protein 1						defense response|glycoprotein biosynthetic process|negative regulation of viral genome replication|translation	cytoplasm|nucleus	protein binding			ovary(1)|central_nervous_system(1)	2		Medulloblastoma(196;0.0911)|all_hematologic(541;0.207)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TCCCTTCCATGAGGGTAGCTC	0.617													15	39	---	---	---	---	PASS
ZNF184	7738	broad.mit.edu	37	6	27420285	27420285	+	Missense_Mutation	SNP	T	A	A			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:27420285T>A	uc003njj.2	-	5	1864	c.1053A>T	c.(1051-1053)GAA>GAT	p.E351D	ZNF184_uc010jqv.2_Missense_Mutation_p.E351D|ZNF184_uc003nji.2_Missense_Mutation_p.E351D	NM_007149	NP_009080	Q99676	ZN184_HUMAN	zinc finger protein 184	351	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TTTTCTGATGTTCCATAAAGT	0.398													19	62	---	---	---	---	PASS
KCNK5	8645	broad.mit.edu	37	6	39162421	39162421	+	Silent	SNP	C	G	G			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:39162421C>G	uc003oon.2	-	3	778	c.414G>C	c.(412-414)GGG>GGC	p.G138G		NM_003740	NP_003731	O95279	KCNK5_HUMAN	potassium channel, subfamily K, member 5	138	Cytoplasmic (Potential).				excretion	integral to plasma membrane	potassium channel activity|voltage-gated ion channel activity			central_nervous_system(1)|skin(1)	2						TGGCACGTCCCCCGAAGAACT	0.597													22	53	---	---	---	---	PASS
TFEB	7942	broad.mit.edu	37	6	41658461	41658461	+	Silent	SNP	G	A	A			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:41658461G>A	uc003oqs.1	-	4	710	c.408C>T	c.(406-408)GGC>GGT	p.G136G	TFEB_uc003oqt.1_Silent_p.G136G|TFEB_uc003oqu.1_Silent_p.G150G|TFEB_uc003oqv.1_Silent_p.G136G|TFEB_uc010jxo.1_Silent_p.G136G|TFEB_uc003oqx.1_Silent_p.G136G|TFEB_uc003oqr.1_Intron|TFEB_uc003oqw.1_Silent_p.G136G	NM_007162	NP_009093	P19484	TFEB_HUMAN	transcription factor EB	136				GSPKPPPAASPGVRAGHVLSSSAGNSAPN -> ALRNPHQP PPQGCELDTCCPPPLATVLPI (in Ref. 1; AAA36730).	embryonic placenta development|humoral immune response|positive regulation of transcription from RNA polymerase II promoter	cytoplasm	sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(1)	1	Ovarian(28;0.0355)|Colorectal(47;0.121)		Epithelial(12;7.61e-05)|STAD - Stomach adenocarcinoma(11;0.000204)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00507)			GAGCACTGTTGCCAGCGGAGG	0.647			T	ALPHA	renal (childhood epithelioid)								8	24	---	---	---	---	PASS
PKHD1	5314	broad.mit.edu	37	6	51917916	51917916	+	Missense_Mutation	SNP	A	G	G			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:51917916A>G	uc003pah.1	-	21	2374	c.2098T>C	c.(2098-2100)TTC>CTC	p.F700L	PKHD1_uc003pai.2_Missense_Mutation_p.F700L	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	700	Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					TCCACATAGAACAGGCCCGTC	0.512													49	112	---	---	---	---	PASS
FAM135A	57579	broad.mit.edu	37	6	71138112	71138112	+	Missense_Mutation	SNP	T	C	C			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:71138112T>C	uc003pfj.2	+	2	200	c.67T>C	c.(67-69)TTT>CTT	p.F23L	FAM135A_uc003pfi.2_Missense_Mutation_p.F23L|FAM135A_uc003pfh.2_Missense_Mutation_p.F23L|FAM135A_uc003pfk.2_Missense_Mutation_p.F23L|FAM135A_uc003pfl.2_5'UTR	NM_001162529	NP_001156001	Q9P2D6	F135A_HUMAN	hypothetical protein LOC57579 isoform c	23										central_nervous_system(1)	1						TGTGGATTTGTTTCAGAGAGG	0.269													7	514	---	---	---	---	PASS
BCLAF1	9774	broad.mit.edu	37	6	136590615	136590615	+	Missense_Mutation	SNP	G	T	T			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:136590615G>T	uc003qgx.1	-	9	2432	c.2179C>A	c.(2179-2181)CCA>ACA	p.P727T	BCLAF1_uc011edb.1_5'Flank|BCLAF1_uc003qgw.1_Missense_Mutation_p.P554T|BCLAF1_uc003qgy.1_Missense_Mutation_p.P725T|BCLAF1_uc011edc.1_RNA|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Missense_Mutation_p.P725T	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	727					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		TAATCTTTTGGAGTTTTTTCC	0.378													18	521	---	---	---	---	PASS
SCIN	85477	broad.mit.edu	37	7	12620733	12620733	+	Missense_Mutation	SNP	A	G	G			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:12620733A>G	uc003ssn.3	+	3	613	c.403A>G	c.(403-405)ACA>GCA	p.T135A	SCIN_uc010ktt.2_RNA	NM_001112706	NP_001106177	Q9Y6U3	ADSV_HUMAN	scinderin isoform 1	135	Actin-severing (Potential).				actin filament capping|actin filament severing|actin nucleation|calcium ion-dependent exocytosis|negative regulation of cell proliferation|positive regulation of apoptosis|positive regulation of megakaryocyte differentiation|positive regulation of secretion|regulation of chondrocyte differentiation	cell cortex|cytoskeleton	1-phosphatidylinositol binding|actin filament binding|calcium ion binding|phosphatidylinositol-4,5-bisphosphate binding|phosphatidylserine binding			ovary(2)	2				UCEC - Uterine corpus endometrioid carcinoma (126;0.195)		GAACGACCTGACAGCCAAGAG	0.478													7	362	---	---	---	---	PASS
SUMF2	25870	broad.mit.edu	37	7	56147618	56147618	+	3'UTR	SNP	T	G	G			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:56147618T>G	uc003trv.2	+	8					PSPH_uc003trj.2_Intron|SUMF2_uc011kcw.1_3'UTR|SUMF2_uc011kcx.1_3'UTR|SUMF2_uc003trt.2_3'UTR|SUMF2_uc011kcy.1_3'UTR|SUMF2_uc011kcz.1_3'UTR|SUMF2_uc003tru.2_RNA|SUMF2_uc011kda.1_3'UTR|SUMF2_uc003trx.2_RNA	NM_001130069	NP_001123541	Q8NBJ7	SUMF2_HUMAN	sulfatase modifying factor 2 isoform e							endoplasmic reticulum lumen	metal ion binding			ovary(1)|skin(1)	2	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			AAAGGCCATTTTTTAAGCATT	0.428											OREG0018082	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	19	54	---	---	---	---	PASS
PTPN12	5782	broad.mit.edu	37	7	77166962	77166962	+	Missense_Mutation	SNP	G	A	A			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:77166962G>A	uc003ugh.2	+	1	190	c.99G>A	c.(97-99)ATG>ATA	p.M33I	PTPN12_uc011kgp.1_5'Flank|PTPN12_uc011kgq.1_5'Flank	NM_002835	NP_002826	Q05209	PTN12_HUMAN	protein tyrosine phosphatase, non-receptor type	33	Tyrosine-protein phosphatase.					soluble fraction	non-membrane spanning protein tyrosine phosphatase activity|SH3 domain binding			ovary(1)|breast(1)|pancreas(1)	3						GGGACTTCATGGTGAGTCTCT	0.617													3	34	---	---	---	---	PASS
ADAM22	53616	broad.mit.edu	37	7	87795203	87795203	+	Nonsense_Mutation	SNP	C	A	A			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:87795203C>A	uc003ujn.2	+	24	2212	c.2133C>A	c.(2131-2133)TGC>TGA	p.C711*	ADAM22_uc003ujk.1_Nonsense_Mutation_p.C711*|ADAM22_uc003ujl.1_Nonsense_Mutation_p.C711*|ADAM22_uc003ujm.2_Nonsense_Mutation_p.C711*|ADAM22_uc003ujo.2_Nonsense_Mutation_p.C711*|ADAM22_uc003ujp.1_Nonsense_Mutation_p.C763*	NM_021723	NP_068369	Q9P0K1	ADA22_HUMAN	ADAM metallopeptidase domain 22 isoform 1	711	EGF-like.|Extracellular (Potential).				cell adhesion|central nervous system development|negative regulation of cell adhesion|proteolysis	integral to membrane	integrin binding|metalloendopeptidase activity|protein binding|receptor activity|zinc ion binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Esophageal squamous(14;0.00202)		STAD - Stomach adenocarcinoma(171;0.215)			GTTCTGATTGCAACACTTACT	0.388													80	274	---	---	---	---	PASS
MTERF	7978	broad.mit.edu	37	7	91503926	91503926	+	Missense_Mutation	SNP	T	G	G			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:91503926T>G	uc003ulb.1	-	2	226	c.182A>C	c.(181-183)AAG>ACG	p.K61T	MTERF_uc010let.1_Intron|MTERF_uc003ulc.1_Missense_Mutation_p.K61T|MTERF_uc011khm.1_Missense_Mutation_p.K41T|MTERF_uc010leu.1_Missense_Mutation_p.K41T	NM_006980	NP_008911	Q99551	MTERF_HUMAN	mitochondrial transcription termination factor	61					DNA geometric change|regulation of transcription, DNA-dependent|termination of mitochondrial transcription	mitochondrial nucleoid	double-stranded DNA binding				0	all_cancers(62;2.28e-09)|all_epithelial(64;1.07e-07)|Breast(17;0.00371)|all_hematologic(106;0.091)|all_lung(186;0.178)|Lung NSC(181;0.235)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.0993)|Kidney(17;0.118)|Epithelial(20;0.136)|LUSC - Lung squamous cell carcinoma(200;0.176)			ATTATGACACTTCACACCAAA	0.368													74	268	---	---	---	---	PASS
MCM7	4176	broad.mit.edu	37	7	99693479	99693479	+	Missense_Mutation	SNP	T	C	C			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:99693479T>C	uc003usw.1	-	11	2023	c.1513A>G	c.(1513-1515)ATA>GTA	p.I505V	MCM7_uc003usv.1_Missense_Mutation_p.I329V|MCM7_uc003usx.1_Missense_Mutation_p.I329V|uc003usy.1_5'Flank|MIR25_hsa-mir-25|MI0000082_5'Flank|uc003usz.1_5'Flank|MIR93_hsa-mir-93|MI0000095_5'Flank|uc003uta.1_5'Flank|MIR106B_hsa-mir-106b|MI0000734_5'Flank	NM_005916	NP_005907	P33993	MCM7_HUMAN	minichromosome maintenance complex component 7	505	MCM.				cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|regulation of phosphorylation|response to DNA damage stimulus|S phase of mitotic cell cycle	chromatin|MCM complex	ATP binding|protein binding				0	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)				Atorvastatin(DB01076)	GGTAGCTGTATGTTCTGCTCC	0.617													5	47	---	---	---	---	PASS
MLL5	55904	broad.mit.edu	37	7	104753240	104753240	+	Silent	SNP	A	C	C			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:104753240A>C	uc003vcm.2	+	27	5571	c.5037A>C	c.(5035-5037)CCA>CCC	p.P1679P	MLL5_uc010ljc.2_Silent_p.P1679P|MLL5_uc010ljf.1_Intron|MLL5_uc010ljg.2_Silent_p.P413P	NM_182931	NP_891847	Q8IZD2	MLL5_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 5	1679	Pro-rich.				cell cycle arrest|cellular response to retinoic acid|DNA methylation|erythrocyte differentiation|neutrophil activation|neutrophil mediated immunity|positive regulation of granulocyte differentiation|positive regulation of transcription, DNA-dependent|retinoic acid receptor signaling pathway|transcription, DNA-dependent	MLL5-L complex|nuclear speck	enzyme binding|histone methyltransferase activity (H3-K4 specific)|transcription coactivator activity|zinc ion binding			ovary(2)|pancreas(1)	3						ACTTACCCCCACCCCCACCCC	0.552													21	271	---	---	---	---	PASS
PNPLA8	50640	broad.mit.edu	37	7	108143077	108143077	+	Missense_Mutation	SNP	T	A	A			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:108143077T>A	uc003vff.1	-	6	1623	c.1216A>T	c.(1216-1218)ATT>TTT	p.I406F	PNPLA8_uc003vfg.1_RNA|PNPLA8_uc003vfh.1_Missense_Mutation_p.I406F|PNPLA8_uc003vfi.1_Missense_Mutation_p.I306F|PNPLA8_uc003vfj.1_Missense_Mutation_p.I406F|PNPLA8_uc003vfk.1_Missense_Mutation_p.I306F	NM_015723	NP_056538	Q9NP80	PLPL8_HUMAN	patatin-like phospholipase domain containing 8	406					fatty acid metabolic process|lipid catabolic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|membrane fraction|perinuclear region of cytoplasm|peroxisomal membrane	ATP binding|calcium-independent phospholipase A2 activity|lysophospholipase activity			breast(2)	2						AAATATGGAATAATTCTTTCC	0.338													69	255	---	---	---	---	PASS
PRSS1	5644	broad.mit.edu	37	7	142458497	142458497	+	Silent	SNP	C	A	A	rs142279868	by1000genomes	TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:142458497C>A	uc003wak.2	+	2	149	c.132C>A	c.(130-132)GGC>GGA	p.G44G	uc011krr.1_Intron|uc003vzp.2_Intron|uc011ksh.1_Intron|uc011ksi.1_Intron|uc003vzw.1_Intron|uc010loj.1_Intron|uc003wad.2_Intron|uc003wag.1_Intron|TRY6_uc011ksn.1_Intron|PRSS1_uc011ksm.1_Missense_Mutation_p.L20I|PRSS1_uc003wam.2_5'Flank	NM_002769	NP_002760	P07477	TRY1_HUMAN	protease, serine, 1 preproprotein	44	Peptidase S1.				digestion|proteolysis	extracellular space	metal ion binding|protein binding|serine-type endopeptidase activity			large_intestine(1)|central_nervous_system(1)	2	Melanoma(164;0.047)	all_cancers(3;2.14e-49)|Acute lymphoblastic leukemia(3;7.3e-185)|all_hematologic(3;1.1e-165)	all cancers(2;0.000126)|Colorectal(2;0.000157)|Epithelial(2;0.000191)|COAD - Colon adenocarcinoma(2;0.00189)			TGAATTCTGGCTACCACTTCT	0.557									Hereditary_Pancreatitis				69	136	---	---	---	---	PASS
XKR4	114786	broad.mit.edu	37	8	56363592	56363592	+	Intron	SNP	G	A	A			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:56363592G>A	uc003xsf.2	+						SBF1P1_uc011ldz.1_RNA	NM_052898	NP_443130	Q5GH76	XKR4_HUMAN	XK, Kell blood group complex subunit-related							integral to membrane				pancreas(2)	2			Epithelial(17;0.000117)|all cancers(17;0.000836)			CACCTGCCGCGCCTGGAATAC	0.597													5	6	---	---	---	---	PASS
C9orf93	203238	broad.mit.edu	37	9	15729739	15729739	+	Missense_Mutation	SNP	G	C	C			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:15729739G>C	uc003zmd.2	+	16	2307	c.1992G>C	c.(1990-1992)AAG>AAC	p.K664N	C9orf93_uc010mih.1_Missense_Mutation_p.K672N|C9orf93_uc003zme.2_Missense_Mutation_p.K579N|C9orf93_uc011lmu.1_Missense_Mutation_p.K672N	NM_173550	NP_775821	Q6TFL3	CI093_HUMAN	hypothetical protein LOC203238	664	Potential.										0				GBM - Glioblastoma multiforme(50;4.84e-07)		ACAGACAAAAGAAGGAACTAG	0.468													30	76	---	---	---	---	PASS
TAF1L	138474	broad.mit.edu	37	9	32633474	32633474	+	Missense_Mutation	SNP	A	T	T			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:32633474A>T	uc003zrg.1	-	1	2194	c.2104T>A	c.(2104-2106)TAT>AAT	p.Y702N	uc003zrh.1_RNA	NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	702					male meiosis|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding			lung(8)|skin(6)|central_nervous_system(4)|large_intestine(3)|ovary(2)|stomach(1)|breast(1)|pancreas(1)	26			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		TCCTCACTATATTCTGCAAGA	0.448													109	296	---	---	---	---	PASS
HNRNPK	3190	broad.mit.edu	37	9	86592692	86592692	+	Missense_Mutation	SNP	G	T	T			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:86592692G>T	uc004ang.3	-	4	292	c.68C>A	c.(67-69)CCT>CAT	p.P23H	HNRNPK_uc011lsw.1_5'Flank|HNRNPK_uc004and.3_5'Flank|HNRNPK_uc004ank.3_Missense_Mutation_p.P23H|HNRNPK_uc004anf.3_Missense_Mutation_p.P23H|HNRNPK_uc004anh.3_Missense_Mutation_p.P23H|HNRNPK_uc011lsx.1_Missense_Mutation_p.P23H|HNRNPK_uc004ani.3_Missense_Mutation_p.P23H|HNRNPK_uc004anj.3_Missense_Mutation_p.P23H|HNRNPK_uc004ann.3_Missense_Mutation_p.P23H|HNRNPK_uc004anl.3_Missense_Mutation_p.P23H|HNRNPK_uc004anm.3_Missense_Mutation_p.P23H|RMI1_uc004anq.3_5'Flank|RMI1_uc004anr.3_5'Flank	NM_031262	NP_112552	P61978	HNRPK_HUMAN	heterogeneous nuclear ribonucleoprotein K	23	Necessary for interaction with DDX1.				interspecies interaction between organisms|positive regulation of low-density lipoprotein particle receptor biosynthetic process|positive regulation of receptor-mediated endocytosis|regulation of lipid transport by positive regulation of transcription from an RNA polymerase II promoter|regulation of low-density lipoprotein particle clearance|signal transduction	catalytic step 2 spliceosome|cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nuclear chromatin|nucleoplasm	protein binding|RNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|single-stranded DNA binding			skin(1)	1						ATCTTCTGCAGGGCGTTTACC	0.368													66	145	---	---	---	---	PASS
PTPDC1	138639	broad.mit.edu	37	9	96863956	96863956	+	Missense_Mutation	SNP	G	A	A			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:96863956G>A	uc004auf.1	+	8	2300	c.1960G>A	c.(1960-1962)GTA>ATA	p.V654I	PTPDC1_uc004aug.1_Missense_Mutation_p.V649I|PTPDC1_uc004auh.1_Missense_Mutation_p.V706I|PTPDC1_uc010mrj.1_Missense_Mutation_p.V708I	NM_177995	NP_818931	A2A3K4	PTPC1_HUMAN	protein tyrosine phosphatase domain containing 1	654							protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(1)	1						GAAGGAGCCTGTAATCACCAA	0.483													120	346	---	---	---	---	PASS
COL15A1	1306	broad.mit.edu	37	9	101832245	101832245	+	3'UTR	SNP	A	C	C			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:101832245A>C	uc004azb.1	+	42						NM_001855	NP_001846	P39059	COFA1_HUMAN	alpha 1 type XV collagen precursor						angiogenesis|cell differentiation|signal transduction	collagen type XV|extracellular space|integral to membrane	binding			ovary(6)	6		Acute lymphoblastic leukemia(62;0.0562)				AAAATGTTTAATTGTTGTAAA	0.299													18	24	---	---	---	---	PASS
SLC31A2	1318	broad.mit.edu	37	9	115925356	115925356	+	3'UTR	SNP	C	G	G			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:115925356C>G	uc004bgq.2	+	4						NM_001860	NP_001851	O15432	COPT2_HUMAN	solute carrier family 31 (copper transporters),							integral to plasma membrane	copper ion transmembrane transporter activity				0						CCCTGGAGTTCGGAAGCCATT	0.527													3	6	---	---	---	---	PASS
ASS1	445	broad.mit.edu	37	9	133333871	133333871	+	Silent	SNP	C	A	A			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:133333871C>A	uc004bzm.2	+	5	614	c.258C>A	c.(256-258)CGC>CGA	p.R86R	ASS1_uc004bzn.2_Silent_p.R86R|ASS1_uc010mza.2_Silent_p.R162R|ASS1_uc004bzo.2_Silent_p.R86R|ASS1_uc010mzb.2_Silent_p.R124R|ASS1_uc004bzp.2_Silent_p.R86R|ASS1_uc010mzc.2_Silent_p.R86R	NM_000050	NP_000041	P00966	ASSY_HUMAN	argininosuccinate synthetase 1	86			R -> C (in CTLN1).|R -> H (in CTLN1).		arginine biosynthetic process|urea cycle	cytosol	argininosuccinate synthase activity|ATP binding|protein binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(145;0.000514)	Adenosine triphosphate(DB00171)|L-Arginine(DB00125)|L-Aspartic Acid(DB00128)|L-Citrulline(DB00155)	ATGAGGACCGCTACCTCCTGG	0.617													18	43	---	---	---	---	PASS
KCNT1	57582	broad.mit.edu	37	9	138662896	138662896	+	Missense_Mutation	SNP	G	A	A			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:138662896G>A	uc011mdq.1	+	18	2037	c.1963G>A	c.(1963-1965)GAG>AAG	p.E655K	KCNT1_uc011mdr.1_Missense_Mutation_p.E482K|KCNT1_uc010nbf.2_Missense_Mutation_p.E610K|KCNT1_uc004cgo.1_Missense_Mutation_p.E404K	NM_020822	NP_065873	Q5JUK3	KCNT1_HUMAN	potassium channel, subfamily T, member 1	655						membrane	binding|calcium-activated potassium channel activity			large_intestine(2)|ovary(1)|pancreas(1)	4		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;2.11e-07)|Epithelial(140;1.57e-06)|all cancers(34;9.22e-05)		GGGGCTGCACGAGGGTCCGGC	0.652													7	9	---	---	---	---	PASS
FAM166A	401565	broad.mit.edu	37	9	140139762	140139762	+	Missense_Mutation	SNP	G	T	T			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:140139762G>T	uc004cmi.1	-	3	574	c.519C>A	c.(517-519)CAC>CAA	p.H173Q		NM_001001710	NP_001001710	Q6J272	F166A_HUMAN	hypothetical protein LOC401565	173										ovary(1)	1						TGGCTGCCTGGTGCTGCCTGG	0.657													12	21	---	---	---	---	PASS
AGAP6	414189	broad.mit.edu	37	10	51769940	51769940	+	Silent	SNP	T	C	C			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:51769940T>C	uc001jix.3	+	8	2453	c.2055T>C	c.(2053-2055)TGT>TGC	p.C685C		NM_001077665	NP_001071133	Q5VW22	AGAP6_HUMAN	ArfGAP with GTPase domain, ankyrin repeat and PH	685					regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding			skin(1)	1						CCGACGAGTGTGTGTAGTATC	0.498													15	16	---	---	---	---	PASS
MYOF	26509	broad.mit.edu	37	10	95134700	95134700	+	Silent	SNP	A	G	G			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:95134700A>G	uc001kin.2	-	23	2244	c.2121T>C	c.(2119-2121)CCT>CCC	p.P707P	MYOF_uc001kio.2_Silent_p.P694P|MYOF_uc009xue.2_RNA	NM_013451	NP_038479	Q9NZM1	MYOF_HUMAN	myoferlin isoform a	707	Cytoplasmic (Potential).				blood circulation|muscle contraction|plasma membrane repair	caveola|cytoplasmic vesicle membrane|integral to membrane|nuclear membrane	phospholipid binding|protein binding			ovary(3)|breast(1)	4						CTTCTGTGAGAGGCAACGTGT	0.413													5	128	---	---	---	---	PASS
PPRC1	23082	broad.mit.edu	37	10	103898406	103898406	+	Missense_Mutation	SNP	G	A	A			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:103898406G>A	uc001kum.2	+	3	412	c.373G>A	c.(373-375)GTG>ATG	p.V125M	PPRC1_uc001kun.2_Intron|PPRC1_uc010qqj.1_Missense_Mutation_p.V125M|PPRC1_uc009xxa.2_5'Flank	NM_015062	NP_055877	Q5VV67	PPRC1_HUMAN	peroxisome proliferator-activated receptor	125					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleotide binding|RNA binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.122)		Epithelial(162;4.97e-08)|all cancers(201;8.99e-07)		CCAGAATGAAGTGTCGCTGCT	0.493													17	71	---	---	---	---	PASS
ACSL5	51703	broad.mit.edu	37	10	114171685	114171685	+	Missense_Mutation	SNP	A	G	G			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:114171685A>G	uc001kzs.2	+	11	1037	c.896A>G	c.(895-897)GAT>GGT	p.D299G	ACSL5_uc001kzt.2_Missense_Mutation_p.D299G|ACSL5_uc001kzu.2_Missense_Mutation_p.D355G|ACSL5_uc009xxz.2_Missense_Mutation_p.D299G|ACSL5_uc010qrj.1_Missense_Mutation_p.D81G	NM_203379	NP_976313	Q9ULC5	ACSL5_HUMAN	acyl-CoA synthetase long-chain family member 5	299	Cytoplasmic (Potential).				fatty acid metabolic process|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|mitochondrial outer membrane	ATP binding|long-chain fatty acid-CoA ligase activity			large_intestine(2)|skin(1)	3		Colorectal(252;0.117)|Breast(234;0.222)		Epithelial(162;0.0343)|all cancers(201;0.137)		ACTCCTGATGATGTGGCCATA	0.458													5	155	---	---	---	---	PASS
FAM160B1	57700	broad.mit.edu	37	10	116621368	116621368	+	3'UTR	SNP	A	C	C			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:116621368A>C	uc001lcb.2	+	17					FAM160B1_uc001lcc.2_Intron	NM_020940	NP_065991	Q5W0V3	F16B1_HUMAN	hypothetical protein LOC57700 isoform a											lung(1)	1						ACTCAGTTCCACCCAGCCACA	0.383													14	41	---	---	---	---	PASS
DOCK1	1793	broad.mit.edu	37	10	128797640	128797640	+	Missense_Mutation	SNP	T	C	C			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:128797640T>C	uc001ljt.2	+	9	854	c.790T>C	c.(790-792)TCC>CCC	p.S264P	DOCK1_uc010qun.1_Missense_Mutation_p.S264P	NM_001380	NP_001371	Q14185	DOCK1_HUMAN	dedicator of cytokinesis 1	264					apoptosis|axon guidance|blood coagulation|integrin-mediated signaling pathway|phagocytosis, engulfment|small GTPase mediated signal transduction	cytosol|membrane	GTP binding|GTPase activator activity|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding			central_nervous_system(4)|ovary(2)|lung(1)|breast(1)|kidney(1)	9		all_epithelial(44;2.3e-07)|all_lung(145;0.00466)|Lung NSC(174;0.00685)|Colorectal(57;0.0107)|Renal(717;0.0113)|Breast(234;0.0492)|all_neural(114;0.108)|all_hematologic(284;0.14)		BRCA - Breast invasive adenocarcinoma(275;0.0221)|Colorectal(40;0.115)		GGTTCGCTGGTCCAGTTCAGG	0.378													7	416	---	---	---	---	PASS
ZNF195	7748	broad.mit.edu	37	11	3380467	3380467	+	Missense_Mutation	SNP	A	G	G			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:3380467A>G	uc001lxt.2	-	6	1949	c.1771T>C	c.(1771-1773)TCA>CCA	p.S591P	uc001lxr.2_5'Flank|ZNF195_uc001lxv.2_Missense_Mutation_p.S568P|ZNF195_uc001lxs.2_Missense_Mutation_p.S519P|ZNF195_uc010qxr.1_Missense_Mutation_p.S572P|ZNF195_uc009ydz.2_Missense_Mutation_p.S546P|ZNF195_uc001lxu.2_Missense_Mutation_p.S523P	NM_001130520	NP_001123992	O14628	ZN195_HUMAN	zinc finger protein 195 isoform 1	591	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Medulloblastoma(188;0.00106)|Breast(177;0.00328)|all_neural(188;0.00681)|Ovarian(85;0.00965)		BRCA - Breast invasive adenocarcinoma(625;0.0361)|LUSC - Lung squamous cell carcinoma(625;0.2)		ATAAGGTTTGAGGACTGGGTA	0.408													57	144	---	---	---	---	PASS
MUC15	143662	broad.mit.edu	37	11	26581451	26581451	+	3'UTR	SNP	A	G	G			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:26581451A>G	uc001mqx.2	-	4					ANO3_uc010rdr.1_Intron|ANO3_uc001mqt.3_Intron|ANO3_uc010rds.1_Intron|ANO3_uc010rdt.1_Intron|MUC15_uc001mqw.2_3'UTR|MUC15_uc001mqy.2_3'UTR	NM_145650	NP_663625	Q8N387	MUC15_HUMAN	mucin 15 isoform b							extracellular region|integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)|pancreas(1)	3						TAAAGCCTCTAGGTTGGTACT	0.269													61	136	---	---	---	---	PASS
CAT	847	broad.mit.edu	37	11	34482847	34482847	+	Missense_Mutation	SNP	A	G	G	rs148712764	by1000genomes	TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:34482847A>G	uc001mvm.2	+	9	1189	c.1106A>G	c.(1105-1107)AAT>AGT	p.N369S	CAT_uc009ykc.1_RNA|CAT_uc001mvn.2_5'UTR	NM_001752	NP_001743	P04040	CATA_HUMAN	catalase	369					hydrogen peroxide catabolic process|negative regulation of apoptosis|positive regulation of cell division|protein tetramerization|purine base metabolic process|purine nucleotide catabolic process|UV protection	peroxisomal matrix|peroxisomal membrane	catalase activity|heme binding|NADP binding|protein homodimerization activity			ovary(2)|pancreas(1)	3		Lung NSC(402;2.76e-08)|Acute lymphoblastic leukemia(5;0.00143)|all_hematologic(20;0.0116)|Melanoma(852;0.027)		BRCA - Breast invasive adenocarcinoma(625;0.000995)	Fomepizole(DB01213)	CTGGGACCCAATTATCTTCAT	0.507													36	113	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	11	43283909	43283909	+	RNA	SNP	G	A	A	rs143255343	by1000genomes	TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:43283909G>A	uc001mxe.1	-	2		c.1027C>T								Homo sapiens cDNA FLJ44864 fis, clone BRALZ2013621, moderately similar to Heterogeneous nuclear ribonucleoprotein K.																		GCCACTGTCCGCTGCATAGGA	0.413													12	28	---	---	---	---	PASS
MED19	219541	broad.mit.edu	37	11	57471904	57471904	+	Intron	SNP	C	G	G			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:57471904C>G	uc001nla.1	-						MED19_uc001nlb.2_3'UTR	NM_153450	NP_703151	A0JLT2	MED19_HUMAN	mediator complex subunit 19						regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex				ovary(2)	2						ACCTGTAAAGCTCAAAATCCT	0.348													7	46	---	---	---	---	PASS
NAALADL1	10004	broad.mit.edu	37	11	64812680	64812680	+	3'UTR	SNP	A	G	G			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:64812680A>G	uc001ocn.2	-	18					NAALADL1_uc010rnw.1_3'UTR	NM_005468	NP_005459	Q9UQQ1	NALDL_HUMAN	N-acetylated alpha-linked acidic						proteolysis	apical plasma membrane|integral to membrane	carboxypeptidase activity|dipeptidase activity|metal ion binding|metallopeptidase activity				0						AGACCAGGACATCTCAGGAAA	0.602													7	14	---	---	---	---	PASS
EIF1AD	84285	broad.mit.edu	37	11	65767901	65767901	+	5'UTR	SNP	C	G	G			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:65767901C>G	uc001ogm.1	-	2					EIF1AD_uc001ogn.1_5'UTR|BANF1_uc001ogo.2_5'Flank|BANF1_uc001ogp.2_5'Flank	NM_032325	NP_115701	Q8N9N8	EIF1A_HUMAN	eukaryotic translation initiation factor 1A							nucleus	translation initiation factor activity				0						AAGAGACTGTCAACTCCTCCT	0.483													31	60	---	---	---	---	PASS
PRDM10	56980	broad.mit.edu	37	11	129805103	129805103	+	Missense_Mutation	SNP	C	G	G			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:129805103C>G	uc001qfm.2	-	9	1282	c.1050G>C	c.(1048-1050)GAG>GAC	p.E350D	PRDM10_uc001qfj.2_Missense_Mutation_p.E264D|PRDM10_uc001qfk.2_Missense_Mutation_p.E264D|PRDM10_uc001qfl.2_Missense_Mutation_p.E264D|PRDM10_uc010sbx.1_Missense_Mutation_p.E264D|PRDM10_uc001qfn.2_Missense_Mutation_p.E350D|PRDM10_uc009zct.1_Missense_Mutation_p.E382D	NM_020228	NP_064613	Q9NQV6	PRD10_HUMAN	PR domain containing 10 isoform 1	350					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1	all_hematologic(175;0.0537)	Breast(109;0.000496)|Lung NSC(97;0.000693)|all_lung(97;0.00151)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0174)|Lung(977;0.176)|LUSC - Lung squamous cell carcinoma(976;0.185)		TCTTCTCTTGCTCTCGAAGAA	0.428													45	118	---	---	---	---	PASS
ADAMTS8	11095	broad.mit.edu	37	11	130286146	130286146	+	Missense_Mutation	SNP	C	T	T			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:130286146C>T	uc001qgg.3	-	4	1534	c.1176G>A	c.(1174-1176)ATG>ATA	p.M392I		NM_007037	NP_008968	Q9UP79	ATS8_HUMAN	ADAM metallopeptidase with thrombospondin type 1	392	Peptidase M12B.				negative regulation of cell proliferation|proteolysis	proteinaceous extracellular matrix	heparin binding|integrin binding|low affinity phosphate transmembrane transporter activity|metalloendopeptidase activity|zinc ion binding			central_nervous_system(1)	1	all_hematologic(175;0.0429)	Lung NSC(97;0.000601)|Breast(109;0.000962)|all_lung(97;0.00125)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.039)|Lung(977;0.213)		ACAGCGGTGCCATCACGTGGT	0.672													12	30	---	---	---	---	PASS
LOC100288778	100288778	broad.mit.edu	37	12	90953	90953	+	3'UTR	SNP	C	G	G			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:90953C>G	uc010scy.1	+	10					LOC100288778_uc010scz.1_RNA|LOC100288778_uc010sdd.1_3'UTR|LOC100288778_uc010sde.1_3'UTR|LOC100288778_uc010sdf.1_3'UTR|LOC100288778_uc010sdg.1_3'UTR|LOC100288778_uc010sdh.1_RNA					SubName: Full=Actin nucleation promoting factor; Flags: Fragment;												0						ACCTTCCCCCCCAGACCCAGA	0.627													4	9	---	---	---	---	PASS
WNK1	65125	broad.mit.edu	37	12	1018030	1018030	+	3'UTR	SNP	G	T	T			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:1018030G>T	uc001qio.3	+	28					WNK1_uc001qip.3_3'UTR|WNK1_uc001qir.3_3'UTR	NM_018979	NP_061852	Q9H4A3	WNK1_HUMAN	WNK lysine deficient protein kinase 1						intracellular protein kinase cascade|ion transport|neuron development	cytoplasm	ATP binding|protein binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			stomach(6)|breast(6)|ovary(5)|lung(4)|large_intestine(1)|central_nervous_system(1)	23	all_cancers(10;0.00611)|all_epithelial(11;0.00825)|all_lung(10;0.0331)|Ovarian(42;0.0512)|Lung NSC(10;0.0632)		Epithelial(1;1.74e-08)|all cancers(1;7.04e-08)|OV - Ovarian serous cystadenocarcinoma(31;0.000423)|BRCA - Breast invasive adenocarcinoma(9;0.0149)|Colorectal(1;0.0197)			GGGGTGGGAAGTAGCCTATAT	0.493													5	14	---	---	---	---	PASS
STYK1	55359	broad.mit.edu	37	12	10774481	10774481	+	Missense_Mutation	SNP	T	C	C			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:10774481T>C	uc001qys.2	-	10	1579	c.1058A>G	c.(1057-1059)CAT>CGT	p.H353R		NM_018423	NP_060893	Q6J9G0	STYK1_HUMAN	serine/threonine/tyrosine kinase 1	353	Protein kinase.					integral to membrane|plasma membrane	ATP binding|non-membrane spanning protein tyrosine kinase activity			central_nervous_system(3)|ovary(2)|lung(2)|breast(1)	8						TTACATGGTATGTGTGCAGCT	0.463										HNSCC(73;0.22)			11	692	---	---	---	---	PASS
MANSC1	54682	broad.mit.edu	37	12	12483330	12483330	+	Silent	SNP	T	A	A			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:12483330T>A	uc001rai.1	-	4	1185	c.927A>T	c.(925-927)GCA>GCT	p.A309A	MANSC1_uc010shm.1_Silent_p.A243A|MANSC1_uc001raj.1_Silent_p.A275A|MANSC1_uc009zht.1_Silent_p.A228A	NM_018050	NP_060520	Q9H8J5	MANS1_HUMAN	MANSC domain containing 1 precursor	309	Thr-rich.|Extracellular (Potential).					integral to membrane					0		Prostate(47;0.0865)		BRCA - Breast invasive adenocarcinoma(232;0.185)		AGTCCGTAGGTGCCTGAAAGG	0.478													51	163	---	---	---	---	PASS
SLCO1B3	28234	broad.mit.edu	37	12	21028191	21028191	+	Missense_Mutation	SNP	G	C	C			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:21028191G>C	uc001rek.2	+	8	876	c.750G>C	c.(748-750)AAG>AAC	p.K250N	SLCO1B3_uc001rel.2_Missense_Mutation_p.K250N|SLCO1B3_uc010sil.1_Missense_Mutation_p.K250N|LST-3TM12_uc010sim.1_Intron|SLCO1B3_uc001reo.2_Missense_Mutation_p.K75N	NM_019844	NP_062818	Q9NPD5	SO1B3_HUMAN	solute carrier organic anion transporter family,	250	Extracellular (Potential).				bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|cytoplasm|integral to plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(2)|ovary(1)|skin(1)	4	Esophageal squamous(101;0.149)					TAACTCCTAAGGACTCTCGTT	0.373													150	624	---	---	---	---	PASS
TFCP2	7024	broad.mit.edu	37	12	51492701	51492701	+	Missense_Mutation	SNP	A	G	G			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:51492701A>G	uc001rxw.2	-	13	1736	c.1277T>C	c.(1276-1278)GTT>GCT	p.V426A	TFCP2_uc001rxv.1_Missense_Mutation_p.V426A|TFCP2_uc009zlx.1_Missense_Mutation_p.V375A|TFCP2_uc001rxx.2_Missense_Mutation_p.V348A|TFCP2_uc009zly.1_Missense_Mutation_p.V328A	NM_005653	NP_005644	Q12800	TFCP2_HUMAN	transcription factor CP2	426					regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						AGCATGGTAAACTGCAAAAGG	0.388													6	350	---	---	---	---	PASS
C12orf50	160419	broad.mit.edu	37	12	88373953	88373953	+	3'UTR	SNP	T	A	A			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:88373953T>A	uc001tam.1	-	13						NM_152589	NP_689802	Q8NA57	CL050_HUMAN	hypothetical protein LOC160419											skin(2)|ovary(1)	3						ACTTCCTGCATCTTATTTTCA	0.328													6	197	---	---	---	---	PASS
HSP90B1	7184	broad.mit.edu	37	12	104341410	104341410	+	Splice_Site	SNP	G	A	A			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:104341410G>A	uc001tkb.1	+	18	2488	c.2383_splice	c.e18-1	p.E795_splice	HSP90B1_uc010swg.1_Splice_Site_p.E460_splice|HSP90B1_uc009zui.1_Splice_Site_p.R331_splice	NM_003299	NP_003290	P14625	ENPL_HUMAN	heat shock protein 90kDa beta, member 1						actin rod assembly|anti-apoptosis|cellular response to ATP|ER-associated protein catabolic process|protein folding|protein transport|regulation of phosphoprotein phosphatase activity|response to hypoxia|sequestering of calcium ion	cytosol|endoplasmic reticulum lumen|endoplasmic reticulum membrane|melanosome|microsome|midbody|perinuclear region of cytoplasm	ATP binding|calcium ion binding|low-density lipoprotein particle receptor binding|protein phosphatase binding|RNA binding|unfolded protein binding|virion binding			ovary(2)|skin(1)	3					Rifabutin(DB00615)	TTTATTTACAGGAATCTACAG	0.323													85	321	---	---	---	---	PASS
GLTP	51228	broad.mit.edu	37	12	110290311	110290311	+	3'UTR	SNP	G	C	C			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:110290311G>C	uc001tpm.2	-	5					GLTP_uc010sxt.1_RNA	NM_016433	NP_057517	Q9NZD2	GLTP_HUMAN	glycolipid transfer protein							cytoplasm	glycolipid binding|glycolipid transporter activity				0		Lung NSC(355;2.38e-06)|Breast(359;0.00354)|Myeloproliferative disorder(1001;0.0122)		BRCA - Breast invasive adenocarcinoma(302;0.0025)		TGGTTTGCCTGTTTCTCCATG	0.582													14	54	---	---	---	---	PASS
GPR109A	338442	broad.mit.edu	37	12	123186930	123186930	+	Missense_Mutation	SNP	A	G	G			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:123186930A>G	uc001ucx.1	-	1	975	c.901T>C	c.(901-903)TTT>CTT	p.F301L	GPR81_uc001ucw.1_Intron	NM_177551	NP_808219	Q8TDS4	HCAR2_HUMAN	G protein-coupled receptor 109A	301	Cytoplasmic (Potential).				negative regulation of lipid catabolic process|neutrophil apoptosis|positive regulation of adiponectin secretion|positive regulation of neutrophil apoptosis	integral to membrane|plasma membrane	nicotinic acid receptor activity|purinergic nucleotide receptor activity, G-protein coupled				0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.12e-05)|Epithelial(86;3.19e-05)|BRCA - Breast invasive adenocarcinoma(302;0.196)	Mepenzolate(DB04843)|Niacin(DB00627)	AAGTTGGGAAAGGATGGGCTG	0.542													6	278	---	---	---	---	PASS
MTMR6	9107	broad.mit.edu	37	13	25841916	25841916	+	Splice_Site	SNP	C	T	T			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:25841916C>T	uc001uqf.3	-	3	623	c.304_splice	c.e3+1	p.A102_splice	MTMR6_uc001uqe.1_Splice_Site_p.A102_splice	NM_004685	NP_004676	Q9Y217	MTMR6_HUMAN	myotubularin related protein 6							cytoplasm|nuclear envelope	calcium-activated potassium channel activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity			ovary(2)|skin(2)	4		Lung SC(185;0.0225)|Breast(139;0.0351)		all cancers(112;0.00927)|Epithelial(112;0.0474)|OV - Ovarian serous cystadenocarcinoma(117;0.164)		AAGAACAATACCTTGTTTTGA	0.323													5	216	---	---	---	---	PASS
USP12	219333	broad.mit.edu	37	13	27680064	27680064	+	Nonsense_Mutation	SNP	G	T	T			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:27680064G>T	uc001uqy.2	-	3	400	c.147C>A	c.(145-147)TAC>TAA	p.Y49*		NM_182488	NP_872294	O75317	UBP12_HUMAN	ubiquitin thiolesterase 12	49					protein deubiquitination|ubiquitin-dependent protein catabolic process		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			lung(1)	1		Lung SC(185;0.0161)		all cancers(112;0.0508)|GBM - Glioblastoma multiforme(144;0.168)|Epithelial(112;0.244)|OV - Ovarian serous cystadenocarcinoma(117;0.246)		CTGAATTGCAGTAGCAGGTAT	0.368													48	117	---	---	---	---	PASS
LECT1	11061	broad.mit.edu	37	13	53313233	53313233	+	Missense_Mutation	SNP	G	A	A			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:53313233G>A	uc001vhf.2	-	2	257	c.146C>T	c.(145-147)TCG>TTG	p.S49L	LECT1_uc001vhg.2_Missense_Mutation_p.S49L|LECT1_uc001vhh.2_Missense_Mutation_p.S76L	NM_007015	NP_008946	O75829	LECT1_HUMAN	leukocyte cell derived chemotaxin 1 isoform 1	49	Helical; (Potential).				cartilage development|proteoglycan metabolic process	endomembrane system|extracellular region|integral to membrane				ovary(2)	2		Lung NSC(96;0.00212)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;3.38e-08)		CACAGCTCCCGAAATGAGGAC	0.701													5	13	---	---	---	---	PASS
SCEL	8796	broad.mit.edu	37	13	78130015	78130015	+	Missense_Mutation	SNP	C	G	G			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:78130015C>G	uc001vki.2	+	2	175	c.5C>G	c.(4-6)TCC>TGC	p.S2C	SCEL_uc001vkj.2_Missense_Mutation_p.S2C|SCEL_uc010thx.1_Missense_Mutation_p.S2C	NM_144777	NP_659001	O95171	SCEL_HUMAN	sciellin isoform 1	2					embryo development|keratinocyte differentiation	cornified envelope|cytoplasm|membrane	protein binding|zinc ion binding			ovary(4)|breast(1)	5		Acute lymphoblastic leukemia(28;0.0282)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0233)		GGCAGCATGTCCAATGTTACC	0.373													133	298	---	---	---	---	PASS
SLITRK1	114798	broad.mit.edu	37	13	84454858	84454858	+	Missense_Mutation	SNP	G	A	A			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:84454858G>A	uc001vlk.2	-	1	1671	c.785C>T	c.(784-786)CCT>CTT	p.P262L		NM_052910	NP_443142	Q96PX8	SLIK1_HUMAN	slit and trk like 1 protein precursor	262	Extracellular (Potential).|LRRCT 1.					integral to membrane				ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	Medulloblastoma(90;0.18)	Breast(118;0.212)		GBM - Glioblastoma multiforme(99;0.07)		GTTTTTCAAAGGACACAAGTC	0.547													43	140	---	---	---	---	PASS
TMTC4	84899	broad.mit.edu	37	13	101257005	101257005	+	3'UTR	SNP	T	A	A			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:101257005T>A	uc001vou.2	-	18					TMTC4_uc001vot.2_3'UTR|TMTC4_uc010tja.1_3'UTR	NM_001079669	NP_001073137	Q5T4D3	TMTC4_HUMAN	transmembrane and tetratricopeptide repeat							integral to membrane	binding			ovary(2)|breast(1)	3	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					AAAAAAGACATTTTTGGAATT	0.294													3	8	---	---	---	---	PASS
TMTC4	84899	broad.mit.edu	37	13	101257072	101257072	+	3'UTR	SNP	C	A	A	rs73568772	by1000genomes	TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:101257072C>A	uc001vou.2	-	18					TMTC4_uc001vot.2_3'UTR|TMTC4_uc010tja.1_3'UTR	NM_001079669	NP_001073137	Q5T4D3	TMTC4_HUMAN	transmembrane and tetratricopeptide repeat							integral to membrane	binding			ovary(2)|breast(1)	3	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					AATCATATCACGCATTCAAGA	0.244													3	32	---	---	---	---	PASS
PSME1	5720	broad.mit.edu	37	14	24606616	24606616	+	Silent	SNP	A	G	G			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:24606616A>G	uc001wmg.2	+	4	316	c.222A>G	c.(220-222)AAA>AAG	p.K74K	PSME1_uc001wmh.2_Silent_p.K74K	NM_006263	NP_006254	Q06323	PSME1_HUMAN	proteasome activator subunit 1 isoform 1	74					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|proteasome activator complex				ovary(1)	1				GBM - Glioblastoma multiforme(265;0.00831)		AGAAAGAGAAAGAGGAGCGGA	0.532													6	237	---	---	---	---	PASS
TINF2	26277	broad.mit.edu	37	14	24709106	24709106	+	Missense_Mutation	SNP	A	T	T			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:24709106A>T	uc001woa.3	-	9	1595	c.1253T>A	c.(1252-1254)TTT>TAT	p.F418Y	TINF2_uc010alm.2_3'UTR|TINF2_uc001wob.3_3'UTR|TINF2_uc010tof.1_Missense_Mutation_p.F383Y|TINF2_uc001woc.3_3'UTR	NM_001099274	NP_001092744	Q9BSI4	TINF2_HUMAN	TERF1 (TRF1)-interacting nuclear factor 2	418					negative regulation of epithelial cell proliferation|negative regulation of protein ADP-ribosylation|negative regulation of telomere maintenance via telomerase|positive regulation of telomere maintenance|protein localization to chromosome, telomeric region|telomere assembly|telomere maintenance via telomere lengthening	nuclear telomere cap complex|nucleoplasm|perinucleolar chromocenter	protein binding|protein binding|telomeric DNA binding				0				GBM - Glioblastoma multiforme(265;0.0185)		CAAGGTGTCAAACTTTGTCTT	0.478									Ataxia_Pancytopenia_syndrome|Congenital_Dyskeratosis				51	126	---	---	---	---	PASS
C14orf106	55320	broad.mit.edu	37	14	45687640	45687640	+	Missense_Mutation	SNP	G	A	A			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:45687640G>A	uc001wwf.2	-	12	3146	c.2687C>T	c.(2686-2688)CCA>CTA	p.P896L		NM_018353	NP_060823	Q6P0N0	M18BP_HUMAN	chromosome 14 open reading frame 106	896	SANT.				cell division|CenH3-containing nucleosome assembly at centromere|mitosis	chromosome, centromeric region|nucleoplasm	DNA binding				0						TTTGTGCTTTGGAAGAGATGC	0.393													51	128	---	---	---	---	PASS
PNMA1	9240	broad.mit.edu	37	14	74180283	74180283	+	Silent	SNP	A	G	G			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:74180283A>G	uc001xor.1	-	1	846	c.60T>C	c.(58-60)GCT>GCC	p.A20A		NM_006029	NP_006020	Q8ND90	PNMA1_HUMAN	paraneoplastic antigen MA1	20					apoptosis|central nervous system development|inflammatory response to antigenic stimulus|spermatogenesis	cytoplasm|focal adhesion|nucleolus	protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00331)|KIRC - Kidney renal clear cell carcinoma(182;0.0797)		agactaacagagctctctggg	0.030													18	45	---	---	---	---	PASS
PACS2	23241	broad.mit.edu	37	14	105843135	105843135	+	Missense_Mutation	SNP	C	T	T			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:105843135C>T	uc001yqt.2	+	9	1007	c.832C>T	c.(832-834)CAC>TAC	p.H278Y	PACS2_uc001yqs.2_Missense_Mutation_p.H203Y|PACS2_uc001yqv.2_Missense_Mutation_p.H278Y|PACS2_uc001yqu.2_Missense_Mutation_p.H278Y	NM_015197	NP_056012	Q86VP3	PACS2_HUMAN	phosphofurin acidic cluster sorting protein 2	278					apoptosis|interspecies interaction between organisms	endoplasmic reticulum lumen|mitochondrion				pancreas(1)	1		all_cancers(154;0.0351)|all_epithelial(191;0.153)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.0145)|Epithelial(46;0.036)	Epithelial(152;0.138)		CCCTGCGGAGCACATCCCCGA	0.677													8	7	---	---	---	---	PASS
ADAM6	8755	broad.mit.edu	37	14	106173793	106173793	+	RNA	SNP	C	G	G			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:106173793C>G	uc010tyt.1	-	3633		c.60105G>C			uc001yrs.2_Intron|uc001yrt.2_Intron|uc001yrw.1_Intron|uc001yrx.1_Intron|uc001yrz.1_Intron|uc001ysc.2_5'Flank					Parts of antibodies, mostly variable regions.												0						CCAGCACATCCTTGGGGCTGA	0.692													7	19	---	---	---	---	PASS
UBR1	197131	broad.mit.edu	37	15	43307885	43307885	+	Splice_Site	SNP	C	A	A			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:43307885C>A	uc001zqq.2	-	29	3275	c.3209_splice	c.e29+1	p.S1070_splice	UBR1_uc010udk.1_Missense_Mutation_p.R1070S	NM_174916	NP_777576	Q8IWV7	UBR1_HUMAN	ubiquitin protein ligase E3 component n-recognin						cellular response to leucine|negative regulation of TOR signaling cascade	cytosol	leucine binding|zinc ion binding			lung(1)	1		all_cancers(109;4.32e-15)|all_epithelial(112;4.05e-13)|Lung NSC(122;1.75e-08)|all_lung(180;2e-07)|Melanoma(134;0.0179)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;4.08e-07)|COAD - Colon adenocarcinoma(120;0.185)|Colorectal(105;0.214)		CTTTATTTTACCTCTCTTCCT	0.229													145	369	---	---	---	---	PASS
PAQR5	54852	broad.mit.edu	37	15	69672243	69672243	+	Missense_Mutation	SNP	C	G	G			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:69672243C>G	uc002arz.2	+	4	451	c.73C>G	c.(73-75)CTG>GTG	p.L25V	PAQR5_uc002asa.2_Missense_Mutation_p.L25V	NM_017705	NP_060175	Q9NXK6	MPRG_HUMAN	progestin and adipoQ receptor family member V	25	Cytoplasmic (Potential).				cell differentiation|multicellular organismal development|oogenesis	integral to membrane	receptor activity|steroid binding			ovary(2)	2						GCAAGGCATCCTGTTCGGCTA	0.537													33	94	---	---	---	---	PASS
SLC28A1	9154	broad.mit.edu	37	15	85488371	85488371	+	Missense_Mutation	SNP	C	A	A			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:85488371C>A	uc002blg.2	+	19	2092	c.1890C>A	c.(1888-1890)TTC>TTA	p.F630L	SLC28A1_uc010bnb.2_Missense_Mutation_p.F630L|SLC28A1_uc010upe.1_Missense_Mutation_p.F464L|SLC28A1_uc010upf.1_Intron|SLC28A1_uc010upg.1_Intron	NM_004213	NP_004204	O00337	S28A1_HUMAN	solute carrier family 28, member 1 isoform 1	630					nucleobase, nucleoside and nucleotide metabolic process	integral to plasma membrane|membrane fraction	nucleoside binding			skin(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(143;0.0587)			ATCCAGAGTTCAGCCCAGAGG	0.557													39	112	---	---	---	---	PASS
TMEM8A	58986	broad.mit.edu	37	16	425200	425200	+	Missense_Mutation	SNP	T	A	A			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:425200T>A	uc002cgu.3	-	8	1501	c.1372A>T	c.(1372-1374)ATC>TTC	p.I458F	TMEM8A_uc002cgv.3_Missense_Mutation_p.I265F	NM_021259	NP_067082	Q9HCN3	TMM8A_HUMAN	transmembrane protein 8 (five membrane-spanning	458	Extracellular (Potential).				cell adhesion	integral to plasma membrane				central_nervous_system(2)|pancreas(1)	3						TAGGGGATGATGAGGTTGGCC	0.627													54	64	---	---	---	---	PASS
CRAMP1L	57585	broad.mit.edu	37	16	1682305	1682305	+	Missense_Mutation	SNP	G	C	C			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:1682305G>C	uc010uvh.1	+	3	633	c.633G>C	c.(631-633)CAG>CAC	p.Q211H	CRAMP1L_uc002cmf.2_RNA	NM_020825	NP_065876	Q96RY5	CRML_HUMAN	Crm, cramped-like	211	SANT.					nucleus	DNA binding				0						ACAAGGAGCAGGTCCGCCACT	0.527													26	50	---	---	---	---	PASS
TRAF7	84231	broad.mit.edu	37	16	2220688	2220688	+	Missense_Mutation	SNP	C	G	G			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:2220688C>G	uc002cow.2	+	5	404	c.305C>G	c.(304-306)TCT>TGT	p.S102C		NM_032271	NP_115647	Q6Q0C0	TRAF7_HUMAN	TNF receptor-associated factor 7	102					activation of MAPKKK activity|apoptosis|regulation of apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic membrane-bounded vesicle|ubiquitin ligase complex	identical protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3						TCCAGCATGTCTCTGCGCTCC	0.687													5	27	---	---	---	---	PASS
BTBD12	84464	broad.mit.edu	37	16	3639200	3639200	+	Missense_Mutation	SNP	C	T	T			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:3639200C>T	uc002cvp.2	-	12	5066	c.4439G>A	c.(4438-4440)GGA>GAA	p.G1480E		NM_032444	NP_115820	Q8IY92	SLX4_HUMAN	BTB (POZ) domain containing 12	1480	Interaction with MUS81.|Interaction with PLK1 and TERF2-TERF2IP.				DNA double-strand break processing involved in repair via single-strand annealing|double-strand break repair via homologous recombination|nucleotide-excision repair	Slx1-Slx4 complex	enzyme activator activity|protein binding				0						AGTGCAGCTTCCTCGGATGGG	0.652								Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia				13	13	---	---	---	---	PASS
CREBBP	1387	broad.mit.edu	37	16	3843626	3843626	+	Missense_Mutation	SNP	G	A	A			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:3843626G>A	uc002cvv.2	-	4	1181	c.977C>T	c.(976-978)TCT>TTT	p.S326F	CREBBP_uc002cvw.2_Missense_Mutation_p.S326F	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	326	Interaction with SRCAP.				cellular lipid metabolic process|homeostatic process|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|protein complex assembly|response to hypoxia	cytoplasm|nuclear body	histone acetyltransferase activity|MyoD binding|p53 binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(97)|ovary(14)|lung(6)|skin(6)|breast(2)|NS(1)|pancreas(1)	127		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)		TTGCATCTGAGACTAAAATAA	0.368			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				109	401	---	---	---	---	PASS
ARHGAP17	55114	broad.mit.edu	37	16	24942355	24942355	+	Silent	SNP	G	C	C			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:24942355G>C	uc002dnb.2	-	19	2358	c.2265C>G	c.(2263-2265)CCC>CCG	p.P755P	ARHGAP17_uc002dmx.2_Silent_p.P17P|ARHGAP17_uc002dmw.2_Silent_p.P17P|ARHGAP17_uc002dmy.2_Silent_p.P200P|ARHGAP17_uc002dmz.2_Silent_p.P279P|ARHGAP17_uc002dna.2_Silent_p.P482P|ARHGAP17_uc002dnc.2_Silent_p.P677P|ARHGAP17_uc010vcf.1_Silent_p.P498P|ARHGAP17_uc002dne.1_Silent_p.P17P	NM_001006634	NP_001006635	Q68EM7	RHG17_HUMAN	nadrin isoform 1	755	SH3-binding (Potential).|Pro-rich.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|tight junction	GTPase activator activity|SH3 domain binding				0				GBM - Glioblastoma multiforme(48;0.0407)		TTGGAGTCTGGGGAGGGGTGT	0.617													70	81	---	---	---	---	PASS
LRRC36	55282	broad.mit.edu	37	16	67401361	67401361	+	Splice_Site	SNP	G	T	T			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:67401361G>T	uc002esv.2	+	8	1214	c.1195_splice	c.e8+1	p.D399_splice	LRRC36_uc002esw.2_Intron|LRRC36_uc010ceh.2_Intron|LRRC36_uc002esx.2_Splice_Site_p.D278_splice|LRRC36_uc010vjk.1_Splice_Site_p.D278_splice|LRRC36_uc010vjl.1_Intron|LRRC36_uc002esy.2_Intron	NM_018296	NP_060766	Q1X8D7	LRC36_HUMAN	leucine rich repeat containing 36 isoform 1												0		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0669)|Epithelial(162;0.161)		CTTAGTTCAGGTAACAGCTTC	0.388													9	135	---	---	---	---	PASS
ZDHHC1	29800	broad.mit.edu	37	16	67440199	67440199	+	Missense_Mutation	SNP	C	A	A			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:67440199C>A	uc010vjm.1	-	3	460	c.156G>T	c.(154-156)CAG>CAT	p.Q52H		NM_013304	NP_037436	Q8WTX9	ZDHC1_HUMAN	zinc finger, DHHC-type containing 1	52						integral to membrane	DNA binding|zinc ion binding				0		Ovarian(137;0.223)		UCEC - Uterine corpus endometrioid carcinoma (183;0.0178)|all cancers(182;5.71e-53)|Epithelial(162;4.73e-52)|OV - Ovarian serous cystadenocarcinoma(108;1.53e-29)|Kidney(780;4.37e-05)|BRCA - Breast invasive adenocarcinoma(181;5.8e-05)|GBM - Glioblastoma multiforme(240;0.0022)		AGGCCACAATCTGGAGCGGGT	0.657													10	30	---	---	---	---	PASS
CLEC18B	497190	broad.mit.edu	37	16	74444509	74444509	+	Missense_Mutation	SNP	T	A	A			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:74444509T>A	uc002fct.2	-	10	1336	c.1136A>T	c.(1135-1137)AAG>ATG	p.K379M	CLEC18B_uc002fcu.2_Missense_Mutation_p.K379M|CLEC18B_uc010vmu.1_3'UTR	NM_001011880	NP_001011880	Q6UXF7	CL18B_HUMAN	C-type lectin domain family 18, member B	379	C-type lectin.					extracellular region	sugar binding				0						GAAGGAGTCCTTGGCGGTCTT	0.647													15	165	---	---	---	---	PASS
ATP2C2	9914	broad.mit.edu	37	16	84495420	84495420	+	Splice_Site	SNP	T	C	C			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:84495420T>C	uc002fhx.2	+	25	2669	c.2580_splice	c.e25+2	p.Q860_splice	ATP2C2_uc010chj.2_Splice_Site_p.Q889_splice|ATP2C2_uc002fhy.2_Splice_Site_p.Q877_splice|ATP2C2_uc002fhz.2_Splice_Site_p.Q709_splice|ATP2C2_uc002fia.2_Splice_Site_p.Q171_splice	NM_014861	NP_055676	O75185	AT2C2_HUMAN	ATPase, Ca++ transporting, type 2C, member 2						ATP biosynthetic process	Golgi membrane|integral to membrane	ATP binding|calcium-transporting ATPase activity|metal ion binding|protein binding			breast(1)|central_nervous_system(1)	2						CGCTCTCAGGTGAGACCCGGG	0.607													5	94	---	---	---	---	PASS
MAP1LC3B	81631	broad.mit.edu	37	16	87436808	87436808	+	3'UTR	SNP	G	C	C	rs7865	by1000genomes	TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:87436808G>C	uc002fjx.2	+	4					MAP1LC3B_uc010chs.2_RNA	NM_022818	NP_073729	Q9GZQ8	MLP3B_HUMAN	microtubule-associated proteins 1A/1B light						autophagy	autophagic vacuole membrane|cytoplasmic vesicle|endomembrane system|microtubule	protein binding				0				BRCA - Breast invasive adenocarcinoma(80;0.0249)		CACAGATCATGAAACAGTAGT	0.388													11	58	---	---	---	---	PASS
DNAH9	1770	broad.mit.edu	37	17	11786998	11786998	+	Missense_Mutation	SNP	C	A	A			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:11786998C>A	uc002gne.2	+	56	10970	c.10902C>A	c.(10900-10902)TTC>TTA	p.F3634L	DNAH9_uc010coo.2_Missense_Mutation_p.F2928L|DNAH9_uc002gnf.2_5'UTR|DNAH9_uc010vvh.1_5'Flank	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	3634	AAA 5 (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			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		CTGGGAACTTCCTGGGAGAAA	0.498													84	108	---	---	---	---	PASS
CCDC144NL	339184	broad.mit.edu	37	17	20768623	20768623	+	3'UTR	SNP	A	G	G			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:20768623A>G	uc002gyf.2	-	4						NM_001004306	NP_001004306	Q6NUI1	C144L_HUMAN	coiled-coil domain containing 144 family,												0						CAGTTTAATAAAAGAGTTCAT	0.308													7	182	---	---	---	---	PASS
C17orf75	64149	broad.mit.edu	37	17	30669149	30669149	+	Missense_Mutation	SNP	A	G	G			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:30669149A>G	uc002hhg.2	-	1	41	c.10T>C	c.(10-12)TCT>CCT	p.S4P		NM_022344	NP_071739	Q9HAS0	NJMU_HUMAN	hypothetical protein LOC64149	4					spermatogenesis					ovary(1)	1		Breast(31;0.116)|Ovarian(249;0.182)	BRCA - Breast invasive adenocarcinoma(9;0.239)			TCCTGCAAAGAGGGGAGCATT	0.662													40	46	---	---	---	---	PASS
KRT35	3886	broad.mit.edu	37	17	39637366	39637366	+	5'UTR	SNP	A	T	T			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:39637366A>T	uc002hws.2	-	1						NM_002280	NP_002271	Q92764	KRT35_HUMAN	keratin 35						anatomical structure morphogenesis	intermediate filament	protein binding|structural molecule activity			ovary(1)|skin(1)	2		Breast(137;0.000286)				TGCAACTCAGATGCAATTGAT	0.567													10	25	---	---	---	---	PASS
LRRC37A2	474170	broad.mit.edu	37	17	44626460	44626460	+	Missense_Mutation	SNP	C	A	A			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:44626460C>A	uc002ikn.1	+	9	3958	c.3955C>A	c.(3955-3957)CCC>ACC	p.P1319T	ARL17A_uc002iko.3_Intron|LRRC37A2_uc002ikq.1_Missense_Mutation_p.P280T|LRRC37A2_uc010dax.1_Missense_Mutation_p.P249T	NM_001006607	NP_001006608	A6NM11	L37A2_HUMAN	c114 SLIT-like testicular protein precursor	1319	Extracellular (Potential).					integral to membrane					0		Melanoma(429;0.211)		BRCA - Breast invasive adenocarcinoma(366;0.232)		CCACAGAACACCCAAAGTCAA	0.433													8	434	---	---	---	---	PASS
BRIP1	83990	broad.mit.edu	37	17	59886033	59886033	+	Missense_Mutation	SNP	G	A	A			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:59886033G>A	uc002izk.1	-	7	854	c.713C>T	c.(712-714)ACA>ATA	p.T238I		NM_032043	NP_114432	Q9BX63	FANCJ_HUMAN	BRCA1 interacting protein C-terminal helicase 1	238	Helicase ATP-binding.				DNA damage checkpoint|double-strand break repair|regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding			ovary(1)	1						GGATTTCCCTGTATGATCCTT	0.443			F|N|Mis			AML|leukemia|breast		Direct_reversal_of_damage|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				107	135	---	---	---	---	PASS
BPTF	2186	broad.mit.edu	37	17	65960482	65960482	+	Missense_Mutation	SNP	G	C	C			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:65960482G>C	uc002jgf.2	+	25	8477	c.8416G>C	c.(8416-8418)GAT>CAT	p.D2806H	BPTF_uc002jge.2_Missense_Mutation_p.D2789H|BPTF_uc002jgg.2_Missense_Mutation_p.D521H|BPTF_uc002jgh.2_Missense_Mutation_p.D323H	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	2932					brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			ovary(2)|skin(2)	4	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)			AACAGAGAAGGATTATGAGGG	0.478													78	109	---	---	---	---	PASS
ABCA5	23461	broad.mit.edu	37	17	67298930	67298930	+	Missense_Mutation	SNP	T	G	G			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:67298930T>G	uc002jif.2	-	7	2266	c.1048A>C	c.(1048-1050)AGT>CGT	p.S350R	ABCA5_uc002jie.2_RNA|ABCA5_uc002jig.2_Missense_Mutation_p.S350R|ABCA5_uc002jih.2_Missense_Mutation_p.S350R|ABCA5_uc010dfe.2_Missense_Mutation_p.S350R	NM_018672	NP_061142	Q8WWZ7	ABCA5_HUMAN	ATP-binding cassette, sub-family A , member 5	350					cholesterol efflux|high-density lipoprotein particle remodeling|negative regulation of macrophage derived foam cell differentiation	Golgi membrane|integral to membrane|late endosome membrane|lysosomal membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;3.72e-11)					TTGGGAAAACTTTCTATGAGG	0.343													166	223	---	---	---	---	PASS
TMC8	147138	broad.mit.edu	37	17	76133993	76133993	+	Intron	SNP	A	G	G			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:76133993A>G	uc002jup.2	+						TMC8_uc002juq.2_Intron|TMC8_uc010wtr.1_Intron|TMC8_uc002jur.1_5'UTR	NM_152468	NP_689681	Q8IU68	TMC8_HUMAN	transmembrane channel-like 8							endoplasmic reticulum membrane|integral to membrane					0			BRCA - Breast invasive adenocarcinoma(99;0.00269)|Lung(188;0.0973)|OV - Ovarian serous cystadenocarcinoma(97;0.192)			TCCAGTGTGGAGCCCGGGAGT	0.662									Epidermodysplasia_Verruciformis_Familial_Clustering_of				3	12	---	---	---	---	PASS
METTL4	64863	broad.mit.edu	37	18	2538952	2538952	+	3'UTR	SNP	G	C	C			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:2538952G>C	uc002klh.3	-	9					METTL4_uc010dkj.2_3'UTR	NM_022840	NP_073751	Q8N3J2	METL4_HUMAN	methyltransferase like 4						nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		methyltransferase activity|nucleic acid binding			kidney(1)|skin(1)	2						TAAGGGAAAAGTGGTGAGGAA	0.338													47	74	---	---	---	---	PASS
DSG1	1828	broad.mit.edu	37	18	28914091	28914091	+	Missense_Mutation	SNP	T	G	G			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:28914091T>G	uc002kwp.2	+	8	1143	c.931T>G	c.(931-933)TCT>GCT	p.S311A		NM_001942	NP_001933	Q02413	DSG1_HUMAN	desmoglein 1 preproprotein	311	Extracellular (Potential).|Cadherin 3.				calcium-dependent cell-cell adhesion|cell-cell junction assembly|cellular component disassembly involved in apoptosis|homophilic cell adhesion|protein stabilization	cytosol|desmosome|integral to membrane|internal side of plasma membrane	calcium ion binding|gamma-catenin binding|toxin binding			skin(3)|ovary(2)|central_nervous_system(2)	7			OV - Ovarian serous cystadenocarcinoma(10;0.00559)			TTTCTTTATCTCTGGAAATGA	0.294													7	177	---	---	---	---	PASS
C19orf21	126353	broad.mit.edu	37	19	757468	757468	+	Silent	SNP	C	A	A			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:757468C>A	uc002lpo.2	+	2	605	c.522C>A	c.(520-522)GGC>GGA	p.G174G		NM_173481	NP_775752	Q8IVT2	CS021_HUMAN	hypothetical protein LOC126353	174										upper_aerodigestive_tract(1)	1		Acute lymphoblastic leukemia(61;4.36e-14)|all_hematologic(61;4.84e-09)|Lung NSC(49;0.000145)|all_lung(49;0.000236)|Breast(49;0.0014)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GGACCCCCGGCCCACCTCGGT	0.667													4	10	---	---	---	---	PASS
C19orf62	29086	broad.mit.edu	37	19	17387524	17387524	+	Intron	SNP	T	G	G			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:17387524T>G	uc002nfu.2	+						C19orf62_uc010xpl.1_3'UTR|C19orf62_uc002nfv.2_Intron|C19orf62_uc010ean.2_Intron|C19orf62_uc002nfw.2_Intron	NM_014173	NP_054892	Q9NWV8	BABA1_HUMAN	mediator of Rap80 interactions and targeting 40						chromatin modification|double-strand break repair|G2/M transition DNA damage checkpoint|positive regulation of DNA repair|protein K63-linked deubiquitination|response to ionizing radiation	BRCA1-A complex|BRISC complex|cytoplasm	protein binding			ovary(1)|haematopoietic_and_lymphoid_tissue(1)	2						GAGGCTGGGGTGCCTAGAGGT	0.602													14	68	---	---	---	---	PASS
ZNF607	84775	broad.mit.edu	37	19	38189783	38189783	+	Missense_Mutation	SNP	C	A	A			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:38189783C>A	uc002ohc.1	-	5	1845	c.1249G>T	c.(1249-1251)GGT>TGT	p.G417C	ZNF607_uc002ohb.1_Missense_Mutation_p.G416C	NM_032689	NP_116078	Q96SK3	ZN607_HUMAN	zinc finger protein 607	417					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			UCEC - Uterine corpus endometrioid carcinoma (49;0.0775)			GGTTTCTCACCGGTATGAATA	0.403													4	170	---	---	---	---	PASS
WDR87	83889	broad.mit.edu	37	19	38383368	38383368	+	Missense_Mutation	SNP	T	C	C			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:38383368T>C	uc010efu.2	-	4	3083	c.2858A>G	c.(2857-2859)CAT>CGT	p.H953R	WDR87_uc002ohj.2_Missense_Mutation_p.H992R	NM_031951	NP_114157	Q6ZQQ6	WDR87_HUMAN	NYD-SP11 protein	953											0						GGCAAAAAGATGAGTAATCAT	0.488													84	173	---	---	---	---	PASS
DLL3	10683	broad.mit.edu	37	19	39994761	39994761	+	Missense_Mutation	SNP	G	T	T			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:39994761G>T	uc002olx.2	+	5	761	c.703G>T	c.(703-705)GGT>TGT	p.G235C	DLL3_uc010egq.2_Missense_Mutation_p.G235C|DLL3_uc002olw.2_Missense_Mutation_p.G235C	NM_016941	NP_058637	Q9NYJ7	DLL3_HUMAN	delta-like 3 protein isoform 1 precursor	235	EGF-like 1.|Extracellular (Potential).				Notch signaling pathway|skeletal system development	integral to membrane	Notch binding			central_nervous_system(2)|breast(1)	3	all_cancers(60;4.04e-06)|all_lung(34;1.77e-07)|Lung NSC(34;2.09e-07)|all_epithelial(25;1.13e-05)|Ovarian(47;0.159)		Epithelial(26;5.89e-26)|all cancers(26;1.96e-23)|LUSC - Lung squamous cell carcinoma(53;0.000657)			TGAACAGCCCGGTGAATGCCG	0.647													4	67	---	---	---	---	PASS
SIGLEC10	89790	broad.mit.edu	37	19	51914248	51914248	+	3'UTR	SNP	G	A	A			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:51914248G>A	uc002pwo.2	-	11					SIGLEC10_uc002pwp.2_3'UTR|SIGLEC10_uc002pwq.2_3'UTR|SIGLEC10_uc002pwr.2_3'UTR|SIGLEC10_uc010ycy.1_3'UTR|SIGLEC10_uc010ycz.1_3'UTR|SIGLEC10_uc010eow.2_3'UTR	NM_033130	NP_149121	Q96LC7	SIG10_HUMAN	sialic acid binding Ig-like lectin 10 precursor						cell adhesion	extracellular region|integral to membrane|plasma membrane	sugar binding			skin(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000668)|OV - Ovarian serous cystadenocarcinoma(262;0.0101)		gagagagaaagagagagagag	0.199													3	30	---	---	---	---	PASS
LILRA6	79168	broad.mit.edu	37	19	54744308	54744308	+	Missense_Mutation	SNP	C	T	T			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:54744308C>T	uc002qeu.1	-	6	1224	c.1100G>A	c.(1099-1101)CGT>CAT	p.R367H	LILRB3_uc002qeh.1_Intron|LILRB3_uc002qeg.1_Intron|LILRB3_uc002qei.1_Intron|LILRA6_uc002qek.1_Missense_Mutation_p.R367H|LILRB3_uc010erh.1_Intron|LILRB3_uc002qej.1_Intron|LILRA6_uc002qel.1_Missense_Mutation_p.R367H|LILRA6_uc002qem.1_RNA|LILRB3_uc002qen.1_RNA|LILRB3_uc002qeo.1_Intron|LILRB3_uc002qep.1_Intron|LILRB3_uc002qeq.1_Intron|LILRB3_uc002qer.1_Intron|LILRB3_uc002qes.1_Intron|LILRA6_uc010yep.1_Missense_Mutation_p.R367H|LILRA6_uc010yeq.1_Missense_Mutation_p.R367H|LILRA6_uc002qet.3_RNA|LILRA6_uc002qev.1_Missense_Mutation_p.R228H	NM_024318	NP_077294	Q6PI73	LIRA6_HUMAN	leukocyte immunoglobulin-like receptor,	367	Extracellular (Potential).|Ig-like C2-type 2.					integral to membrane	receptor activity			skin(2)	2	all_cancers(19;0.00723)|all_epithelial(19;0.00389)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		TGATCTCAGACGCAGTGGGGG	0.557													44	142	---	---	---	---	PASS
ACSS2	55902	broad.mit.edu	37	20	33501198	33501198	+	Missense_Mutation	SNP	A	G	G			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:33501198A>G	uc002xbd.2	+	4	590	c.469A>G	c.(469-471)ATT>GTT	p.I157V	ACSS2_uc002xbc.2_Missense_Mutation_p.I62V|ACSS2_uc010zum.1_Intron|ACSS2_uc010gey.2_Missense_Mutation_p.I157V|ACSS2_uc002xbe.2_Intron|ACSS2_uc002xbf.2_Intron	NM_018677	NP_061147	Q9NR19	ACSA_HUMAN	acyl-CoA synthetase short-chain family member 2	157					ethanol oxidation|lipid biosynthetic process|xenobiotic metabolic process	cytosol|nucleus	acetate-CoA ligase activity|ATP binding|protein binding				0					Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	ACCTGCAGGCATTCAGAAGGG	0.552													34	111	---	---	---	---	PASS
ACTR5	79913	broad.mit.edu	37	20	37396132	37396132	+	Missense_Mutation	SNP	C	A	A			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:37396132C>A	uc002xjd.2	+	8	1484	c.1459C>A	c.(1459-1461)CTG>ATG	p.L487M		NM_024855	NP_079131	Q9H9F9	ARP5_HUMAN	ARP5 actin-related protein 5 homolog	487					DNA recombination|double-strand break repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent|UV-damage excision repair	cytoplasm|Ino80 complex	ATP binding|protein binding				0		Myeloproliferative disorder(115;0.00878)				TCAGGAAATGCTGGTTCAGAA	0.448													49	194	---	---	---	---	PASS
IFT52	51098	broad.mit.edu	37	20	42242550	42242550	+	Silent	SNP	G	A	A			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:42242550G>A	uc002xkw.2	+	7	668	c.546G>A	c.(544-546)GCG>GCA	p.A182A	IFT52_uc010zwi.1_RNA|IFT52_uc002xky.2_Silent_p.A182A|IFT52_uc002xkx.2_RNA|IFT52_uc010ggn.2_Silent_p.A158A|IFT52_uc002xkz.2_Silent_p.A182A	NM_016004	NP_057088	Q9Y366	IFT52_HUMAN	intraflagellar transport 52 homolog	182						intraflagellar transport particle B|microtubule-based flagellum	protein C-terminus binding			ovary(2)	2		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			CAGCAGTGGCGGTTCTGTCTA	0.393													5	375	---	---	---	---	PASS
TCEA2	6919	broad.mit.edu	37	20	62698282	62698282	+	Silent	SNP	G	C	C			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:62698282G>C	uc011abs.1	+	3	806	c.150G>C	c.(148-150)GGG>GGC	p.G50G	TCEA2_uc011abr.1_Silent_p.G23G|TCEA2_uc010gkq.2_Silent_p.G23G|TCEA2_uc010gks.2_Silent_p.G50G|TCEA2_uc010gkt.2_Silent_p.G23G|TCEA2_uc010gku.1_Silent_p.G23G	NM_003195	NP_003186	Q15560	TCEA2_HUMAN	transcription elongation factor A protein 2	50	TFIIS N-terminal.				regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription elongation, DNA-dependent	transcription elongation factor complex	DNA binding|protein binding|translation elongation factor activity|zinc ion binding				0	all_cancers(38;3.45e-11)|all_epithelial(29;9.12e-13)|Lung NSC(23;2e-09)|all_lung(23;6.77e-09)					CCCGAGTCGGGATGTCTGTCA	0.622													46	38	---	---	---	---	PASS
SYNJ1	8867	broad.mit.edu	37	21	34042650	34042650	+	Missense_Mutation	SNP	T	C	C			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:34042650T>C	uc002yqh.2	-	15	1876	c.1876A>G	c.(1876-1878)ATT>GTT	p.I626V	SYNJ1_uc011ads.1_Missense_Mutation_p.I582V|SYNJ1_uc002yqf.2_Missense_Mutation_p.I587V|SYNJ1_uc002yqg.2_Missense_Mutation_p.I582V|SYNJ1_uc002yqi.2_Missense_Mutation_p.I626V	NM_003895	NP_003886	O43426	SYNJ1_HUMAN	synaptojanin 1 isoform a	587	Catalytic (Potential).						inositol-polyphosphate 5-phosphatase activity|nucleotide binding|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|RNA binding			ovary(4)|skin(1)	5						TCAAAACCAATTGCAAATATA	0.353													99	311	---	---	---	---	PASS
PCNT	5116	broad.mit.edu	37	21	47783470	47783470	+	Missense_Mutation	SNP	G	A	A			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:47783470G>A	uc002zji.3	+	14	2337	c.2230G>A	c.(2230-2232)GAA>AAA	p.E744K	PCNT_uc002zjj.2_Missense_Mutation_p.E626K	NM_006031	NP_006022	O95613	PCNT_HUMAN	pericentrin	744	Glu-rich.|Potential.				cilium assembly|G2/M transition of mitotic cell cycle	cytosol|microtubule	calmodulin binding			ovary(4)|breast(2)|pancreas(2)	8	Breast(49;0.112)					GATGAAACAGGAATTCCAAAG	0.378													91	253	---	---	---	---	PASS
SMC1B	27127	broad.mit.edu	37	22	45740382	45740382	+	3'UTR	SNP	G	C	C			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:45740382G>C	uc003bgc.2	-	25					SMC1B_uc003bgd.2_3'UTR	NM_148674	NP_683515	Q8NDV3	SMC1B_HUMAN	SMC1 structural maintenance of chromosomes						chromosome organization|meiosis	chromosome, centromeric region|cytoplasm|meiotic cohesin complex|nucleus	ATP binding			ovary(2)	2		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)		GAGGAGCTGTGTGAGTATTAG	0.542													26	69	---	---	---	---	PASS
HUWE1	10075	broad.mit.edu	37	X	53579648	53579648	+	Missense_Mutation	SNP	G	T	T			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:53579648G>T	uc004dsp.2	-	62	9103	c.8701C>A	c.(8701-8703)CAA>AAA	p.Q2901K	HUWE1_uc004dsn.2_Missense_Mutation_p.Q1725K	NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	2901					base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						CTCCTGCCTTGCACTTCCGCC	0.582													13	14	---	---	---	---	PASS
MAGEA10	4109	broad.mit.edu	37	X	151303310	151303310	+	Missense_Mutation	SNP	G	T	T			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:151303310G>T	uc004ffk.2	-	5	1191	c.783C>A	c.(781-783)CAC>CAA	p.H261Q	MAGEA10_uc004ffl.2_Missense_Mutation_p.H261Q	NM_001011543	NP_001011543	P43363	MAGAA_HUMAN	melanoma antigen family A, 10	261	MAGE.										0	Acute lymphoblastic leukemia(192;6.56e-05)					CATAAATGAGGTGCTCCATCC	0.532													27	30	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	M	3047	3047	+	5'Flank	SNP	G	A	A			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrM:3047G>A	uc004coq.3	-						uc004cos.3_RNA|uc011mfh.1_5'Flank					Homo sapiens cDNA: FLJ22857 fis, clone KAT01615.																		CGTTTGTTCAACGATTAAAGT	0.433													8	647	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	M	3091	3091	+	5'Flank	SNP	G	A	A			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrM:3091G>A	uc004coq.3	-						uc004cos.3_RNA|uc011mfh.1_5'Flank					Homo sapiens cDNA: FLJ22857 fis, clone KAT01615.																		GGAGTAATCCAGGTCGGTTTC	0.453													7	693	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	M	7072	7072	+	Silent	SNP	T	C	C			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrM:7072T>C	uc011mfh.1	+	1	1219	c.171T>C	c.(169-171)CAT>CAC	p.H57H	uc004cou.3_5'Flank|uc011mfi.1_5'Flank					Homo sapiens cDNA: FLJ22894 fis, clone KAT04907.																		ATTTGCCATCATAGGAGGCTT	0.423													95	542	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	M	14120	14120	+	RNA	SNP	T	C	C			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrM:14120T>C	uc004cox.3	+	1		c.1784T>C			uc004coy.2_5'Flank|uc004coz.1_5'Flank					Homo sapiens NADH dehydrogenase subunit 5 (MTND5) mRNA, RNA 5, complete cds; mitochondrial gene for mitochondrial product.																		CTTCTTCCCACTCATCCTAAC	0.383													12	802	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	M	14423	14423	+	RNA	SNP	G	A	A			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrM:14423G>A	uc004cox.3	+	1		c.2087G>A			uc004coy.2_5'Flank|uc004coz.1_5'Flank					Homo sapiens NADH dehydrogenase subunit 5 (MTND5) mRNA, RNA 5, complete cds; mitochondrial gene for mitochondrial product.																		CCTCAACCCCTGACCCCCATG	0.453													51	737	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	1	2573944	2573944	+	IGR	DEL	C	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:2573944delC								MMEL1 (9463 upstream) : ACTRT2 (364102 downstream)																							GGCCTGCCTGCCCCCCCCACT	0.657													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	16944723	16944724	+	IGR	INS	-	A	A	rs113639333		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:16944723_16944724insA								NBPF1 (4741 upstream) : CROCCL1 (29 downstream)																							CCCACACAGGCAAGGACAGCAG	0.500													3	5	---	---	---	---	
EIF4G3	8672	broad.mit.edu	37	1	21306670	21306670	+	Intron	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:21306670delA	uc001bec.2	-						EIF4G3_uc010odj.1_Intron|EIF4G3_uc009vpz.2_Intron|EIF4G3_uc001bed.2_Intron|EIF4G3_uc001bef.2_Intron|EIF4G3_uc001bee.2_Intron|EIF4G3_uc001beg.2_Intron|EIF4G3_uc010odk.1_Intron|EIF4G3_uc001beh.2_Intron	NM_003760	NP_003751	O43432	IF4G3_HUMAN	eukaryotic translation initiation factor 4						interspecies interaction between organisms|regulation of translational initiation|RNA metabolic process	eukaryotic translation initiation factor 4F complex	protein binding|RNA cap binding|translation initiation factor activity			skin(1)	1		all_lung(284;2.61e-06)|Lung NSC(340;2.81e-06)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00149)|Ovarian(437;0.00338)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.023)|COAD - Colon adenocarcinoma(152;5.42e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000327)|GBM - Glioblastoma multiforme(114;0.000696)|Kidney(64;0.0018)|STAD - Stomach adenocarcinoma(196;0.00644)|KIRC - Kidney renal clear cell carcinoma(64;0.0185)|READ - Rectum adenocarcinoma(331;0.124)|Lung(427;0.191)		tttctggaagaaaaaaaaaaa	0.159													6	3	---	---	---	---	
ALPL	249	broad.mit.edu	37	1	21856899	21856899	+	Intron	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:21856899delA	uc001bet.2	+						ALPL_uc010odn.1_Intron|ALPL_uc010odo.1_Intron|ALPL_uc010odp.1_Intron	NM_000478	NP_000469	P05186	PPBT_HUMAN	tissue-nonspecific alkaline phosphatase						response to vitamin D|skeletal system development	anchored to membrane|cytoplasm|integral to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5		all_lung(284;2.19e-05)|Lung NSC(340;2.22e-05)|Colorectal(325;3.46e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0192)|OV - Ovarian serous cystadenocarcinoma(117;8.7e-28)|COAD - Colon adenocarcinoma(152;1.57e-05)|GBM - Glioblastoma multiforme(114;2.66e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000177)|STAD - Stomach adenocarcinoma(196;0.00645)|KIRC - Kidney renal clear cell carcinoma(1967;0.00856)|READ - Rectum adenocarcinoma(331;0.0623)|Lung(427;0.146)	Amifostine(DB01143)	TCCGTGGGGGATTTCAGCTAT	0.463													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	23004852	23004853	+	IGR	INS	-	AAAT	AAAT			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:23004852_23004853insAAAT								C1QB (16824 upstream) : EPHB2 (32478 downstream)																							tgcacacacacacatacactca	0.158													3	4	---	---	---	---	
GPN2	54707	broad.mit.edu	37	1	27215784	27215784	+	Intron	DEL	C	-	-	rs910048	by1000genomes	TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:27215784delC	uc001bnd.1	-							NM_018066	NP_060536	Q9H9Y4	GPN2_HUMAN	ATP binding domain 1 family, member B								GTP binding				0						TAGGAGTCATCTTTTTTTTCT	0.443													9	4	---	---	---	---	
CSMD2	114784	broad.mit.edu	37	1	34046718	34046719	+	Intron	INS	-	G	G	rs147236200	by1000genomes	TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:34046718_34046719insG	uc001bxn.1	-						CSMD2_uc001bxm.1_Intron	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2							integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				GCCTACCTCTAGGGGCTGGCAG	0.480													4	2	---	---	---	---	
RIMS3	9783	broad.mit.edu	37	1	41120412	41120413	+	Intron	DEL	AC	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:41120412_41120413delAC	uc001cfu.1	-						RIMS3_uc001cfv.1_Intron	NM_014747	NP_055562	Q9UJD0	RIMS3_HUMAN	regulating synaptic membrane exocytosis 3						neurotransmitter transport	cell junction|synapse					0	Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1.47e-17)			ttcaccacagacacacacacac	0.139													4	2	---	---	---	---	
NFYC	4802	broad.mit.edu	37	1	41224238	41224238	+	Intron	DEL	A	-	-	rs147572709	by1000genomes	TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:41224238delA	uc001cge.2	+						NFYC_uc010ojm.1_Intron|NFYC_uc001cfx.3_Intron|NFYC_uc009vwd.2_Intron|NFYC_uc001cfz.2_Intron|NFYC_uc010ojn.1_Intron|NFYC_uc001cfy.3_Intron|NFYC_uc001cgc.2_Intron|NFYC_uc001cgb.2_Intron|NFYC_uc001cgd.3_Intron	NM_001142588	NP_001136060	Q13952	NFYC_HUMAN	nuclear transcription factor Y, gamma isoform 1						protein folding|regulation of transcription from RNA polymerase II promoter	CCAAT-binding factor complex	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			breast(2)|kidney(1)	3	Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1.72e-17)			tttaGAAGGGAAAAAAAAATG	0.229													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	48481692	48481692	+	IGR	DEL	G	-	-	rs112842231		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:48481692delG								FOXD2 (575330 upstream) : SKINTL (85695 downstream)																							gtgtctctgtggctctctgtt	0.000													3	3	---	---	---	---	
SLC5A9	200010	broad.mit.edu	37	1	48691508	48691508	+	Intron	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:48691508delA	uc001cro.2	+						SLC5A9_uc010oms.1_Intron|SLC5A9_uc001crn.2_Intron|SLC5A9_uc010omt.1_Intron|SLC5A9_uc001crp.2_Intron|SLC5A9_uc010omu.1_Intron	NM_001011547	NP_001011547	Q2M3M2	SC5A9_HUMAN	solute carrier family 5 (sodium/glucose							integral to membrane|plasma membrane	low-affinity glucose:sodium symporter activity			ovary(3)	3						atgcagtctcacactcatgct	0.114													4	2	---	---	---	---	
BSND	7809	broad.mit.edu	37	1	55465191	55465192	+	Intron	INS	-	CCAT	CCAT			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:55465191_55465192insCCAT	uc001cye.2	+							NM_057176	NP_476517	Q8WZ55	BSND_HUMAN	barttin							basolateral plasma membrane|cytoplasm|integral to plasma membrane|protein complex				ovary(1)|skin(1)	2						GAGCGTCTGTCccatccatcca	0.411													4	2	---	---	---	---	
DAB1	1600	broad.mit.edu	37	1	57769344	57769345	+	Intron	INS	-	A	A	rs149398650	by1000genomes	TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:57769344_57769345insA	uc001cys.1	-						DAB1_uc001cyt.1_Intron|DAB1_uc009vzw.1_Intron|DAB1_uc009vzx.1_Intron	NM_021080	NP_066566	O75553	DAB1_HUMAN	disabled homolog 1						cell differentiation|nervous system development					skin(2)|ovary(1)	3						AACAAACAAACAAAAAAAAACA	0.287													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	60725889	60725890	+	IGR	INS	-	C	C			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:60725889_60725890insC								C1orf87 (186463 upstream) : NFIA (817056 downstream)																							tcagacaagagcacaagggcat	0.000													0	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	61258352	61258352	+	Intron	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:61258352delT	uc001czt.1	-											Homo sapiens cDNA FLJ39874 fis, clone SPLEN2015815.																		GAACTTCTTATTTTTTCTCTG	0.418													4	2	---	---	---	---	
COL24A1	255631	broad.mit.edu	37	1	86623289	86623290	+	5'Flank	DEL	TC	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:86623289_86623290delTC	uc001dlj.2	-						COL24A1_uc010osd.1_5'Flank|COL24A1_uc001dlk.2_5'Flank|COL24A1_uc010ose.1_5'Flank|COL24A1_uc010osf.1_5'Flank|COL24A1_uc009wcq.2_5'Flank	NM_152890	NP_690850	Q17RW2	COOA1_HUMAN	collagen, type XXIV, alpha 1 precursor						cell adhesion	collagen	extracellular matrix structural constituent			ovary(3)|central_nervous_system(1)|skin(1)	5				all cancers(265;0.0627)|Epithelial(280;0.0689)		AGTCACACAGTCTCTCTCTCTC	0.421													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	104386137	104386138	+	IGR	INS	-	T	T	rs139321865	by1000genomes	TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:104386137_104386138insT								AMY1A (178965 upstream) : None (None downstream)																							tgacataatagtttttttctct	0.000													5	3	---	---	---	---	
DENND2D	79961	broad.mit.edu	37	1	111736167	111736167	+	Intron	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:111736167delT	uc001eak.1	-						DENND2D_uc001eal.1_Intron	NM_024901	NP_079177	Q9H6A0	DEN2D_HUMAN	DENN/MADD domain containing 2D											ovary(1)	1		all_cancers(81;0.00198)|all_epithelial(167;0.000686)|all_lung(203;0.00318)|Lung NSC(277;0.00499)		Lung(183;0.0162)|Colorectal(144;0.069)|all cancers(265;0.0757)|LUSC - Lung squamous cell carcinoma(189;0.0845)|Epithelial(280;0.114)|COAD - Colon adenocarcinoma(174;0.14)		TTATCACCCATTTTTACAGAA	0.463													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	142876049	142876049	+	Intron	DEL	C	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:142876049delC	uc001eiw.1	+						uc001ejb.2_Intron|uc001ejd.1_Intron					Homo sapiens PNAS-130 mRNA, complete cds.																		gagggaaaatccatctcaaaa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	143498965	143498966	+	IGR	INS	-	A	A	rs150357771	by1000genomes	TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:143498965_143498966insA								None (None upstream) : LOC100286793 (148673 downstream)																							tatttttttttaaagatgacta	0.000													2	4	---	---	---	---	
NBPF10	100132406	broad.mit.edu	37	1	145439219	145439219	+	Intron	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:145439219delA	uc001emp.3	+						TXNIP_uc001enn.3_Intron|TXNIP_uc001enm.1_Intron|TXNIP_uc010oys.1_5'Flank	NM_017940	NP_060410	A6NDV3	A6NDV3_HUMAN	hypothetical protein LOC55672												0	all_hematologic(923;0.032)			Colorectal(1306;1.36e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00258)		CTCCCCCCCCAAAAAAAAGGG	0.408													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	161394539	161394540	+	IGR	INS	-	T	T	rs144043466	by1000genomes	TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:161394539_161394540insT								C1orf192 (56875 upstream) : FCGR2A (80665 downstream)																							AGGCCTTGCTCTGTTTCCTGGA	0.327													2	4	---	---	---	---	
PBX1	5087	broad.mit.edu	37	1	164614311	164614311	+	Intron	DEL	C	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:164614311delC	uc001gct.2	+						PBX1_uc010pku.1_Intron|PBX1_uc010pkv.1_Intron|PBX1_uc001gcs.2_Intron|PBX1_uc010pkw.1_Intron|uc001gcu.1_Intron	NM_002585	NP_002576	P40424	PBX1_HUMAN	pre-B-cell leukemia homeobox 1						negative regulation of sequence-specific DNA binding transcription factor activity|sex differentiation|steroid biosynthetic process	cytoplasm|nucleus	sequence-specific DNA binding transcription factor activity|transcription factor binding		EWSR1/PBX1(3)	soft_tissue(3)|lung(1)|skin(1)	5						TTAATATGAGCAGAGACATAA	0.443			T	TCF3|EWSR1	pre B-ALL|myoepithelioma								4	2	---	---	---	---	
UCK2	7371	broad.mit.edu	37	1	165877195	165877195	+	3'UTR	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:165877195delT	uc001gdp.2	+	7					UCK2_uc010plb.1_3'UTR	NM_012474	NP_036606	Q9BZX2	UCK2_HUMAN	uridine-cytidine kinase 2						pyrimidine base metabolic process|pyrimidine nucleoside salvage	cytosol	ATP binding|phosphotransferase activity, alcohol group as acceptor|uridine kinase activity			ovary(1)	1	all_hematologic(923;0.048)|Acute lymphoblastic leukemia(8;0.155)					ATGCCTTTGATTTTTTTTTTC	0.383													3	3	---	---	---	---	
DNM3	26052	broad.mit.edu	37	1	172154159	172154159	+	Intron	DEL	A	-	-	rs34385291		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:172154159delA	uc001gie.2	+						DNM3_uc009wwb.2_Intron|DNM3_uc001gif.2_Intron	NM_015569	NP_056384	Q9UQ16	DYN3_HUMAN	dynamin 3 isoform a						endocytosis|filopodium assembly|synapse assembly	dendritic spine|microtubule|perinuclear region of cytoplasm|postsynaptic density	GTP binding|GTPase activity|protein binding			breast(1)	1						AGTGATTTGGAAAAAAAAAGG	0.393													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	182136192	182136193	+	IGR	INS	-	A	A			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:182136192_182136193insA								ZNF648 (105345 upstream) : GLUL (215476 downstream)																							ATAAAAAAAGGAAAAAAAAAAA	0.366													3	3	---	---	---	---	
DENND1B	163486	broad.mit.edu	37	1	197590346	197590347	+	Intron	DEL	TT	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:197590346_197590347delTT	uc001guf.3	-						DENND1B_uc010ppe.1_Intron|DENND1B_uc010ppf.1_Intron|DENND1B_uc001gue.3_Intron|DENND1B_uc001gug.3_Intron	NM_144977	NP_659414	Q6P3S1	DEN1B_HUMAN	DENN/MADD domain containing 1B isoform 2							clathrin-coated vesicle|cytosol	guanyl-nucleotide exchange factor activity				0						ctcgatgacatTTTTACATACC	0.119													4	2	---	---	---	---	
ETNK2	55224	broad.mit.edu	37	1	204119116	204119132	+	Intron	DEL	GGGTGGGTGGGTGGGGC	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:204119116_204119132delGGGTGGGTGGGTGGGGC	uc001hao.3	-						ETNK2_uc001han.3_Intron|ETNK2_uc010pqs.1_Intron|ETNK2_uc010pqt.1_Intron	NM_018208	NP_060678	Q9NVF9	EKI2_HUMAN	ethanolamine kinase 2								ATP binding|choline kinase activity|ethanolamine kinase activity			ovary(1)|central_nervous_system(1)	2	all_cancers(21;0.032)|Breast(84;0.116)|all_epithelial(62;0.196)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.109)			GACAGTGCGTGGGTGGGTGGGTGGGGCAGGATCTCTC	0.608													19	19	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	229284803	229284804	+	IGR	DEL	CA	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:229284803_229284804delCA								RHOU (402394 upstream) : RAB4A (122075 downstream)																							cacacagcatcacacacagtat	0.000													4	2	---	---	---	---	
C1orf57	84284	broad.mit.edu	37	1	233107985	233107985	+	Intron	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:233107985delT	uc001hvj.1	+						C1orf57_uc001hvi.2_Intron|C1orf57_uc009xft.1_Intron	NM_032324	NP_115700	Q9BSD7	NTPCR_HUMAN	nucleoside-triphosphatase C1orf57								ATP binding|nucleoside-triphosphatase activity|nucleotide phosphatase activity|transferase activity				0		all_cancers(173;0.0818)|Prostate(94;0.137)				ACATACCCTGTTTTTTTTTGT	0.318													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	243270552	243270552	+	IGR	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:243270552delA								PLD5 (582554 upstream) : CEP170 (17179 downstream)																							GATCCCAGGTATCCAGAAACA	0.428													4	3	---	---	---	---	
ZNF670	93474	broad.mit.edu	37	1	247207552	247207552	+	Intron	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:247207552delA	uc001icd.1	-						ZNF695_uc001ica.2_Intron|ZNF695_uc001icb.1_Intron	NM_033213	NP_149990	Q9BS34	ZN670_HUMAN	zinc finger protein 670						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	all_cancers(71;4.01e-05)|all_epithelial(71;6.72e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0458)|Lung NSC(105;0.0518)	all_cancers(173;0.0266)	OV - Ovarian serous cystadenocarcinoma(106;0.00427)			AAATAATTGGAAAAAAAAAAC	0.239													4	2	---	---	---	---	
COLEC11	78989	broad.mit.edu	37	2	3644673	3644673	+	Intron	DEL	C	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:3644673delC	uc002qya.2	+						COLEC11_uc002qxz.2_Intron|COLEC11_uc002qyb.2_Intron|COLEC11_uc002qyc.2_Intron|COLEC11_uc010ewo.2_Intron	NM_024027	NP_076932	Q9BWP8	COL11_HUMAN	collectin sub-family member 11 isoform a							collagen	mannose binding				0	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.093)			OV - Ovarian serous cystadenocarcinoma(76;0.127)		CATGAGAAATCCCAGCCTGGG	0.572													4	2	---	---	---	---	
NOL10	79954	broad.mit.edu	37	2	10811508	10811508	+	Intron	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:10811508delT	uc002raq.2	-						NOL10_uc010yje.1_Intron|NOL10_uc010yjf.1_Intron|NOL10_uc002rap.2_Intron|NOL10_uc002rar.2_Intron	NM_024894	NP_079170	Q9BSC4	NOL10_HUMAN	nucleolar protein 10							nucleolus					0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			Epithelial(75;0.172)|OV - Ovarian serous cystadenocarcinoma(76;0.207)		GAAAATAGAATTTTTTGCCTA	0.234													18	8	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	19080686	19080686	+	IGR	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:19080686delA								NT5C1B (309848 upstream) : OSR1 (470561 downstream)																							ACCATTTCCCAAGActctgca	0.045													2	7	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	24743845	24743845	+	IGR	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:24743845delT								ITSN2 (160448 upstream) : NCOA1 (43334 downstream)																							ttgctttagcttttttttttt	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	26218146	26218146	+	IGR	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:26218146delA								KIF3C (12703 upstream) : RAB10 (38583 downstream)																							TGCAATCTGCAAAAAAAAAGA	0.249													4	2	---	---	---	---	
PSME4	23198	broad.mit.edu	37	2	54163724	54163725	+	Intron	INS	-	AAATA	AAATA	rs146083561	by1000genomes	TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:54163724_54163725insAAATA	uc002rxp.2	-						PSME4_uc010yop.1_Intron|PSME4_uc010yoq.1_Intron|PSME4_uc010fbu.1_Intron|PSME4_uc010fbv.1_Intron	NM_014614	NP_055429	Q14997	PSME4_HUMAN	proteasome (prosome, macropain) activator						anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|cell differentiation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|M/G1 transition of mitotic cell cycle|mRNA metabolic process|multicellular organismal development|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|spermatogenesis|viral reproduction	nuclear speck|proteasome complex	binding			ovary(2)|breast(2)|pancreas(1)	5			Lung(47;0.125)|LUSC - Lung squamous cell carcinoma(58;0.181)			TAGAATACAACAAATAATATAA	0.267													5	5	---	---	---	---	
VRK2	7444	broad.mit.edu	37	2	58350342	58350342	+	Frame_Shift_Del	DEL	C	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:58350342delC	uc002rzo.2	+	11	1395	c.650delC	c.(649-651)ACCfs	p.T217fs	VRK2_uc010fcb.2_Frame_Shift_Del_p.T217fs|VRK2_uc002rzs.2_Frame_Shift_Del_p.T217fs|VRK2_uc002rzr.2_Frame_Shift_Del_p.T217fs|VRK2_uc010fcc.2_Frame_Shift_Del_p.T99fs|VRK2_uc002rzv.2_Frame_Shift_Del_p.T217fs|VRK2_uc010fcd.2_Frame_Shift_Del_p.T194fs|VRK2_uc002rzp.2_Frame_Shift_Del_p.T217fs|VRK2_uc010ypg.1_Frame_Shift_Del_p.T217fs|VRK2_uc002rzq.2_Frame_Shift_Del_p.T217fs|VRK2_uc002rzu.2_Frame_Shift_Del_p.T217fs|VRK2_uc002rzt.2_Frame_Shift_Del_p.T99fs|VRK2_uc010yph.1_Frame_Shift_Del_p.T99fs	NM_001130482	NP_001123954	Q86Y07	VRK2_HUMAN	vaccinia related kinase 2 isoform 2	217	Protein kinase.					integral to membrane	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(1)	1						ATAGAGTTTACCAGCTTGGAT	0.393													174	88	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	60229456	60229456	+	IGR	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:60229456delA								None (None upstream) : BCL11A (448847 downstream)																							AGACTAGAGCAAGGGCTCCAA	0.468													4	2	---	---	---	---	
HSPC159	29094	broad.mit.edu	37	2	64686008	64686008	+	3'UTR	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:64686008delT	uc002scy.3	+	5						NM_014181	NP_054900	Q3ZCW2	LEGL_HUMAN	galectin-related protein							intracellular	sugar binding				0						AAGGTTTGACtttttttttgt	0.259													4	2	---	---	---	---	
HK2	3099	broad.mit.edu	37	2	75081182	75081182	+	Intron	DEL	C	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:75081182delC	uc002snd.2	+							NM_000189	NP_000180	P52789	HXK2_HUMAN	hexokinase 2						apoptotic mitochondrial changes|glucose transport|glycolysis|transmembrane transport	cytosol|mitochondrial outer membrane	ATP binding|glucokinase activity			ovary(1)|lung(1)	2						ATAGGCCTTTCCTCAGGTATG	0.378													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	91765298	91765299	+	IGR	INS	-	A	A	rs142746952		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:91765298_91765299insA								None (None upstream) : LOC654342 (39893 downstream)																							gctcactgaggaaaaaaaatct	0.040													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	91771100	91771102	+	IGR	DEL	AGA	-	-	rs148733415		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:91771100_91771102delAGA								None (None upstream) : LOC654342 (34090 downstream)																							catgacttatagaagaagtgtct	0.015													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	96230567	96230567	+	IGR	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:96230567delA								FAHD2A (151689 upstream) : TRIM43 (27199 downstream)																							AGTACATTATAaaaaaaaaac	0.149													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	103180295	103180295	+	IGR	DEL	C	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:103180295delC								SLC9A4 (29865 upstream) : SLC9A2 (55871 downstream)																							ATGGAACATACAAGCATCCAT	0.269													2	4	---	---	---	---	
GPR45	11250	broad.mit.edu	37	2	105859901	105859901	+	3'UTR	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:105859901delT	uc002tco.1	+	1						NM_007227	NP_009158	Q9Y5Y3	GPR45_HUMAN	G protein-coupled receptor 45							integral to membrane|plasma membrane	G-protein coupled receptor activity|protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3						ACCAGGGTTCTTCAGCTATTG	0.468													7	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	106541199	106541199	+	IGR	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:106541199delA								NCK2 (30473 upstream) : C2orf40 (140914 downstream)																							agcggaggggaaacctgattg	0.000													4	2	---	---	---	---	
SAP130	79595	broad.mit.edu	37	2	128772876	128772876	+	Intron	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:128772876delT	uc002tpp.2	-						SAP130_uc002tpn.2_5'Flank|SAP130_uc002tpo.2_5'Flank|SAP130_uc010fmd.2_Intron|SAP130_uc002tpq.1_Intron	NM_024545	NP_078821	Q9H0E3	SP130_HUMAN	Sin3A-associated protein, 130kDa isoform b						histone H3 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	STAGA complex	transcription coactivator activity			ovary(2)|skin(2)	4	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0771)		TTCTTTAAGCTTTTTTGTTTC	0.403													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	131482119	131482120	+	IGR	INS	-	GAA	GAA			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:131482119_131482120insGAA								C2orf14 (32857 upstream) : GPR148 (4603 downstream)																							atggtgctgatgatagtgatgt	0.045													4	2	---	---	---	---	
GTDC1	79712	broad.mit.edu	37	2	144793485	144793485	+	Intron	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:144793485delA	uc002tvp.2	-						GTDC1_uc002tvo.2_Intron|GTDC1_uc002tvq.2_Intron|GTDC1_uc002tvr.2_Intron|GTDC1_uc010fnn.2_Intron|GTDC1_uc002tvs.2_Intron|GTDC1_uc010fno.2_Intron|GTDC1_uc002tvt.1_Intron	NM_001006636	NP_001006637	Q4AE62	GTDC1_HUMAN	glycosyltransferase-like domain containing 1						biosynthetic process		transferase activity, transferring glycosyl groups			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.0914)		ATTTGAAAGCAAACAGGGCAC	0.398													4	2	---	---	---	---	
ZNF385B	151126	broad.mit.edu	37	2	180632344	180632344	+	Intron	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:180632344delA	uc002unn.3	-							NM_152520	NP_689733	Q569K4	Z385B_HUMAN	zinc finger protein 385B isoform 1							nucleus	nucleic acid binding|zinc ion binding			ovary(1)	1			Epithelial(96;0.174)|OV - Ovarian serous cystadenocarcinoma(117;0.201)			GAAAGTGACCAAAAAAAATGA	0.368													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	197626223	197626223	+	IGR	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:197626223delA								CCDC150 (28693 upstream) : GTF3C3 (2882 downstream)																							TTTTGCTTGGAAAAAAAGAGT	0.403													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	213574232	213574233	+	IGR	DEL	TT	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:213574232_213574233delTT								ERBB4 (170880 upstream) : IKZF2 (290180 downstream)																							gagtcatctctttagagagagt	0.064													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	18121338	18121338	+	Intron	DEL	G	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:18121338delG	uc003cbg.2	+											Homo sapiens cDNA clone IMAGE:5584035.																		ACAGCCATGTGGGGGGAGATG	0.408													4	2	---	---	---	---	
KIF15	56992	broad.mit.edu	37	3	44854912	44854915	+	Intron	DEL	TTGT	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:44854912_44854915delTTGT	uc003cnx.3	+						KIF15_uc010hiq.2_Intron|KIF15_uc010hir.2_5'Flank	NM_020242	NP_064627	Q9NS87	KIF15_HUMAN	kinesin family member 15						blood coagulation|cell proliferation|microtubule-based movement|mitosis	centrosome|cytosol|microtubule|plus-end kinesin complex|spindle	ATP binding|DNA binding|microtubule motor activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.0099)|KIRC - Kidney renal clear cell carcinoma(197;0.0564)|Kidney(197;0.0707)		AAGttttttgttgtttgtttgttt	0.137													3	3	---	---	---	---	
IL17RD	54756	broad.mit.edu	37	3	57194247	57194247	+	Intron	DEL	G	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:57194247delG	uc003dil.2	-						IL17RD_uc010hna.2_Intron|IL17RD_uc011bex.1_Intron	NM_017563	NP_060033	Q8NFM7	I17RD_HUMAN	interleukin 17 receptor D precursor							Golgi membrane|integral to membrane|plasma membrane	receptor activity				0				KIRC - Kidney renal clear cell carcinoma(284;0.0173)|Kidney(284;0.0204)		AATTGTTGATGGGGTAGCCCC	0.313													4	2	---	---	---	---	
DNAH12	201625	broad.mit.edu	37	3	57502896	57502896	+	Intron	DEL	C	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:57502896delC	uc003dit.2	-						DNAH12_uc003diu.2_Intron	NM_178504	NP_848599	Q6ZR08	DYH12_HUMAN	dynein heavy chain domain 2 isoform 1						microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			pancreas(1)|skin(1)	2						cctaatatggccccactccct	0.000													4	2	---	---	---	---	
PTPRG	5793	broad.mit.edu	37	3	62207881	62207881	+	Intron	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:62207881delA	uc003dlb.2	+						PTPRG_uc003dlc.2_Intron|PTPRG_uc011bfi.1_Intron	NM_002841	NP_002832	P23470	PTPRG_HUMAN	protein tyrosine phosphatase, receptor type, G						transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	identical protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(5)|lung(2)	7				BRCA - Breast invasive adenocarcinoma(55;0.000376)|KIRC - Kidney renal clear cell carcinoma(10;0.0499)|Kidney(10;0.065)		gctcaaggggaaaaaaaaaag	0.070													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	66883131	66883131	+	IGR	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:66883131delA								LRIG1 (332286 upstream) : KBTBD8 (165596 downstream)																							GGAAGGCGAGAAAAAAAAAAG	0.418													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	75554244	75554244	+	IGR	DEL	A	-	-	rs2324265		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:75554244delA								FAM86D (69978 upstream) : MIR1324 (125670 downstream)																							agtgtttcttatttttttttg	0.000													4	2	---	---	---	---	
LSAMP	4045	broad.mit.edu	37	3	115556141	115556141	+	Intron	DEL	T	-	-	rs34754406		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:115556141delT	uc003ebt.2	-						LSAMP_uc011bis.1_Intron	NM_002338	NP_002329	Q13449	LSAMP_HUMAN	limbic system-associated membrane protein						cell adhesion|nervous system development	anchored to membrane|plasma membrane					0		all_cancers(1;0.00189)|all_epithelial(1;0.0366)|Myeloproliferative disorder(1037;0.17)|all_neural(597;0.208)|Lung NSC(201;0.215)		GBM - Glioblastoma multiforme(114;0.00117)|LUSC - Lung squamous cell carcinoma(41;0.0407)|Lung(219;0.152)		CCAGTGTAGATTTTTTTTTTT	0.294													7	4	---	---	---	---	
ARHGAP31	57514	broad.mit.edu	37	3	119017475	119017475	+	Intron	DEL	C	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:119017475delC	uc003ecj.3	+							NM_020754	NP_065805	Q2M1Z3	RHG31_HUMAN	Cdc42 GTPase-activating protein						regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion|lamellipodium	GTPase activator activity			ovary(2)	2						GTTTATTTTACCCACTCCCTG	0.448													4	2	---	---	---	---	
MGLL	11343	broad.mit.edu	37	3	127462810	127462810	+	Intron	DEL	C	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:127462810delC	uc003ejx.2	-						MGLL_uc003ejw.2_Intron|MGLL_uc011bko.1_Intron|MGLL_uc010hsp.1_Intron	NM_001003794	NP_001003794	Q99685	MGLL_HUMAN	monoglyceride lipase isoform 2						arachidonic acid metabolic process|fatty acid biosynthetic process|inflammatory response|platelet activation|regulation of endocannabinoid signaling pathway|regulation of inflammatory response|regulation of sensory perception of pain|triglyceride catabolic process	plasma membrane	acylglycerol lipase activity|carboxylesterase activity|lysophospholipase activity|protein homodimerization activity				0						AAGGATGTCTCCCTTTGTGGC	0.463													4	2	---	---	---	---	
SLC25A36	55186	broad.mit.edu	37	3	140675511	140675511	+	Frame_Shift_Del	DEL	C	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:140675511delC	uc003etr.2	+	2	419	c.184delC	c.(184-186)CCCfs	p.P62fs	SLC25A36_uc003etp.2_Frame_Shift_Del_p.P62fs|SLC25A36_uc003ets.2_Frame_Shift_Del_p.P62fs|SLC25A36_uc003etq.2_5'UTR|SLC25A36_uc011bmz.1_Frame_Shift_Del_p.P62fs	NM_001104647	NP_001098117	Q96CQ1	S2536_HUMAN	solute carrier family 25, member 36 isoform a	62	Solcar 1.				response to estradiol stimulus|transmembrane transport	integral to membrane|mitochondrial inner membrane	binding				0						AGTAGTGTCTCCCGGACCTCT	0.418													149	129	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	148482519	148482523	+	IGR	DEL	CTGTC	-	-	rs72466850		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:148482519_148482523delCTGTC								AGTR1 (21731 upstream) : CPB1 (63065 downstream)																							AGAAATAAAACTGTCCTTATAGATA	0.390													0	6	---	---	---	---	
SIAH2	6478	broad.mit.edu	37	3	150466851	150466851	+	Intron	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:150466851delA	uc003eyi.2	-							NM_005067	NP_005058	O43255	SIAH2_HUMAN	seven in absentia homolog 2						apoptosis|axon guidance|cell cycle|negative regulation of canonical Wnt receptor signaling pathway|small GTPase mediated signal transduction|ubiquitin-dependent protein catabolic process	cytosol|nucleus	transcription corepressor activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)	2			LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			tcaaatggttaaaaaaaagta	0.000													4	2	---	---	---	---	
LOC201651	201651	broad.mit.edu	37	3	151490896	151490897	+	Intron	INS	-	A	A	rs145233188	by1000genomes	TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:151490896_151490897insA	uc003ezd.2	+							NR_026915				Homo sapiens, Similar to arylacetamide deacetylase, clone IMAGE:3934567, mRNA.												0						ttgtaattgctaatacatctat	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	156504289	156504289	+	Intron	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:156504289delT	uc003fax.1	-											Homo sapiens cDNA FLJ31839 fis, clone NT2RP7000086.																		AAATTGCAGCTTTGTAGATGA	0.413													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	168073751	168073751	+	IGR	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:168073751delT								GOLIM4 (260334 upstream) : MIR551B (195891 downstream)																							ggctccactattttatatggc	0.139													4	2	---	---	---	---	
SKIL	6498	broad.mit.edu	37	3	170073732	170073733	+	5'Flank	INS	-	C	C			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:170073732_170073733insC	uc003fgu.2	+						SKIL_uc011bps.1_5'Flank	NM_005414	NP_005405	P12757	SKIL_HUMAN	SKI-like isoform 1						cell cycle arrest|negative regulation of cell differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of axonogenesis|protein heterotrimerization|protein homotrimerization|regulation of apoptosis|regulation of apoptosis|response to antibiotic|response to growth factor stimulus|skeletal muscle tissue development	cytoplasm|PML body	chromatin binding|nucleotide binding|protein complex binding|protein domain specific binding|SMAD binding|transcription corepressor activity|transcription repressor activity			ovary(2)|skin(1)	3	all_cancers(22;7.13e-23)|all_epithelial(15;9.95e-28)|all_lung(20;1.23e-16)|Lung NSC(18;5.15e-16)|Ovarian(172;0.000337)|Breast(254;0.137)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.197)			ATGCTGTTTTTCCCCCACTGGC	0.436													4	2	---	---	---	---	
SPATA16	83893	broad.mit.edu	37	3	172641738	172641738	+	Intron	DEL	G	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:172641738delG	uc003fin.3	-							NM_031955	NP_114161	Q9BXB7	SPT16_HUMAN	spermatogenesis associated 16						cell differentiation|multicellular organismal development|spermatogenesis	Golgi apparatus	binding			ovary(2)|skin(1)	3	Ovarian(172;0.00319)|Breast(254;0.197)		LUSC - Lung squamous cell carcinoma(14;1.48e-14)|Lung(28;6.63e-14)			TTAGATATTAGGAAGGCATAA	0.284													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	197783199	197783202	+	IGR	DEL	AATC	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:197783199_197783202delAATC								LMLN (12610 upstream) : LOC348840 (1202 downstream)																							aaaaataaaaaatCAAGCTGTCCA	0.250													4	2	---	---	---	---	
ZNF595	152687	broad.mit.edu	37	4	66227	66227	+	Intron	DEL	T	-	-	rs28445159		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:66227delT	uc003fzv.1	+						ZNF595_uc003fzu.1_Intron|ZNF718_uc003fzt.3_Intron|ZNF595_uc010iay.1_Intron|ZNF595_uc011bus.1_Intron|ZNF595_uc011but.1_Intron	NM_182524	NP_872330	Q7Z3I0	Q7Z3I0_HUMAN	zinc finger protein 595						regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding				0		all_cancers(4;0.0738)|all_epithelial(65;0.139)		Lung(54;0.0654)|Epithelial(2;0.0921)|all cancers(2;0.146)|LUSC - Lung squamous cell carcinoma(95;0.173)		taactttttgttttttttttg	0.000													9	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	4886984	4886984	+	IGR	DEL	C	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:4886984delC								MSX1 (21326 upstream) : CYTL1 (129332 downstream)																							cacaacagaacaaaaaaatca	0.000													4	2	---	---	---	---	
STK32B	55351	broad.mit.edu	37	4	5321298	5321299	+	Intron	INS	-	C	C	rs145903712	by1000genomes	TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:5321298_5321299insC	uc003gih.1	+						STK32B_uc010ida.1_Intron	NM_018401	NP_060871	Q9NY57	ST32B_HUMAN	serine/threonine kinase 32B								ATP binding|metal ion binding|protein serine/threonine kinase activity			breast(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5						tccagcacgcacccaggcatac	0.064													3	5	---	---	---	---	
CRMP1	1400	broad.mit.edu	37	4	5837423	5837424	+	Intron	DEL	AG	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:5837423_5837424delAG	uc003gip.2	-						CRMP1_uc003gin.1_Intron|CRMP1_uc003giq.2_Intron|CRMP1_uc003gir.2_Intron|CRMP1_uc003gis.2_Intron	NM_001313	NP_001304	Q14194	DPYL1_HUMAN	collapsin response mediator protein 1 isoform 2						axon guidance|pyrimidine base catabolic process	cytosol|microtubule organizing center|spindle	dihydropyrimidinase activity|protein binding			ovary(2)	2				Colorectal(103;0.0721)		gaggagaggaagagagagagag	0.396													4	2	---	---	---	---	
SLC2A9	56606	broad.mit.edu	37	4	9829795	9829796	+	Intron	DEL	TC	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:9829795_9829796delTC	uc003gmc.2	-						SLC2A9_uc003gmd.2_Intron	NM_020041	NP_064425	Q9NRM0	GTR9_HUMAN	solute carrier family 2, member 9 protein						glucose transport|urate metabolic process	integral to membrane|plasma membrane	sugar:hydrogen symporter activity			ovary(3)	3						aggctgagcttctctctctctc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	33859059	33859061	+	IGR	DEL	GAG	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:33859059_33859061delGAG								None (None upstream) : None (None downstream)																							cagaatatatgaggatgacaaaa	0.034													6	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	34183978	34183979	+	IGR	INS	-	A	A			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:34183978_34183979insA								None (None upstream) : None (None downstream)																							gctaaaaagctaaaaaAAAAAA	0.193													4	2	---	---	---	---	
WDR19	57728	broad.mit.edu	37	4	39280429	39280429	+	Intron	DEL	T	-	-	rs5857667		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:39280429delT	uc003gtv.2	+						WDR19_uc011byi.1_Intron	NM_025132	NP_079408	Q8NEZ3	WDR19_HUMAN	WD repeat domain 19						cell projection organization	microtubule basal body|motile cilium|photoreceptor connecting cilium	binding			large_intestine(1)	1						TTTTGATGTATTTTTTTTAAT	0.388													4	4	---	---	---	---	
FAT4	79633	broad.mit.edu	37	4	126245500	126245501	+	Intron	INS	-	T	T	rs151333767	by1000genomes	TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:126245500_126245501insT	uc003ifj.3	+							NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor						homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						tggtcaggggcttgttttattg	0.158													4	2	---	---	---	---	
MAML3	55534	broad.mit.edu	37	4	140658513	140658514	+	Intron	INS	-	CTGATGTCCCACAG	CTGATGTCCCACAG	rs149301059	by1000genomes	TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:140658513_140658514insCTGATGTCCCACAG	uc003ihz.1	-						MGST2_uc010ioi.1_Intron|MAML3_uc011chd.1_Intron	NM_018717	NP_061187	Q96JK9	MAML3_HUMAN	mastermind-like 3						Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	transcription coactivator activity			ovary(1)	1	all_hematologic(180;0.162)					AAGGAACTTGTCTGGTGGTGGC	0.312													8	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	159391194	159391196	+	IGR	DEL	TTT	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:159391194_159391196delTTT								TMEM144 (214756 upstream) : RXFP1 (51851 downstream)																							AGAACAGATCTTTAGCTGCAGGT	0.414													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	159391198	159391200	+	IGR	DEL	GCT	-	-	rs115061202	by1000genomes	TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:159391198_159391200delGCT								TMEM144 (214760 upstream) : RXFP1 (51847 downstream)																							CAGATCTTTAGCTGCAGGTGTGT	0.399													5	3	---	---	---	---	
SPATA4	132851	broad.mit.edu	37	4	177115321	177115321	+	Intron	DEL	T	-	-	rs36026655		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:177115321delT	uc003iuo.1	-							NM_144644	NP_653245	Q8NEY3	SPAT4_HUMAN	spermatogenesis associated 4						apoptosis|spermatogenesis						0		Breast(14;0.0011)|Prostate(90;0.0129)|Melanoma(52;0.0133)|Renal(120;0.0376)|all_hematologic(60;0.124)		all cancers(43;2.9e-20)|Epithelial(43;1.99e-17)|OV - Ovarian serous cystadenocarcinoma(60;2.58e-09)|GBM - Glioblastoma multiforme(59;0.000162)|STAD - Stomach adenocarcinoma(60;0.000543)|LUSC - Lung squamous cell carcinoma(193;0.096)		gtgtgcaaagtgcaagagcag	0.000													2	4	---	---	---	---	
WWC2	80014	broad.mit.edu	37	4	184053159	184053160	+	Intron	DEL	GG	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:184053159_184053160delGG	uc010irx.2	+							NM_024949	NP_079225	Q6AWC2	WWC2_HUMAN	WW and C2 domain containing 2											ovary(2)|lung(1)	3		all_lung(41;5.28e-14)|Lung NSC(41;1.35e-13)|Colorectal(36;0.00681)|Hepatocellular(41;0.00886)|Renal(120;0.00992)|Prostate(90;0.0237)|all_hematologic(60;0.0592)|Esophageal squamous(56;0.179)|all_neural(102;0.202)		all cancers(43;3.38e-24)|Epithelial(43;1.4e-20)|OV - Ovarian serous cystadenocarcinoma(60;1.09e-09)|GBM - Glioblastoma multiforme(59;3.33e-05)|Colorectal(24;3.58e-05)|STAD - Stomach adenocarcinoma(60;4.21e-05)|COAD - Colon adenocarcinoma(29;0.000171)|LUSC - Lung squamous cell carcinoma(40;0.0145)|READ - Rectum adenocarcinoma(43;0.242)		aagtttgtgtgggtctattttt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	184256061	184256062	+	IGR	INS	-	A	A			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:184256061_184256062insA								WWC2 (14134 upstream) : CDKN2AIP (109727 downstream)																							ATTGCtaatttaaaaaaaacta	0.203													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	190563755	190563756	+	IGR	INS	-	T	T	rs140889127		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:190563755_190563756insT								None (None upstream) : FRG1 (298218 downstream)																							TGAGAGCTCCCTTTCAGTTTTA	0.332													2	4	---	---	---	---	
EXOC3	11336	broad.mit.edu	37	5	448007	448007	+	Intron	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:448007delT	uc003jba.2	+							NM_007277	NP_009208	O60645	EXOC3_HUMAN	Sec6 protein						exocytosis|protein transport						0		Ovarian(839;0.0563)	Epithelial(17;0.000529)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|all cancers(22;0.00186)|Lung(60;0.0863)			GCTCAGCGTCTTTTTTTGAAC	0.517													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	34114724	34114724	+	IGR	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:34114724delT								C1QTNF3 (71407 upstream) : RAI14 (541709 downstream)																							atcattttactttttttttgt	0.114													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	36493800	36493800	+	IGR	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:36493800delT								RANBP3L (191789 upstream) : SLC1A3 (112657 downstream)																							TTTGTTTTTGTTTTTTTGGTG	0.274													4	2	---	---	---	---	
PAIP1	10605	broad.mit.edu	37	5	43544369	43544372	+	Intron	DEL	ACTA	-	-	rs10601284		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:43544369_43544372delACTA	uc003job.2	-						PAIP1_uc003joa.2_Intron|PAIP1_uc010ivp.2_Intron|PAIP1_uc010ivo.2_Intron|PAIP1_uc003joc.2_Intron	NM_006451	NP_006442	Q9H074	PAIP1_HUMAN	poly(A) binding protein interacting protein 1						mRNA stabilization|nuclear-transcribed mRNA poly(A) tail shortening|translational initiation	cytosol	protein binding|RNA binding|translation activator activity			ovary(1)	1	Lung NSC(6;2.07e-05)					GGGTCTACTTACTAACTTTTATTT	0.373													4	3	---	---	---	---	
ITGA1	3672	broad.mit.edu	37	5	52161834	52161835	+	Intron	INS	-	TTTTTTC	TTTTTTC	rs143046695	by1000genomes	TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:52161834_52161835insTTTTTTC	uc003jou.2	+						ITGA1_uc003jov.2_Intron	NM_181501	NP_852478	P56199	ITA1_HUMAN	integrin, alpha 1 precursor						axon guidance|cell-matrix adhesion|integrin-mediated signaling pathway|muscle contraction	integrin complex	collagen binding|receptor activity			ovary(2)|lung(1)	3		Lung NSC(810;5.05e-05)|Breast(144;0.0851)				TTATTTTCTATttttttctttt	0.114													4	2	---	---	---	---	
MAP3K1	4214	broad.mit.edu	37	5	56174546	56174546	+	Intron	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:56174546delT	uc003jqw.3	+							NM_005921	NP_005912	Q13233	M3K1_HUMAN	mitogen-activated protein kinase kinase kinase						cellular response to mechanical stimulus|innate immune response|MyD88-dependent toll-like receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	ATP binding|zinc ion binding			ovary(1)|skin(1)	2		Lung NSC(810;4.65e-05)|Prostate(74;0.0132)|Breast(144;0.0321)|Ovarian(174;0.223)		OV - Ovarian serous cystadenocarcinoma(10;6.08e-40)		TTTAAAATAATTttttttaac	0.015													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	57098576	57098576	+	IGR	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:57098576delT								ACTBL2 (319940 upstream) : PLK2 (651236 downstream)																							aatgttagtctttttagctgt	0.065													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	62079066	62079066	+	IGR	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:62079066delA								ISCA1P1 (5896 upstream) : None (None downstream)																							cactccatttaaaaaagggtt	0.000													4	2	---	---	---	---	
MCCC2	64087	broad.mit.edu	37	5	70893357	70893359	+	Intron	DEL	GTA	-	-	rs146589116		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:70893357_70893359delGTA	uc003kbs.3	+						MCCC2_uc010iyv.1_Intron|MCCC2_uc003kbt.3_Intron	NM_022132	NP_071415	Q9HCC0	MCCB_HUMAN	methylcrotonoyl-Coenzyme A carboxylase 2 (beta)						leucine catabolic process	mitochondrial inner membrane|mitochondrial matrix	ATP binding|methylcrotonoyl-CoA carboxylase activity			ovary(1)	1		Lung NSC(167;0.000697)|Prostate(74;0.0107)|Ovarian(174;0.0175)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;2.04e-54)	Biotin(DB00121)	tcggcatagggtagtagtagtgg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	75633673	75633673	+	IGR	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:75633673delA								SV2C (12257 upstream) : IQGAP2 (65476 downstream)																							ACAGTAATTTAAAAAAAAACT	0.478											OREG0016670	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	3	---	---	---	---	
IQGAP2	10788	broad.mit.edu	37	5	75948269	75948270	+	Intron	INS	-	TTA	TTA	rs144997135	by1000genomes	TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:75948269_75948270insTTA	uc003kek.2	+						IQGAP2_uc010izv.2_Intron|IQGAP2_uc011csv.1_Intron|IQGAP2_uc003kel.2_Intron	NM_006633	NP_006624	Q13576	IQGA2_HUMAN	IQ motif containing GTPase activating protein 2						small GTPase mediated signal transduction	actin cytoskeleton	actin binding|calmodulin binding|GTPase inhibitor activity|Ras GTPase activator activity			ovary(6)|central_nervous_system(1)	7		all_lung(232;0.000514)|Lung NSC(167;0.00135)|Prostate(461;0.00838)|Ovarian(174;0.0149)		all cancers(79;1.38e-36)		GAAATTCCATTTTACTCCTTTT	0.371													2	4	---	---	---	---	
MSH3	4437	broad.mit.edu	37	5	79968912	79968913	+	Intron	INS	-	A	A			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:79968912_79968913insA	uc003kgz.2	+							NM_002439	NP_002430	P20585	MSH3_HUMAN	mutS homolog 3						maintenance of DNA repeat elements|meiotic mismatch repair|negative regulation of DNA recombination|positive regulation of helicase activity|reciprocal meiotic recombination|somatic recombination of immunoglobulin gene segments	MutSbeta complex|nuclear chromosome	ATP binding|DNA-dependent ATPase activity|double-strand/single-strand DNA junction binding|enzyme binding|loop DNA binding|Y-form DNA binding			lung(2)|ovary(1)|breast(1)	4		Lung NSC(167;0.00479)|all_lung(232;0.00507)|Ovarian(174;0.0261)|Breast(144;0.244)		OV - Ovarian serous cystadenocarcinoma(54;2.38e-45)|Epithelial(54;1.58e-38)|all cancers(79;4.93e-33)		TCAAGAGCAAGAAAAAAAGCAA	0.356								MMR					4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	106624246	106624250	+	IGR	DEL	CTCTT	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:106624246_106624250delCTCTT								None (None upstream) : EFNA5 (88341 downstream)																							ctatgctatactcttctcttctctt	0.190													3	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	107928860	107928860	+	IGR	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:107928860delA								FBXL17 (211061 upstream) : FER (154663 downstream)																							CATACAAGTCAAAAAACAAAT	0.373													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	109593944	109593945	+	IGR	DEL	GA	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:109593944_109593945delGA								MAN2A1 (390515 upstream) : TMEM232 (30989 downstream)																							TCTGAAGGCCGAGAGAGAGAGA	0.475													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	111884896	111884896	+	IGR	DEL	C	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:111884896delC								FLJ11235 (128223 upstream) : APC (158322 downstream)																							cccctagagaccccagcacca	0.100													4	2	---	---	---	---	
KLHL3	26249	broad.mit.edu	37	5	136997930	136997931	+	Intron	DEL	AC	-	-	rs72072624		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:136997930_136997931delAC	uc010jek.2	-						KLHL3_uc011cyc.1_Intron|KLHL3_uc003lbr.3_Intron|KLHL3_uc011cyd.1_Intron|KLHL3_uc010jel.1_Intron|KLHL3_uc010jem.1_Intron|KLHL3_uc010jen.1_Intron|KLHL3_uc003lbs.1_Intron	NM_017415	NP_059111	Q9UH77	KLHL3_HUMAN	kelch-like 3							cytoplasm|cytoskeleton	actin binding|structural molecule activity				0		all_hematologic(541;3.67e-07)|Breast(839;7.61e-05)|Prostate(281;0.000825)|Ovarian(839;0.0481)|all_lung(232;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)	GBM - Glioblastoma multiforme(465;0.0223)		cacacactctacacacacacac	0.238													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	141811983	141811983	+	IGR	DEL	C	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:141811983delC								SPRY4 (107363 upstream) : FGF1 (159761 downstream)																							TCTGGTTTGTCCCCTTCATCA	0.493													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	144933518	144933518	+	IGR	DEL	G	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:144933518delG								None (None upstream) : PRELID2 (205064 downstream)																							cgagcatggtggcaaagtttc	0.000													4	2	---	---	---	---	
PDGFRB	5159	broad.mit.edu	37	5	149525733	149525735	+	Intron	DEL	TAT	-	-	rs112297981		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:149525733_149525735delTAT	uc003lro.2	-						PDGFRB_uc010jhd.2_Intron	NM_002609	NP_002600	P09619	PGFRB_HUMAN	platelet-derived growth factor receptor beta						aorta morphogenesis|cardiac myofibril assembly|hemopoiesis|metanephric glomerular capillary formation|metanephric glomerular mesangial cell proliferation involved in metanephros development|peptidyl-tyrosine phosphorylation|positive regulation of calcium ion import|positive regulation of chemotaxis|positive regulation of DNA biosynthetic process|positive regulation of ERK1 and ERK2 cascade|positive regulation of MAP kinase activity|positive regulation of metanephric mesenchymal cell migration by platelet-derived growth factor receptor-beta signaling pathway|positive regulation of mitosis|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of reactive oxygen species metabolic process|positive regulation of smooth muscle cell migration|positive regulation of smooth muscle cell proliferation|protein autophosphorylation|regulation of actin cytoskeleton organization|retina vasculature development in camera-type eye|smooth muscle cell chemotaxis	apical plasma membrane|cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet activating factor receptor activity|platelet-derived growth factor beta-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|vascular endothelial growth factor receptor activity			central_nervous_system(4)|lung(4)|breast(3)|stomach(2)|prostate(2)|large_intestine(1)|ovary(1)	17		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		Becaplermin(DB00102)|Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	gagggcagactattgagaattgt	0.069			T	ETV6|TRIP11|HIP1|RAB5EP|H4|NIN|HCMOGT-1|PDE4DIP	MPD|AML|CMML|CML								3	4	---	---	---	---	
ANXA6	309	broad.mit.edu	37	5	150509258	150509259	+	Intron	INS	-	TTTG	TTTG	rs144537590	by1000genomes	TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:150509258_150509259insTTTG	uc003ltl.1	-						ANXA6_uc011dcp.1_Intron|ANXA6_uc003ltm.1_Intron|ANXA6_uc003ltn.1_Intron|ANXA6_uc003lto.1_Intron	NM_001155	NP_001146	P08133	ANXA6_HUMAN	annexin VI isoform 1							melanosome	calcium ion binding|calcium-dependent phospholipid binding|protein binding				0		Medulloblastoma(196;0.0912)|all_hematologic(541;0.208)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CCTCTTACTGTtttgtttgttt	0.163													4	3	---	---	---	---	
GLRA1	2741	broad.mit.edu	37	5	151228725	151228728	+	Intron	DEL	TTTC	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:151228725_151228728delTTTC	uc003lut.2	-						GLRA1_uc003lur.2_Intron|GLRA1_uc003lus.2_Intron	NM_001146040	NP_001139512	P23415	GLRA1_HUMAN	glycine receptor, alpha 1 isoform 1 precursor						muscle contraction|negative regulation of transmission of nerve impulse|neuropeptide signaling pathway|positive regulation of acrosome reaction|regulation of membrane potential|startle response	cell junction|chloride channel complex|integral to plasma membrane|intracellular membrane-bounded organelle|postsynaptic membrane	extracellular-glycine-gated chloride channel activity|glycine binding|protein binding|receptor activity|taurine binding|transmitter-gated ion channel activity			ovary(1)|central_nervous_system(1)	2		all_hematologic(541;0.0341)|Medulloblastoma(196;0.0912)	Kidney(363;0.000171)|KIRC - Kidney renal clear cell carcinoma(527;0.000785)		Desflurane(DB01189)|Enflurane(DB00228)|Ethanol(DB00898)|Glycine(DB00145)|Halothane(DB01159)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	tttcttttcttttctttctttctt	0.010													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	151585343	151585343	+	Intron	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:151585343delT	uc003luu.1	+											Homo sapiens cDNA FLJ10720 fis, clone NT2RP3001116.																		cttttctttgttttttttttt	0.000													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	164600451	164600452	+	IGR	DEL	CC	-	-	rs60535901	by1000genomes	TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:164600451_164600452delCC								None (None upstream) : None (None downstream)																							cacacacacacccccttctgcc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	177534466	177534466	+	IGR	DEL	A	-	-	rs77919853		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:177534466delA								FAM153C (58378 upstream) : N4BP3 (6090 downstream)																							tctattttacaaaaaaaaaat	0.000													6	4	---	---	---	---	
AGXT2L2	85007	broad.mit.edu	37	5	177642698	177642698	+	Intron	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:177642698delA	uc003miz.2	-						AGXT2L2_uc003miy.2_Intron|AGXT2L2_uc003mjc.2_Intron|AGXT2L2_uc003mja.2_Intron|AGXT2L2_uc003mjb.2_Intron|AGXT2L2_uc003mjd.1_Intron	NM_153373	NP_699204	Q8IUZ5	AT2L2_HUMAN	alanine-glyoxylate aminotransferase 2-like 2							mitochondrion	pyridoxal phosphate binding|transaminase activity			pancreas(1)	1	all_cancers(89;0.00185)|Renal(175;0.000269)|Lung NSC(126;0.00858)|all_lung(126;0.0139)	all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	GBM - Glioblastoma multiforme(465;0.181)|all cancers(165;0.235)	L-Alanine(DB00160)|Pyridoxal Phosphate(DB00114)	GAATCAGAGGAGAGGGTGTCC	0.532													4	2	---	---	---	---	
COL23A1	91522	broad.mit.edu	37	5	177772456	177772457	+	Intron	INS	-	T	T	rs78634385		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:177772456_177772457insT	uc003mje.2	-							NM_173465	NP_775736	Q86Y22	CONA1_HUMAN	collagen, type XXIII, alpha 1							collagen|integral to membrane|plasma membrane	protein binding			central_nervous_system(1)|skin(1)	2	all_cancers(89;0.00188)|Renal(175;0.000159)|Lung NSC(126;0.00814)|all_lung(126;0.0129)	all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	OV - Ovarian serous cystadenocarcinoma(192;0.153)|all cancers(165;0.172)		TGTATCATCTCTTTTTTTTTTC	0.292													2	4	---	---	---	---	
TMEM14C	51522	broad.mit.edu	37	6	10725984	10725985	+	Intron	DEL	CT	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:10725984_10725985delCT	uc003mzh.2	+						TMEM14C_uc010joq.1_Intron|TMEM14C_uc003mzi.2_Intron	NM_016462	NP_057546	Q9P0S9	TM14C_HUMAN	transmembrane protein 14C						heme biosynthetic process	integral to membrane|mitochondrial membrane					0	Ovarian(93;0.107)|Breast(50;0.137)	all_hematologic(90;0.135)	Epithelial(50;0.246)			AGATAGCACACTCTCTGTAACG	0.510													6	3	---	---	---	---	
HLA-G	3135	broad.mit.edu	37	6	29949173	29949174	+	Intron	INS	-	TG	TG	rs147954486	by1000genomes	TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:29949173_29949174insTG	uc011dmb.1	+							NM_002127	NP_002118	P17693	HLAG_HUMAN	major histocompatibility complex, class I, G						antigen processing and presentation of peptide antigen via MHC class I|cellular defense response|interferon-gamma-mediated signaling pathway|regulation of immune response|type I interferon-mediated signaling pathway	integral to membrane|MHC class I protein complex	MHC class I receptor activity			ovary(3)|central_nervous_system(1)	4						CTCAGGCTGCAtgtgtgtgtgt	0.267													7	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	57563533	57563534	+	IGR	INS	-	TC	TC	rs149258860		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57563533_57563534insTC								PRIM2 (50158 upstream) : GUSBL2 (682625 downstream)																							cttggttctcttctccttaatc	0.050													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	57580358	57580359	+	IGR	INS	-	T	T	rs146650232	by1000genomes	TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57580358_57580359insT								PRIM2 (66983 upstream) : GUSBL2 (665800 downstream)																							tgactgtgatcgaaaactgttt	0.149													4	5	---	---	---	---	
EYS	346007	broad.mit.edu	37	6	65136565	65136569	+	Intron	DEL	GGGTT	-	-	rs71697119		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:65136565_65136569delGGGTT	uc011dxu.1	-						EYS_uc011dxt.1_Intron	NM_001142800	NP_001136272	Q5T1H1	EYS_HUMAN	eyes shut homolog isoform 1						response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6						gttggcagaggggttggctttggat	0.093													11	9	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	79484942	79484943	+	IGR	INS	-	A	A	rs150303147	by1000genomes	TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:79484942_79484943insA								None (None upstream) : IRAK1BP1 (92246 downstream)																							aaggcagacttagaagtgtggg	0.094													4	3	---	---	---	---	
ROS1	6098	broad.mit.edu	37	6	117731092	117731093	+	Intron	INS	-	C	C			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:117731092_117731093insC	uc003pxp.1	-						ROS1_uc011ebi.1_Intron|GOPC_uc003pxq.1_Intron	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor						transmembrane receptor protein tyrosine kinase signaling pathway	membrane fraction|sodium:potassium-exchanging ATPase complex	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(8)|ovary(6)|central_nervous_system(3)|skin(3)|stomach(2)|breast(2)|large_intestine(1)	25		all_cancers(87;0.00846)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0387)|OV - Ovarian serous cystadenocarcinoma(136;0.0954)|all cancers(137;0.137)		catacatgttgaaaaaaagatt	0.069			T	GOPC|ROS1	glioblastoma|NSCLC								4	2	---	---	---	---	
NKAIN2	154215	broad.mit.edu	37	6	124979381	124979381	+	Frame_Shift_Del	DEL	G	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:124979381delG	uc003pzo.2	+	4	600	c.323delG	c.(322-324)TGGfs	p.W108fs	NKAIN2_uc003pzn.1_Frame_Shift_Del_p.W108fs|NKAIN2_uc003pzp.2_Frame_Shift_Del_p.W107fs|NKAIN2_uc010keq.2_Intron|NKAIN2_uc010ker.2_Frame_Shift_Del_p.W18fs	NM_001040214	NP_001035304	Q5VXU1	NKAI2_HUMAN	T-cell lymphoma breakpoint-associated target 1	108						integral to membrane|plasma membrane					0				GBM - Glioblastoma multiforme(226;0.104)		CGATCTTGGTGGATGGAGAAT	0.463													174	81	---	---	---	---	
BCLAF1	9774	broad.mit.edu	37	6	136590359	136590359	+	Intron	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:136590359delT	uc003qgx.1	-						BCLAF1_uc011edb.1_5'Flank|BCLAF1_uc003qgw.1_Intron|BCLAF1_uc003qgy.1_Intron|BCLAF1_uc011edc.1_RNA|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Intron	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform						induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		TAATTTGTCATTTTTTTTTTC	0.338													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	148888325	148888325	+	IGR	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:148888325delT								SASH1 (15141 upstream) : UST (179946 downstream)																							tctctctttctttaattcttc	0.090													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	161231108	161231108	+	IGR	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:161231108delA								PLG (56763 upstream) : MAP3K4 (181714 downstream)																							CTCTTCTCTGAAAAATATCAC	0.398													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	161355590	161355590	+	IGR	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:161355590delA								PLG (181245 upstream) : MAP3K4 (57232 downstream)																							gcacacacacaccacacccac	0.005													4	2	---	---	---	---	
T	6862	broad.mit.edu	37	6	166577786	166577789	+	Intron	DEL	CCTA	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:166577786_166577789delCCTA	uc003quu.1	-						T_uc003qut.1_Intron|T_uc003quv.1_Intron	NM_003181	NP_003172	O15178	BRAC_HUMAN	transcription factor T						anterior/posterior axis specification, embryo|mesoderm development|primitive streak formation	nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2		Prostate(117;4.48e-07)|Ovarian(120;1.78e-06)|Breast(66;2.54e-06)|Lung SC(201;0.0225)|Esophageal squamous(34;0.0559)		OV - Ovarian serous cystadenocarcinoma(33;1.09e-113)|GBM - Glioblastoma multiforme(31;1.51e-108)|BRCA - Breast invasive adenocarcinoma(81;8.45e-09)|LUAD - Lung adenocarcinoma(999;0.0407)		TCTCCTGTTGCCTACCTAATACAG	0.471									Chordoma_Familial_Clustering_of				4	4	---	---	---	---	
C6orf70	55780	broad.mit.edu	37	6	170179599	170179600	+	Intron	INS	-	T	T	rs139943905	by1000genomes	TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:170179599_170179600insT	uc003qxg.1	+						C6orf70_uc011ehb.1_Intron|C6orf70_uc003qxh.1_Intron|C6orf70_uc010kky.1_Intron|C6orf70_uc003qxi.1_Intron	NM_018341	NP_060811	Q5T6L9	CF070_HUMAN	hypothetical protein LOC55780							integral to membrane				ovary(1)	1		Breast(66;5.08e-05)|Ovarian(120;0.208)		OV - Ovarian serous cystadenocarcinoma(33;1.2e-22)|BRCA - Breast invasive adenocarcinoma(81;1.49e-07)|GBM - Glioblastoma multiforme(31;0.00191)		gttttgttttgttttttttgga	0.208													4	2	---	---	---	---	
ADAP1	11033	broad.mit.edu	37	7	945360	945361	+	Intron	INS	-	A	A	rs147722082	by1000genomes	TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:945360_945361insA	uc003sjo.3	-						ADAP1_uc003sjm.3_5'Flank|ADAP1_uc011jvs.1_Intron|ADAP1_uc003sjn.3_Intron|ADAP1_uc010ksc.2_Intron	NM_006869	NP_006860	O75689	ADAP1_HUMAN	centaurin, alpha 1						cell surface receptor linked signaling pathway|regulation of ARF GTPase activity	cytoplasm|nucleus|plasma membrane	ARF GTPase activator activity|inositol 1,3,4,5 tetrakisphosphate binding|protein binding|zinc ion binding			upper_aerodigestive_tract(1)	1						aaggagaaagggaaaggagaaa	0.000													7	4	---	---	---	---	
MAD1L1	8379	broad.mit.edu	37	7	2027737	2027737	+	Intron	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:2027737delA	uc003slh.1	-						MAD1L1_uc003sle.1_Intron|MAD1L1_uc003slf.1_Intron|MAD1L1_uc003slg.1_Intron|MAD1L1_uc010ksh.1_Intron|MAD1L1_uc003sli.1_Intron|MAD1L1_uc010ksi.1_Intron|MAD1L1_uc010ksj.2_Intron	NM_001013836	NP_001013858	Q9Y6D9	MD1L1_HUMAN	MAD1-like 1 protein						cell division|mitotic anaphase|mitotic cell cycle spindle assembly checkpoint|mitotic metaphase|mitotic prometaphase|mitotic telophase	actin cytoskeleton|centrosome|condensed chromosome kinetochore|cytosol|mitochondrion|nucleus|spindle	protein binding			lung(1)|central_nervous_system(1)	2		Ovarian(82;0.0272)		UCEC - Uterine corpus endometrioid carcinoma (27;0.134)|OV - Ovarian serous cystadenocarcinoma(56;3.63e-14)		GACCCAGAAGAAAAGGAGTAG	0.642													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	15123252	15123253	+	IGR	DEL	TA	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:15123252_15123253delTA								DGKB (180702 upstream) : TMEM195 (116690 downstream)																							aagaaacctctatgtttcaatc	0.025													2	11	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	15124951	15124951	+	IGR	DEL	G	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:15124951delG								DGKB (182401 upstream) : TMEM195 (114992 downstream)																							actcctgcttgtaagtgttta	0.124													4	4	---	---	---	---	
HDAC9	9734	broad.mit.edu	37	7	18673971	18673971	+	Intron	DEL	C	-	-	rs76807601		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:18673971delC	uc003suh.2	+						HDAC9_uc003sue.2_Intron|HDAC9_uc011jyd.1_Intron|HDAC9_uc003sui.2_Intron|HDAC9_uc003suj.2_Intron|HDAC9_uc011jya.1_Intron|HDAC9_uc003sua.1_Intron|HDAC9_uc011jyb.1_Intron|HDAC9_uc003sud.1_Intron|HDAC9_uc011jyc.1_Intron|HDAC9_uc003suf.1_Intron|HDAC9_uc010kud.1_Intron|HDAC9_uc011jye.1_Intron|HDAC9_uc011jyf.1_Intron|HDAC9_uc010kue.1_Intron	NM_058176	NP_478056	Q9UKV0	HDAC9_HUMAN	histone deacetylase 9 isoform 1						B cell differentiation|cellular response to insulin stimulus|heart development|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|peptidyl-lysine deacetylation|positive regulation of cell migration involved in sprouting angiogenesis|regulation of skeletal muscle fiber development|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|histone methyltransferase complex|transcription factor complex	histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein binding|protein kinase C binding|repressing transcription factor binding|transcription corepressor activity			lung(2)|central_nervous_system(2)|kidney(1)	5	all_lung(11;0.187)				Valproic Acid(DB00313)	TTTTTTTTTTCTCATTCAAAG	0.323													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	22618286	22618287	+	IGR	DEL	TC	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:22618286_22618287delTC								MGC87042 (78488 upstream) : IL6 (147216 downstream)																							CTCTCTCTTTTCTCTCTCTCTC	0.213													4	2	---	---	---	---	
PDE1C	5137	broad.mit.edu	37	7	32191878	32191878	+	Intron	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:32191878delT	uc003tco.1	-							NM_005020	NP_005011	Q14123	PDE1C_HUMAN	phosphodiesterase 1C						activation of phospholipase C activity|nerve growth factor receptor signaling pathway	cytosol	calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			skin(3)|central_nervous_system(1)	4			GBM - Glioblastoma multiforme(11;0.216)			ttgtgtgtccttgggcgtggc	0.090													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	35433067	35433067	+	IGR	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:35433067delA								TBX20 (139825 upstream) : HERPUD2 (239205 downstream)																							ATGGAAATCCAAAAGTCTAAA	0.398													4	2	---	---	---	---	
POU6F2	11281	broad.mit.edu	37	7	39244165	39244166	+	Intron	INS	-	T	T	rs138718439		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:39244165_39244166insT	uc003thb.1	+						POU6F2_uc010kxo.2_Intron	NM_007252	NP_009183	P78424	PO6F2_HUMAN	POU class 6 homeobox 2 isoform 1						central nervous system development|ganglion mother cell fate determination|transcription from RNA polymerase II promoter|visual perception		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1						TGTGGAAACACTTTTTTTTTTT	0.317													5	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	47090048	47090049	+	IGR	DEL	TG	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:47090048_47090049delTG								None (None upstream) : TNS3 (224704 downstream)																							tgcactcatttgtgtgtgtatg	0.000													4	2	---	---	---	---	
ZPBP	11055	broad.mit.edu	37	7	49980478	49980478	+	Intron	DEL	G	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:49980478delG	uc003tou.2	-						ZPBP_uc011kci.1_Intron|ZPBP_uc010kyw.2_Intron	NM_007009	NP_008940	Q9BS86	ZPBP1_HUMAN	zona pellucida binding protein isoform 1						binding of sperm to zona pellucida	extracellular region					0	Glioma(55;0.08)|all_neural(89;0.245)					AGACAACAAAGGGGAACATAG	0.259													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	62547646	62547646	+	IGR	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:62547646delT								None (None upstream) : LOC643955 (204026 downstream)																							ATTTGTAGCAttttttttttg	0.179													6	4	---	---	---	---	
AUTS2	26053	broad.mit.edu	37	7	70233207	70233207	+	Intron	DEL	G	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:70233207delG	uc003tvw.3	+						AUTS2_uc003tvx.3_Intron|AUTS2_uc011keg.1_Intron	NM_015570	NP_056385	Q8WXX7	AUTS2_HUMAN	autism susceptibility candidate 2 isoform 1											ovary(2)|central_nervous_system(1)	3		all_cancers(73;0.0264)|all_epithelial(88;0.0198)|Lung NSC(55;0.0599)|all_lung(88;0.093)		LUSC - Lung squamous cell carcinoma(90;0.082)|Lung(90;0.186)		CTTTTGTGGTGTTTTGCTTTT	0.433													30	19	---	---	---	---	
CALN1	83698	broad.mit.edu	37	7	71391158	71391158	+	Intron	DEL	C	-	-	rs11761934	byFrequency	TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:71391158delC	uc003twa.3	-						CALN1_uc003twb.3_Intron|CALN1_uc003twc.3_Intron	NM_001017440	NP_001017440	Q9BXU9	CABP8_HUMAN	calneuron 1 isoform 2							Golgi apparatus|integral to membrane|perinuclear region of cytoplasm|plasma membrane	calcium ion binding			skin(1)	1		all_cancers(73;0.069)|Lung NSC(55;0.0658)|all_lung(88;0.0912)|all_epithelial(88;0.161)				TTCCTCCTCTCCCCAACCCCC	0.547													4	2	---	---	---	---	
STAG3L2	442582	broad.mit.edu	37	7	74300557	74300564	+	Frame_Shift_Del	DEL	AGAGCTCC	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:74300557_74300564delAGAGCTCC	uc003ubj.3	-	5	625_632	c.243_250delGGAGCTCT	c.(241-252)CTGGAGCTCTTCfs	p.L81fs	STAG3L2_uc011kfj.1_RNA	NM_001025202	NP_001020373	P0CL84	ST3L2_HUMAN	STAG3-like	81_84	SCD.					nucleus	binding				0						CGGCCAGTGAAGAGCTCCAGGCGTGCGG	0.572													4	2	---	---	---	---	
CCDC146	57639	broad.mit.edu	37	7	76765842	76765842	+	Intron	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:76765842delA	uc003uga.2	+						CCDC146_uc003ufz.1_Intron	NM_020879	NP_065930	Q8IYE0	CC146_HUMAN	coiled-coil domain containing 146											ovary(1)|central_nervous_system(1)	2		all_cancers(73;0.128)|all_lung(88;0.0986)|all_epithelial(88;0.163)|Myeloproliferative disorder(862;0.205)				gataacttagaaaaaatggac	0.000													4	2	---	---	---	---	
DYNC1I1	1780	broad.mit.edu	37	7	95652522	95652522	+	Intron	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:95652522delT	uc003uoc.3	+						DYNC1I1_uc003uod.3_Intron|DYNC1I1_uc003uob.2_Intron|DYNC1I1_uc003uoe.3_Intron|DYNC1I1_uc010lfl.2_Intron	NM_004411	NP_004402	O14576	DC1I1_HUMAN	dynein, cytoplasmic 1, intermediate chain 1						vesicle transport along microtubule	condensed chromosome kinetochore|cytoplasmic dynein complex|microtubule|perinuclear region of cytoplasm|spindle pole|vesicle	microtubule binding|microtubule motor activity			ovary(3)|kidney(1)	4	all_cancers(62;9.39e-10)|all_epithelial(64;2.28e-09)|Lung NSC(181;0.165)|all_lung(186;0.191)		STAD - Stomach adenocarcinoma(171;0.0957)			TCAGCCACCATTTAACAGCAT	0.458													4	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	96088615	96088615	+	IGR	DEL	C	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:96088615delC								SLC25A13 (137156 upstream) : SHFM1 (213622 downstream)																							ccaggataggcatagtgggaa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	102021199	102021199	+	Intron	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:102021199delA	uc003uzd.1	+						uc003uze.1_Intron|PRKRIP1_uc003uzf.2_Intron|PRKRIP1_uc003uzg.2_Intron|PRKRIP1_uc011kkq.1_Intron	NM_001003686	NP_001003686			SubName: Full=Putative uncharacterized protein PMS2L3;																		TTTTTCCCTTAAAAAAAAAAA	0.358													7	6	---	---	---	---	
SLC26A3	1811	broad.mit.edu	37	7	107414905	107414905	+	Intron	DEL	G	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:107414905delG	uc003ver.2	-						SLC26A3_uc003ves.2_Intron	NM_000111	NP_000102	P40879	S26A3_HUMAN	solute carrier family 26, member 3						excretion	integral to membrane|membrane fraction	inorganic anion exchanger activity|secondary active sulfate transmembrane transporter activity|sequence-specific DNA binding transcription factor activity|transcription cofactor activity			ovary(3)|skin(1)	4						aggctgaggtgggagggtcgc	0.010													4	2	---	---	---	---	
AHCYL2	23382	broad.mit.edu	37	7	129019300	129019300	+	Intron	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:129019300delA	uc011kov.1	+						AHCYL2_uc003vot.2_Intron|AHCYL2_uc003vov.2_Intron|AHCYL2_uc011kow.1_Intron|AHCYL2_uc011kox.1_Intron	NM_015328	NP_056143	Q96HN2	SAHH3_HUMAN	S-adenosylhomocysteine hydrolase-like 2 isoform						one-carbon metabolic process		adenosylhomocysteinase activity			ovary(2)	2						atctctatttaaaaaaaaaaa	0.144													6	3	---	---	---	---	
ZYX	7791	broad.mit.edu	37	7	143067442	143067442	+	Intron	DEL	G	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:143067442delG	uc011ktd.1	+							NM_003461	NP_003452	Q15942	ZYX_HUMAN	zyxin						cell adhesion|cell-cell signaling|interspecies interaction between organisms|signal transduction	cell-cell adherens junction|cytoplasm|focal adhesion|integral to plasma membrane|nucleus|stress fiber	protein binding|zinc ion binding				0	Melanoma(164;0.205)					cagctcacacggggggctccc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	143509041	143509041	+	Intron	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:143509041delA	uc011ktn.1	+						uc011kto.1_Intron|uc011ktp.1_Intron|LOC154761_uc011ktq.1_Intron|LOC154761_uc011ktr.1_Intron|LOC154761_uc011kts.1_Intron|LOC154761_uc003wdj.1_Intron	NM_001130026	NP_001123498			hypothetical protein LOC285966 isoform B																		gtttttcaccaaaaaaaaaac	0.020													2	4	---	---	---	---	
MLL3	58508	broad.mit.edu	37	7	152105489	152105490	+	Intron	INS	-	A	A	rs145707820		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:152105489_152105490insA	uc003wla.2	-							NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3						intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		TTCAATATATTAAAAAAATTAT	0.178			N		medulloblastoma								3	3	---	---	---	---	
DPP6	1804	broad.mit.edu	37	7	154438202	154438202	+	Intron	DEL	C	-	-	rs11307229		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:154438202delC	uc003wlk.2	+						DPP6_uc003wli.2_Intron|DPP6_uc003wlm.2_Intron|DPP6_uc011kvq.1_Intron	NM_130797	NP_570629	P42658	DPP6_HUMAN	dipeptidyl-peptidase 6 isoform 1						cell death|proteolysis	integral to membrane	dipeptidyl-peptidase activity|serine-type peptidase activity			pancreas(3)|breast(1)	4	all_neural(206;0.181)	all_hematologic(28;0.0044)|all_lung(21;0.0176)|Lung NSC(21;0.0204)	OV - Ovarian serous cystadenocarcinoma(82;0.0562)			TCTGACCCTTCAAGCCACAGC	0.458													3	4	---	---	---	---	
SOX7	83595	broad.mit.edu	37	8	10691260	10691260	+	Intron	DEL	C	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:10691260delC	uc011kwz.1	-						PINX1_uc003wth.2_Intron|PINX1_uc003wti.2_Intron	NM_031439	NP_113627	Q9BT81	SOX7_HUMAN	SRY-box 7						endoderm formation|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|positive regulation of caspase activity|regulation of canonical Wnt receptor signaling pathway	cytoplasm|nucleus	transcription regulatory region DNA binding			breast(1)	1				COAD - Colon adenocarcinoma(149;0.0732)		ACGACTGGGGCTGCGGGAGGC	0.408													3	3	---	---	---	---	
FAM66D	100132923	broad.mit.edu	37	8	12039174	12039175	+	Intron	INS	-	G	G			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:12039174_12039175insG	uc011kxp.1	+											Homo sapiens cDNA FLJ37098 fis, clone BRACE2019004.												0						GGTGGGACCATGGGGGGTCTGG	0.609													8	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	15223134	15223134	+	IGR	DEL	C	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:15223134delC								SGCZ (127342 upstream) : TUSC3 (174596 downstream)																							cacccagcttcccaccccatg	0.144													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	15864765	15864765	+	IGR	DEL	A	-	-	rs4988675	by1000genomes	TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:15864765delA								TUSC3 (242772 upstream) : MSR1 (100623 downstream)																							aagtaaaaagaaaaaaaaaAA	0.239													4	2	---	---	---	---	
XPO7	23039	broad.mit.edu	37	8	21807226	21807229	+	Intron	DEL	TGTT	-	-	rs67297450		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:21807226_21807229delTGTT	uc003xaa.3	+						XPO7_uc010lti.2_Intron|XPO7_uc010ltj.1_Intron	NM_015024	NP_055839	Q9UIA9	XPO7_HUMAN	exportin 7 isoform b						mRNA transport|protein export from nucleus|transmembrane transport	cytoplasm|nuclear pore	nuclear export signal receptor activity|protein transporter activity			ovary(1)|kidney(1)|breast(1)|central_nervous_system(1)|pancreas(1)	5				Colorectal(74;0.0187)|COAD - Colon adenocarcinoma(73;0.0724)		ATGGCCAGGCTGTttgttgttgtt	0.284													4	8	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	23473118	23473118	+	IGR	DEL	C	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:23473118delC								SLC25A37 (43057 upstream) : NKX3-1 (63089 downstream)																							ACCAGGCTAACAAAGGAAGGG	0.413													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	57626237	57626237	+	IGR	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:57626237delT								PENK (266955 upstream) : IMPAD1 (244254 downstream)																							TTTCACTTCCTTCCTTTTGTA	0.299													4	2	---	---	---	---	
CLVS1	157807	broad.mit.edu	37	8	62347858	62347858	+	Intron	DEL	T	-	-	rs78699067		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:62347858delT	uc003xuh.2	+						CLVS1_uc003xui.2_Intron|CLVS1_uc010lyp.2_Intron	NM_173519	NP_775790	Q8IUQ0	CLVS1_HUMAN	retinaldehyde binding protein 1-like 1						lysosome organization	clathrin-coated vesicle|early endosome membrane|trans-Golgi network	phosphatidylinositol-3,5-bisphosphate binding|transporter activity			skin(4)|ovary(1)	5						TCAGGAGCTATTTTTTTTTAC	0.388													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	93438817	93438817	+	IGR	DEL	A	-	-	rs66556162		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:93438817delA								RUNX1T1 (331111 upstream) : C8orf83 (457048 downstream)																							ATAGAGAGAGAAAAAAAGAGG	0.378													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	96947575	96947575	+	IGR	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:96947575delT								C8orf37 (666138 upstream) : GDF6 (206985 downstream)																							TGGCTACAACTTTTTTTTCTA	0.418													4	2	---	---	---	---	
VPS13B	157680	broad.mit.edu	37	8	100803049	100803049	+	Intron	DEL	G	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:100803049delG	uc003yiv.2	+						VPS13B_uc003yiw.2_Intron	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5						protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			atgtgtgaaagccacagagac	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	122884256	122884256	+	IGR	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:122884256delT								HAS2AS (227323 upstream) : ZHX2 (909645 downstream)																							caaaggtagctttttttttta	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	127846109	127846110	+	IGR	INS	-	TTG	TTG	rs150569833	by1000genomes	TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:127846109_127846110insTTG								FAM84B (275643 upstream) : LOC727677 (455952 downstream)																							TATCTGCAGTTTTGTTGTTGTT	0.465													4	2	---	---	---	---	
ASAP1	50807	broad.mit.edu	37	8	131317491	131317491	+	Intron	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:131317491delA	uc003yta.1	-						ASAP1_uc011liw.1_Intron	NM_018482	NP_060952	Q9ULH1	ASAP1_HUMAN	development and differentiation enhancing factor						cilium morphogenesis|filopodium assembly|regulation of ARF GTPase activity|signal transduction	cytoplasm|membrane	ARF GTPase activator activity|cytoskeletal adaptor activity|SH3 domain binding|zinc ion binding			ovary(4)	4						tgtccccactaaaaaacaaat	0.005													4	2	---	---	---	---	
ADCY8	114	broad.mit.edu	37	8	131965808	131965808	+	Intron	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:131965808delA	uc003ytd.3	-						ADCY8_uc010mds.2_Intron	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8						activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			gtgagatgggaaaagtcttgg	0.109										HNSCC(32;0.087)			4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	135244660	135244660	+	IGR	DEL	A	-	-	rs112859771		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:135244660delA								ST3GAL1 (660477 upstream) : ZFAT (245373 downstream)																							aggcaaaaagaaaaaaaaaag	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	7195576	7195577	+	IGR	INS	-	GGC	GGC	rs142826725	by1000genomes	TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:7195576_7195577insGGC								KDM4C (19929 upstream) : C9orf123 (600916 downstream)																							gactaggaagtggcctgtgtgg	0.134													4	3	---	---	---	---	
PTPRD	5789	broad.mit.edu	37	9	8925765	8925765	+	Intron	DEL	C	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:8925765delC	uc003zkk.2	-						PTPRD_uc003zkl.2_Intron|PTPRD_uc003zkm.2_Intron|PTPRD_uc003zkn.2_Intron|PTPRD_uc003zko.2_Intron|PTPRD_uc003zkt.1_Intron	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D						transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		TCTCCTTTCTCCCCCTGACAC	0.433										TSP Lung(15;0.13)			4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	26211012	26211012	+	IGR	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:26211012delT								TUSC1 (532156 upstream) : C9orf82 (629672 downstream)																							AACATCTGTCTTTTTTAGAAT	0.438													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	38742896	38742896	+	IGR	DEL	G	-	-	rs11305165		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:38742896delG								C9orf122 (119621 upstream) : CNTNAP3 (329870 downstream)																							CATTTTGGCTGGAGCACGGAG	0.512													2	12	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	66481125	66481125	+	IGR	DEL	G	-	-	rs2220719	by1000genomes	TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:66481125delG								FAM74A4 (986739 upstream) : LOC442421 (15345 downstream)																							ttaagggtttgttgtgtctct	0.000													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	66539888	66539888	+	Intron	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:66539888delT	uc010mnh.1	-						uc004aef.2_Intron					Homo sapiens cDNA FLJ20444 fis, clone KAT05128.																		CTGCCTCCACTTTTTTTTGCA	0.333													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	68425242	68425242	+	IGR	DEL	A	-	-	rs66621105		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:68425242delA								FAM27B (631053 upstream) : MIR1299 (576997 downstream)																							TTTTGTGGCTACTCAAATTTT	0.184													4	4	---	---	---	---	
RORB	6096	broad.mit.edu	37	9	77239948	77239948	+	Intron	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:77239948delA	uc004aji.2	+						RORB_uc004ajh.2_Intron	NM_006914	NP_008845	Q92753	RORB_HUMAN	RAR-related orphan receptor B						eye photoreceptor cell development|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|visual perception	nucleoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(2)|lung(1)|skin(1)	4						TCCTTAAGGCAAAAAAAAAAG	0.403													5	3	---	---	---	---	
TMOD1	7111	broad.mit.edu	37	9	100286779	100286780	+	Intron	INS	-	GTGT	GTGT			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:100286779_100286780insGTGT	uc004axk.1	+						TMOD1_uc004axl.1_Intron	NM_003275	NP_003266	P28289	TMOD1_HUMAN	tropomodulin 1						muscle filament sliding	cytosol	actin binding				0		Acute lymphoblastic leukemia(62;0.154)		STAD - Stomach adenocarcinoma(157;0.105)		gaaccaatagggtgtgtgtgtg	0.104													5	3	---	---	---	---	
GABBR2	9568	broad.mit.edu	37	9	101183147	101183147	+	Intron	DEL	G	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:101183147delG	uc004ays.2	-							NM_005458	NP_005449	O75899	GABR2_HUMAN	G protein-coupled receptor 51 precursor						negative regulation of adenylate cyclase activity|synaptic transmission	cell junction|integral to plasma membrane|postsynaptic membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(2)|skin(2)	4		Acute lymphoblastic leukemia(62;0.0527)			Baclofen(DB00181)	ctaggttgaagggtggcagaa	0.109													4	2	---	---	---	---	
PTGR1	22949	broad.mit.edu	37	9	114325790	114325791	+	Intron	DEL	TT	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:114325790_114325791delTT	uc004bfh.2	-						ZNF483_uc004bfg.2_Intron|PTGR1_uc011lwr.1_Intron|PTGR1_uc004bfi.3_Intron|PTGR1_uc004bfj.3_3'UTR	NM_012212	NP_036344	Q14914	PTGR1_HUMAN	prostaglandin reductase 1 isoform 1						leukotriene metabolic process	cytoplasm	15-oxoprostaglandin 13-oxidase activity|2-alkenal reductase activity|alcohol dehydrogenase (NAD) activity|zinc ion binding				0						tttttctttctttttttttttt	0.153													4	2	---	---	---	---	
RALGPS1	9649	broad.mit.edu	37	9	129789008	129789008	+	Intron	DEL	C	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:129789008delC	uc004bqo.1	+						RALGPS1_uc011mab.1_Intron|RALGPS1_uc011mac.1_Intron|RALGPS1_uc004bqq.3_Intron	NM_014636	NP_055451	Q5JS13	RGPS1_HUMAN	Ral GEF with PH domain and SH3 binding motif 1						small GTPase mediated signal transduction	cytoplasm|plasma membrane	guanyl-nucleotide exchange factor activity			ovary(1)	1						TGACTTTTTTCCCCTGGCTTT	0.507													4	2	---	---	---	---	
RAPGEF1	2889	broad.mit.edu	37	9	134612331	134612331	+	Intron	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:134612331delA	uc004cbc.2	-						RAPGEF1_uc010mzn.2_Intron|RAPGEF1_uc004cbd.2_Intron	NM_005312	NP_005303	Q13905	RPGF1_HUMAN	guanine nucleotide-releasing factor 2 isoform a						activation of MAPKK activity|nerve growth factor receptor signaling pathway|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|endosome	guanyl-nucleotide exchange factor activity|SH3 domain binding			lung(3)|ovary(2)|breast(1)|skin(1)	7		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;2.19e-05)|Epithelial(140;0.000364)		GAAGTCCATTAAAAAAACTCC	0.453													4	2	---	---	---	---	
C9orf171	389799	broad.mit.edu	37	9	135352772	135352772	+	Intron	DEL	A	-	-	rs35158217		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:135352772delA	uc004cbn.2	+						C9orf171_uc004cbo.2_Intron	NM_207417	NP_997300	Q6ZQR2	CI171_HUMAN	hypothetical protein LOC389799											ovary(4)|large_intestine(1)	5						accagccaccaaaccccatcc	0.035													4	2	---	---	---	---	
ADAMTS13	11093	broad.mit.edu	37	9	136309475	136309475	+	Intron	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:136309475delT	uc004cdv.3	+						ADAMTS13_uc004cdp.3_Intron|ADAMTS13_uc004cdt.1_Intron|ADAMTS13_uc004cdu.1_Intron|ADAMTS13_uc004cdw.3_Intron|ADAMTS13_uc004cdx.3_Intron|ADAMTS13_uc004cdy.1_Intron|ADAMTS13_uc004cdz.3_Intron|ADAMTS13_uc004cds.1_Intron|ADAMTS13_uc004cdr.1_Intron	NM_139025	NP_620594	Q76LX8	ATS13_HUMAN	ADAM metallopeptidase with thrombospondin type 1						cell-matrix adhesion|glycoprotein metabolic process|integrin-mediated signaling pathway|peptide catabolic process|platelet activation|protein processing|proteolysis	cell surface|proteinaceous extracellular matrix	calcium ion binding|integrin binding|metalloendopeptidase activity|zinc ion binding			central_nervous_system(2)|skin(2)|ovary(1)|kidney(1)	6				OV - Ovarian serous cystadenocarcinoma(145;1.06e-07)|Epithelial(140;1.28e-06)|all cancers(34;1.46e-05)		ATGGGttctcttttttttttt	0.279													4	2	---	---	---	---	
COL5A1	1289	broad.mit.edu	37	9	137618893	137618896	+	Intron	DEL	GGAT	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:137618893_137618896delGGAT	uc004cfe.2	+							NM_000093	NP_000084	P20908	CO5A1_HUMAN	alpha 1 type V collagen preproprotein						axon guidance|cell adhesion|collagen biosynthetic process|collagen fibril organization|eye morphogenesis|fibril organization|integrin biosynthetic process|skin development|wound healing, spreading of epidermal cells	collagen type V	heparin binding|integrin binding|platelet-derived growth factor binding|proteoglycan binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|kidney(1)	11		Myeloproliferative disorder(178;0.0341)		all cancers(34;2.28e-08)|OV - Ovarian serous cystadenocarcinoma(145;6.03e-08)|Epithelial(140;6.4e-08)|GBM - Glioblastoma multiforme(294;0.131)		atgagtgaacggatggatggatgg	0.176													8	5	---	---	---	---	
UBAC1	10422	broad.mit.edu	37	9	138824581	138824582	+	Intron	INS	-	C	C	rs145697296	by1000genomes	TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:138824581_138824582insC	uc004cgs.1	-							NM_016172	NP_057256	Q9BSL1	UBAC1_HUMAN	ubiquitin associated domain containing 1							Golgi apparatus|plasma membrane	protein binding			skin(2)	2		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;1.1e-06)|Epithelial(140;7.79e-06)		GGCGGAGGCAGCCGTGCTTGGG	0.455													4	2	---	---	---	---	
GTPBP4	23560	broad.mit.edu	37	10	1057372	1057375	+	Intron	DEL	AACA	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:1057372_1057375delAACA	uc001ift.2	+						GTPBP4_uc001ifu.2_Intron|GTPBP4_uc010qad.1_Intron|GTPBP4_uc010qae.1_Intron	NM_012341	NP_036473	Q9BZE4	NOG1_HUMAN	G protein-binding protein CRFG						negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of cell-cell adhesion|negative regulation of collagen binding|negative regulation of DNA replication|negative regulation of protein ubiquitination|protein stabilization|regulation of cyclin-dependent protein kinase activity|ribosome biogenesis	nucleolus|perinuclear region of cytoplasm	GTP binding|GTPase activity|protein binding			ovary(1)|skin(1)	2		all_epithelial(10;0.107)|Colorectal(49;0.14)	OV - Ovarian serous cystadenocarcinoma(33;0.0814)	Epithelial(11;0.0513)|all cancers(11;0.135)|OV - Ovarian serous cystadenocarcinoma(14;0.173)		GAAACATGCTAACATGCTTATACA	0.422													4	2	---	---	---	---	
ADARB2	105	broad.mit.edu	37	10	1229304	1229304	+	Frame_Shift_Del	DEL	G	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:1229304delG	uc009xhq.2	-	10	2423	c.2049delC	c.(2047-2049)AGCfs	p.S683fs	uc001igj.1_5'Flank|ADARB2_uc009xhp.2_Frame_Shift_Del_p.S67fs|ADARB2_uc001igl.3_Frame_Shift_Del_p.S45fs|ADARB2_uc001igm.3_Frame_Shift_Del_p.S192fs	NM_018702	NP_061172	Q9NS39	RED2_HUMAN	adenosine deaminase, RNA-specific, B2	683	A to I editase.				mRNA processing	mitochondrion|nucleus	adenosine deaminase activity|double-stranded RNA binding|metal ion binding|single-stranded RNA binding			large_intestine(2)|central_nervous_system(1)	3		all_epithelial(10;0.059)|Colorectal(49;0.0815)		all cancers(11;0.0224)|GBM - Glioblastoma multiforme(2;0.0414)|Epithelial(11;0.165)		GTGTCCGTGTGCTCAGCTGCG	0.567													39	20	---	---	---	---	
ADARB2	105	broad.mit.edu	37	10	1521884	1521884	+	Intron	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:1521884delA	uc009xhq.2	-							NM_018702	NP_061172	Q9NS39	RED2_HUMAN	adenosine deaminase, RNA-specific, B2						mRNA processing	mitochondrion|nucleus	adenosine deaminase activity|double-stranded RNA binding|metal ion binding|single-stranded RNA binding			large_intestine(2)|central_nervous_system(1)	3		all_epithelial(10;0.059)|Colorectal(49;0.0815)		all cancers(11;0.0224)|GBM - Glioblastoma multiforme(2;0.0414)|Epithelial(11;0.165)		ggtttccaccaataacaccag	0.234													4	2	---	---	---	---	
PFKP	5214	broad.mit.edu	37	10	3161275	3161276	+	Intron	INS	-	AACTT	AACTT			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:3161275_3161276insAACTT	uc001igp.2	+						PFKP_uc001igq.2_Intron|PFKP_uc009xhr.2_Intron|PFKP_uc009xhs.1_Intron|PFKP_uc009xht.2_Intron|PFKP_uc009xhu.2_Intron	NM_002627	NP_002618	Q01813	K6PP_HUMAN	phosphofructokinase, platelet						glycolysis	6-phosphofructokinase complex	6-phosphofructokinase activity|ATP binding|metal ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)|lung(1)	3				GBM - Glioblastoma multiforme(1;0.000975)|all cancers(11;0.00351)|Epithelial(11;0.142)		AACCGAGAAGCAAAAGCTTGAC	0.495													3	3	---	---	---	---	
RBM17	84991	broad.mit.edu	37	10	6138144	6138144	+	Intron	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:6138144delT	uc001ijb.2	+						RBM17_uc010qav.1_Intron	NM_032905	NP_116294	Q96I25	SPF45_HUMAN	RNA binding motif protein 17						mRNA processing|RNA splicing	spliceosomal complex	nucleotide binding|protein binding|RNA binding				0						AGAATGTTGATTTTTTTTTTA	0.438													5	3	---	---	---	---	
DHTKD1	55526	broad.mit.edu	37	10	12150195	12150196	+	Intron	INS	-	TTT	TTT			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:12150195_12150196insTTT	uc001ild.3	+							NM_018706	NP_061176	Q96HY7	DHTK1_HUMAN	dehydrogenase E1 and transketolase domain						glycolysis	mitochondrion	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			ovary(1)|central_nervous_system(1)	2		Renal(717;0.228)	BRCA - Breast invasive adenocarcinoma(52;0.188)			TTGTATCACGGTTTTATGGCAA	0.361													10	5	---	---	---	---	
MCM10	55388	broad.mit.edu	37	10	13233564	13233567	+	Intron	DEL	AAGC	-	-	rs112703555		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:13233564_13233567delAAGC	uc001ima.2	+						MCM10_uc001imb.2_Intron|MCM10_uc001imc.2_Intron	NM_182751	NP_877428	Q7L590	MCM10_HUMAN	minichromosome maintenance complex component 10						cell cycle checkpoint|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle	nucleoplasm	metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3						ATAAATAAATaagcaagcaagcaa	0.137													4	2	---	---	---	---	
BEND7	222389	broad.mit.edu	37	10	13538683	13538683	+	Intron	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:13538683delA	uc001imm.2	-						BEND7_uc001imo.3_Intron	NM_152751	NP_689964	Q8N7W2	BEND7_HUMAN	BEN domain containing 7 isoform 1								protein binding			ovary(1)|breast(1)	2						AGGCTTTAATAAAAGCACAAT	0.373													76	35	---	---	---	---	
CUBN	8029	broad.mit.edu	37	10	17051624	17051624	+	Intron	DEL	G	-	-	rs66795418		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:17051624delG	uc001ioo.2	-							NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor						cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	ctgactgtacggatgaatcac	0.204													2	5	---	---	---	---	
ARMC3	219681	broad.mit.edu	37	10	23273811	23273811	+	Intron	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:23273811delT	uc001irm.3	+						ARMC3_uc010qcv.1_Intron|ARMC3_uc010qcw.1_Intron	NM_173081	NP_775104	Q5W041	ARMC3_HUMAN	armadillo repeat containing 3								binding				0						CAACCTTCTGtttttttttta	0.104													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	24837822	24837823	+	IGR	DEL	AG	-	-	rs151143521		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:24837822_24837823delAG								KIAA1217 (1051 upstream) : ARHGAP21 (34715 downstream)																							TGGAGAAACCAGAGTCAGGTGT	0.406													4	2	---	---	---	---	
ARHGAP21	57584	broad.mit.edu	37	10	24886020	24886020	+	Intron	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:24886020delA	uc001isb.2	-						ARHGAP21_uc010qdb.1_Intron|ARHGAP21_uc009xkl.1_Intron	NM_020824	NP_065875	Q5T5U3	RHG21_HUMAN	Rho GTPase activating protein 21						signal transduction	cell junction|cytoplasmic vesicle membrane|cytoskeleton|Golgi membrane	GTPase activator activity|protein binding			ovary(7)|pancreas(1)	8						TTAAAACAGCAAAAAAAAAAA	0.254													4	4	---	---	---	---	
WAC	51322	broad.mit.edu	37	10	28904911	28904912	+	Intron	INS	-	C	C			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:28904911_28904912insC	uc001iuf.2	+						WAC_uc001iud.2_Intron|WAC_uc001iue.2_Intron|WAC_uc001iug.2_Intron|WAC_uc001iuh.2_Intron	NM_016628	NP_057712	Q9BTA9	WAC_HUMAN	WW domain-containing adapter with a coiled-coil						cell cycle checkpoint|histone H2B conserved C-terminal lysine ubiquitination|histone monoubiquitination|positive regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	nuclear speck	chromatin binding|RNA polymerase II core binding			large_intestine(1)|ovary(1)	2						AAGGGTTTTTTCCCCCTAAAGT	0.297													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	42530677	42530678	+	IGR	INS	-	T	T			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:42530677_42530678insT								None (None upstream) : LOC441666 (296637 downstream)																							tctaaagaacgttcaactctgt	0.000													23	10	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	42658198	42658199	+	IGR	INS	-	CAGA	CAGA			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:42658198_42658199insCAGA								None (None upstream) : LOC441666 (169116 downstream)																							ATTTCACTAACCAGAACAACTT	0.297													5	3	---	---	---	---	
LOC84856	84856	broad.mit.edu	37	10	42980859	42980860	+	Intron	DEL	CA	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:42980859_42980860delCA	uc001izy.2	+						LOC84856_uc009xmf.2_Intron|LOC84856_uc001izz.1_Intron	NR_026827				Homo sapiens cDNA FLJ33470 fis, clone BRAMY2002044.												0						TTATAGACTTCACTAATCTTTG	0.287													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	45672991	45672991	+	Intron	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:45672991delA	uc001jcb.1	+						uc009xmr.1_Intron					Homo sapiens cDNA FLJ25822 fis, clone TST07893.																		GAGAAGTATCAAAAAAAATAA	0.234													4	3	---	---	---	---	
ARHGAP22	58504	broad.mit.edu	37	10	49856163	49856163	+	Intron	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:49856163delT	uc010qgm.1	-						ARHGAP22_uc001jgv.2_Intron	NM_021226	NP_067049	Q7Z5H3	RHG22_HUMAN	Rho GTPase activating protein 2						angiogenesis|cell differentiation|regulation of small GTPase mediated signal transduction|regulation of transcription, DNA-dependent|small GTPase mediated signal transduction|transcription, DNA-dependent	cytosol|nucleus	GTPase activator activity			ovary(1)	1						gtgatgatggttttacaactc	0.005													4	2	---	---	---	---	
CDH23	64072	broad.mit.edu	37	10	73566703	73566703	+	Intron	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:73566703delT	uc001jrx.3	+						CDH23_uc001jsg.3_Intron|CDH23_uc001jsh.3_Intron|CDH23_uc001jsi.3_Intron	NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor						calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						GACATGGTTGTTTTTTCTTCT	0.443													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	81800217	81800219	+	IGR	DEL	AAC	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:81800217_81800219delAAC								MBL1P (89434 upstream) : LOC219347 (5772 downstream)																							CAATAAAGATAACAACCTTTGGA	0.271													4	2	---	---	---	---	
WAPAL	23063	broad.mit.edu	37	10	88227427	88227428	+	Intron	INS	-	A	A			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:88227427_88227428insA	uc001kdo.2	-						WAPAL_uc009xsv.2_Intron|WAPAL_uc001kdn.2_Intron|WAPAL_uc009xsw.2_Intron	NM_015045	NP_055860	Q7Z5K2	WAPL_HUMAN	wings apart-like homolog						cell division|interspecies interaction between organisms|mitosis|negative regulation of chromatin binding|negative regulation of DNA replication|negative regulation of sister chromatid cohesion|protein localization to chromatin|regulation of cohesin localization to chromatin	chromatin|cohesin complex|cytoplasm	protein binding			ovary(1)	1						GCGGTCCCTCTAAAAAAttttt	0.144													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	88784706	88784711	+	IGR	DEL	TTTTTG	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:88784706_88784711delTTTTTG								AGAP11 (220 upstream) : GLUD1 (25535 downstream)																							ctactttgtttttttgtttttgtttt	0.000													3	3	---	---	---	---	
TMEM180	79847	broad.mit.edu	37	10	104235833	104235833	+	3'UTR	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:104235833delT	uc001kvt.2	+	10					TMEM180_uc010qql.1_3'UTR|TMEM180_uc010qqm.1_Intron	NM_024789	NP_079065	Q14CX5	TM180_HUMAN	transmembrane protein 180							integral to membrane				ovary(1)	1		Colorectal(252;0.122)		Epithelial(162;3.93e-09)|all cancers(201;1.02e-07)|BRCA - Breast invasive adenocarcinoma(275;0.215)		GATTTCATAGttttttttttt	0.239													4	3	---	---	---	---	
NEURL	9148	broad.mit.edu	37	10	105265723	105265725	+	Intron	DEL	GGA	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:105265723_105265725delGGA	uc001kxh.2	+							NM_004210	NP_004201	O76050	NEU1A_HUMAN	neuralized-like						nervous system development	perinuclear region of cytoplasm	zinc ion binding				0				Epithelial(162;2.12e-09)|all cancers(201;6.99e-08)|BRCA - Breast invasive adenocarcinoma(275;0.125)		TGGGGACAGGGGAGGAGGAGGAG	0.552													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	113862942	113862943	+	IGR	INS	-	T	T	rs148851882	by1000genomes	TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:113862942_113862943insT								None (None upstream) : GPAM (46679 downstream)																							CCTGACTAGAATAGAGCTCAAC	0.465													4	4	---	---	---	---	
GPAM	57678	broad.mit.edu	37	10	113913628	113913629	+	Intron	DEL	TT	-	-	rs34031033		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:113913628_113913629delTT	uc009xxy.1	-						GPAM_uc001kzp.2_Intron	NM_020918	NP_065969	Q9HCL2	GPAT1_HUMAN	mitochondrial glycerol 3-phosphate						phospholipid biosynthetic process|triglyceride biosynthetic process	integral to membrane|mitochondrial outer membrane	glycerol-3-phosphate O-acyltransferase activity			ovary(1)|skin(1)	2				Epithelial(162;0.0306)|all cancers(201;0.123)		TCTTTTTCTATTTTTTTTTTTT	0.322													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	125754621	125754622	+	IGR	INS	-	C	C	rs140364171	by1000genomes	TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:125754621_125754622insC								CPXM2 (54842 upstream) : CHST15 (12564 downstream)																							TCTTTCTCTGGCCCCCCAGTTC	0.322											OREG0020604	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	4	---	---	---	---	
CTBP2	1488	broad.mit.edu	37	10	126705727	126705728	+	Intron	DEL	TT	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:126705727_126705728delTT	uc009yak.2	-						CTBP2_uc009yal.2_Intron|CTBP2_uc001lif.3_Intron|CTBP2_uc001lih.3_Intron|CTBP2_uc001lie.3_Intron	NM_001329	NP_001320	P56545	CTBP2_HUMAN	C-terminal binding protein 2 isoform 1						negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent|viral genome replication|white fat cell differentiation	cell junction|synapse|transcriptional repressor complex	NAD binding|oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor|protein binding				0		all_lung(145;0.0132)|Lung NSC(174;0.0193)|all_neural(114;0.116)|Colorectal(57;0.173)		Colorectal(40;0.00572)|COAD - Colon adenocarcinoma(40;0.0127)|GBM - Glioblastoma multiforme(135;0.147)		CAAGAAGAGCTTAACAACTTCA	0.564													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	130902060	130902060	+	IGR	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:130902060delA								MKI67 (977592 upstream) : MGMT (363394 downstream)																							CCTTTCCACCAAAAAAAAAAA	0.393													5	3	---	---	---	---	
INPP5A	3632	broad.mit.edu	37	10	134405275	134405295	+	Intron	DEL	GGAGCTCAGATCTCCTTTCCC	-	-	rs112603932		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:134405275_134405295delGGAGCTCAGATCTCCTTTCCC	uc001llp.2	+						INPP5A_uc001llo.1_Intron	NM_005539	NP_005530	Q14642	I5P1_HUMAN	inositol polyphosphate-5-phosphatase A						cell communication	membrane	inositol 1,3,4,5-tetrakisphosphate 5-phosphatase activity|inositol-1,4,5-trisphosphate 5-phosphatase activity|inositol-polyphosphate 5-phosphatase activity|PH domain binding			skin(1)	1		all_cancers(35;8.59e-13)|all_epithelial(44;5.49e-09)|Lung NSC(174;0.000854)|all_lung(145;0.00146)|all_neural(114;0.0299)|Colorectal(31;0.0599)|Breast(234;0.0849)|Melanoma(40;0.124)|all_hematologic(284;0.196)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;0.000102)|Epithelial(32;0.00023)|all cancers(32;0.000326)		GCAGGTGCAGGGAGCTCAGATCTCCTTTCCCGGAGCTGCGC	0.575													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	13071505	13071505	+	IGR	DEL	G	-	-	rs146393858	by1000genomes	TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:13071505delG								RASSF10 (38858 upstream) : ARNTL (227820 downstream)																							ccctctctttgtctctctctc	0.000													4	2	---	---	---	---	
STX3	6809	broad.mit.edu	37	11	59540448	59540449	+	Intron	DEL	AC	-	-	rs144328958	by1000genomes	TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:59540448_59540449delAC	uc001nog.2	+						STX3_uc010rkx.1_Intron|STX3_uc010rky.1_Intron	NM_004177	NP_004168	Q13277	STX3_HUMAN	syntaxin 3						cellular response to oxidative stress|intracellular protein transport|neuron projection development|neurotransmitter transport	apical plasma membrane|azurophil granule|cell-cell junction|growth cone|integral to membrane|plasma membrane enriched fraction|SNARE complex|specific granule	arachidonic acid binding|SNAP receptor activity			ovary(2)	2						CCTGAAAGAAacacacacacac	0.213													4	2	---	---	---	---	
TPCN2	219931	broad.mit.edu	37	11	68834849	68834850	+	Intron	DEL	CC	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:68834849_68834850delCC	uc001oos.2	+						TPCN2_uc009ysk.1_Intron|TPCN2_uc001oor.2_Intron|TPCN2_uc010rqg.1_Intron	NM_139075	NP_620714	Q8NHX9	TPC2_HUMAN	two pore segment channel 2						cellular calcium ion homeostasis|smooth muscle contraction	endosome membrane|integral to membrane|lysosomal membrane	NAADP-sensitive calcium-release channel activity|voltage-gated calcium channel activity				0			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			TGCTGGGAGGCCACAGGGAGAT	0.688													4	3	---	---	---	---	
CLPB	81570	broad.mit.edu	37	11	72046520	72046520	+	Intron	DEL	G	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:72046520delG	uc001osj.2	-						CLPB_uc010rqx.1_Intron|CLPB_uc010rqy.1_Intron|CLPB_uc001osk.2_Intron|CLPB_uc009ytg.2_Intron|CLPB_uc010rqz.1_Intron	NM_030813	NP_110440	Q9H078	CLPB_HUMAN	caseinolytic peptidase B						cellular response to heat		ATP binding|nucleoside-triphosphatase activity|protein binding			pancreas(1)	1						atttAACTGAGGGCAGATTTT	0.070													4	2	---	---	---	---	
MYO7A	4647	broad.mit.edu	37	11	76914682	76914682	+	Intron	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:76914682delA	uc001oyb.2	+						MYO7A_uc001oyc.2_Intron|MYO7A_uc001oye.2_5'Flank	NM_000260	NP_000251	Q13402	MYO7A_HUMAN	myosin VIIA isoform 1						actin filament-based movement|equilibrioception|lysosome organization|sensory perception of sound|visual perception	cytosol|lysosomal membrane|myosin complex|photoreceptor inner segment|photoreceptor outer segment|synapse	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(3)|breast(1)	4						ttagccaggcaaaggggaggg	0.085													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	95032799	95032799	+	IGR	DEL	T	-	-	rs75314639		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:95032799delT								SESN3 (67094 upstream) : FAM76B (469307 downstream)																							GGTTTTGTGATTTTTTTTTTT	0.498													9	4	---	---	---	---	
DDX10	1662	broad.mit.edu	37	11	108548163	108548163	+	Intron	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:108548163delT	uc001pkm.2	+						DDX10_uc001pkl.1_Intron	NM_004398	NP_004389	Q13206	DDX10_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 10								ATP binding|ATP-dependent helicase activity|RNA binding|RNA helicase activity			breast(2)|lung(1)|prostate(1)	4		all_cancers(61;1.29e-11)|all_epithelial(67;2.96e-07)|Melanoma(852;1.54e-05)|Acute lymphoblastic leukemia(157;4.24e-05)|all_hematologic(158;0.000141)|Breast(348;0.026)|all_neural(223;0.0729)		BRCA - Breast invasive adenocarcinoma(274;2.48e-05)|Epithelial(105;4.35e-05)|all cancers(92;0.000609)|OV - Ovarian serous cystadenocarcinoma(223;0.133)		AGAAAGTCCATTTTTTTTTGT	0.413			T	NUP98	AML*								9	5	---	---	---	---	
ZW10	9183	broad.mit.edu	37	11	113614257	113614257	+	Intron	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:113614257delA	uc001poe.2	-						ZW10_uc009yyv.2_Intron	NM_004724	NP_004715	O43264	ZW10_HUMAN	centromere/kinetochore protein zw10						cell division|ER to Golgi vesicle-mediated transport|establishment of mitotic spindle orientation|meiosis|mitotic cell cycle checkpoint|mitotic metaphase plate congression|mitotic prometaphase|protein complex assembly|protein localization to kinetochore|protein transport|regulation of exit from mitosis	condensed chromosome kinetochore|cytosol|endoplasmic reticulum membrane|kinetochore microtubule|nucleus|spindle pole	centromeric DNA binding|protein binding			central_nervous_system(1)|skin(1)	2		all_cancers(61;3.84e-16)|all_epithelial(67;1e-09)|Melanoma(852;1.46e-05)|all_hematologic(158;0.000237)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|all_neural(223;0.0281)|Prostate(24;0.0421)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;2.94e-06)|Epithelial(105;0.000103)|all cancers(92;0.000786)		TTTTAATGTCAAAAAAATCCA	0.254													4	2	---	---	---	---	
ZBTB16	7704	broad.mit.edu	37	11	114121372	114121372	+	3'UTR	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:114121372delA	uc001pop.2	+	7					ZBTB16_uc001poq.2_3'UTR	NM_006006	NP_005997	Q05516	ZBT16_HUMAN	promyelocytic leukemia zinc finger protein						apoptosis|central nervous system development|mesonephros development|myeloid cell differentiation|negative regulation of myeloid cell differentiation|negative regulation of transcription, DNA-dependent	nuclear speck|PML body|transcriptional repressor complex	protein homodimerization activity|zinc ion binding			central_nervous_system(1)|skin(1)	2		all_cancers(61;3.79e-18)|all_epithelial(67;2.32e-10)|all_hematologic(158;2.96e-05)|Melanoma(852;0.000362)|Acute lymphoblastic leukemia(157;0.00108)|Breast(348;0.0104)|all_neural(223;0.0294)|Prostate(24;0.0318)|Medulloblastoma(222;0.0438)		BRCA - Breast invasive adenocarcinoma(274;6.75e-06)|Epithelial(105;0.000181)|all cancers(92;0.0018)		aaaggaaaagaaaaaaaaaaa	0.468													8	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	115933486	115933486	+	IGR	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:115933486delA								CADM1 (558245 upstream) : BUD13 (685402 downstream)																							ACAAAGTGAGAAAAAAAAACC	0.517													4	2	---	---	---	---	
MLL	4297	broad.mit.edu	37	11	118391366	118391366	+	Intron	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:118391366delA	uc001pta.2	+						MLL_uc001ptb.2_Intron	NM_005933	NP_005924	Q03164	MLL1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia						apoptosis|embryonic hemopoiesis|histone H4-K16 acetylation|positive regulation of transcription, DNA-dependent|protein complex assembly|transcription from RNA polymerase II promoter	MLL1 complex	AT DNA binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-K4 specific)|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|unmethylated CpG binding|zinc ion binding			lung(7)|ovary(5)|kidney(5)|central_nervous_system(3)|pancreas(2)|urinary_tract(1)|breast(1)|skin(1)	25	all_hematologic(175;0.046)	all_hematologic(192;1.13e-50)|all_neural(223;3.18e-06)|Breast(348;1.07e-05)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.244)		OV - Ovarian serous cystadenocarcinoma(223;2.77e-44)|BRCA - Breast invasive adenocarcinoma(274;1.2e-11)|Lung(307;3.48e-06)|LUSC - Lung squamous cell carcinoma(976;7.92e-05)|Colorectal(284;0.144)		actccatctcaaaaaaaaaaG	0.194			T|O	MLL|MLLT1|MLLT2|MLLT3|MLLT4|MLLT7|MLLT10|MLLT6|ELL|EPS15|AF1Q|CREBBP|SH3GL1|FNBP1|PNUTL1|MSF|GPHN|GMPS|SSH3BP1|ARHGEF12|GAS7|FOXO3A|LAF4|LCX|SEPT6|LPP|CBFA2T1|GRAF|EP300|PICALM|HEAB	AML|ALL								4	2	---	---	---	---	
SIAE	54414	broad.mit.edu	37	11	124508930	124508931	+	Intron	DEL	AA	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:124508930_124508931delAA	uc001qan.2	-							NM_170601	NP_733746	Q9HAT2	SIAE_HUMAN	sialate O-acetylesterase precursor							extracellular region|lysosome	carboxylesterase activity|sialate O-acetylesterase activity				0	all_hematologic(175;0.215)	Breast(109;0.00109)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.63e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0243)		GAACTAACCTAAGAGAGCTAAC	0.243													2	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	126879621	126879626	+	IGR	DEL	GCAAAA	-	-	rs112199631		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:126879621_126879626delGCAAAA								KIRREL3 (6266 upstream) : None (None downstream)																							TGAGACCCTGGCAAAATAATGTATGC	0.316													7	5	---	---	---	---	
ZBTB44	29068	broad.mit.edu	37	11	130108177	130108177	+	Intron	DEL	C	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:130108177delC	uc001qga.2	-						ZBTB44_uc001qgb.3_Intron|ZBTB44_uc001qfx.2_Intron|ZBTB44_uc001qfz.2_Intron	NM_014155	NP_054874	Q8NCP5	ZBT44_HUMAN	zinc finger and BTB domain containing 44						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	all_hematologic(175;0.0429)	Lung NSC(97;0.000601)|Breast(109;0.000962)|all_lung(97;0.00125)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0192)|Lung(977;0.235)		AGCTTTCTGACACTGCATCAT	0.358													12	6	---	---	---	---	
OPCML	4978	broad.mit.edu	37	11	132849665	132849665	+	Intron	DEL	G	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:132849665delG	uc001qgu.2	-							NM_001012393	NP_001012393	Q14982	OPCM_HUMAN	opioid binding protein/cell adhesion						cell adhesion|neuron recognition	anchored to membrane|integral to plasma membrane	opioid receptor activity			ovary(2)|skin(1)	3	all_hematologic(175;0.019)	all_cancers(12;5.86e-24)|all_epithelial(12;2.65e-17)|all_lung(97;2.89e-05)|Lung NSC(97;6.16e-05)|Breast(109;0.000126)|Medulloblastoma(222;0.0269)|all_neural(223;0.0326)|Esophageal squamous(93;0.129)		all cancers(11;4.61e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.012)		TTGAGGCCCTGGGAGAGGGAG	0.453													4	2	---	---	---	---	
IQSEC3	440073	broad.mit.edu	37	12	186423	186423	+	Intron	DEL	G	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:186423delG	uc001qht.1	+						IQSEC3_uc001qhu.1_5'Flank	NM_015232	NP_056047	Q9UPP2	IQEC3_HUMAN	IQ motif and Sec7 domain 3						regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity			central_nervous_system(2)|large_intestine(1)|skin(1)	4	all_cancers(10;0.016)|all_lung(10;0.0222)|all_epithelial(11;0.0262)|Lung NSC(10;0.031)		OV - Ovarian serous cystadenocarcinoma(31;0.00456)	LUAD - Lung adenocarcinoma(1;0.172)|Lung(1;0.179)		GCACTGCGCTGGGCAGCACCA	0.383													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	20291236	20291236	+	IGR	DEL	G	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:20291236delG								AEBP2 (616063 upstream) : PDE3A (230961 downstream)																							CTCTTTGCCTGTTTTACTCAA	0.458													4	2	---	---	---	---	
DIP2B	57609	broad.mit.edu	37	12	51036809	51036810	+	Intron	INS	-	TG	TG	rs143796974	by1000genomes	TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:51036809_51036810insTG	uc001rwv.2	+						DIP2B_uc001rwu.2_Intron|DIP2B_uc009zls.1_Intron	NM_173602	NP_775873	Q9P265	DIP2B_HUMAN	DIP2 disco-interacting protein 2 homolog B							nucleus	catalytic activity|transcription factor binding			ovary(4)|breast(1)|pancreas(1)	6						CTGGGAGTTTCtgtgtgtgtgt	0.351													3	3	---	---	---	---	
ANKRD33	341405	broad.mit.edu	37	12	52285209	52285210	+	3'UTR	INS	-	TA	TA	rs147140141	by1000genomes	TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:52285209_52285210insTA	uc001rzf.3	+	6					ANKRD33_uc001rzh.3_3'UTR|ANKRD33_uc001rzd.2_3'UTR|ANKRD33_uc001rze.2_3'UTR|ANKRD33_uc001rzg.3_3'UTR|ANKRD33_uc001rzi.3_3'UTR	NM_001130015	NP_001123487	Q7Z3H0	ANR33_HUMAN	ankyrin repeat domain 33 isoform 1												0				BRCA - Breast invasive adenocarcinoma(357;0.0969)		TGCTCTCAACCTatatatatac	0.302													4	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	64217784	64217786	+	IGR	DEL	AAA	-	-	rs78922460		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:64217784_64217786delAAA								TMEM5 (14897 upstream) : SRGAP1 (20755 downstream)																							tgcaaaatataaaataaatttaa	0.246													5	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	69481083	69481083	+	IGR	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:69481083delA								CPM (124063 upstream) : CPSF6 (152234 downstream)																							GCTCTCCTACAAAAAAAAAAA	0.423													4	4	---	---	---	---	
NAV3	89795	broad.mit.edu	37	12	78392511	78392511	+	Intron	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:78392511delT	uc001syp.2	+						NAV3_uc001syo.2_Intron	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3							nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						AAACAGGTCCTTCCAAATGCA	0.264										HNSCC(70;0.22)			4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	84024431	84024432	+	IGR	INS	-	A	A	rs150860388	by1000genomes	TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:84024431_84024432insA								TMTC2 (496368 upstream) : None (None downstream)																							ACAATAACCATAAAAAAAAAGG	0.252													6	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	95407643	95407643	+	IGR	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:95407643delA								NDUFA12 (10132 upstream) : NR2C1 (6417 downstream)																							AACTAAAGTTAAAGAGACACA	0.289													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	96505780	96505782	+	IGR	DEL	ATC	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:96505780_96505782delATC								LTA4H (68482 upstream) : ELK3 (82425 downstream)																							GCAACTAATTATCATTTCCTGAG	0.222													5	4	---	---	---	---	
PLA2G1B	5319	broad.mit.edu	37	12	120763035	120763036	+	Intron	INS	-	T	T			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:120763035_120763036insT	uc001tyd.2	-						PLA2G1B_uc009zwx.2_Intron	NM_000928	NP_000919	P04054	PA21B_HUMAN	phospholipase A2 group IB precursor						actin filament organization|activation of MAPK activity|activation of phospholipase A2 activity|arachidonic acid secretion|cellular response to insulin stimulus|glucose transport|interleukin-8 production|leukotriene biosynthetic process|multicellular organismal lipid catabolic process|neutrophil chemotaxis|neutrophil mediated immunity|phosphatidylcholine metabolic process|positive regulation of calcium ion transport into cytosol|positive regulation of DNA replication|positive regulation of immune response|positive regulation of NF-kappaB transcription factor activity|positive regulation of protein secretion|positive regulation of transcription from RNA polymerase II promoter	extracellular space	bile acid binding|calcium ion binding|calcium-dependent phospholipase A2 activity|cell surface binding|receptor binding			skin(1)	1	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					TATTGAAAGCAttttttttttt	0.188											OREG0022189	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	3	---	---	---	---	
LRRC43	254050	broad.mit.edu	37	12	122652366	122652366	+	Intron	DEL	T	-	-	rs63564460		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:122652366delT	uc001ubw.3	+						LRRC43_uc009zxl.1_Intron	NM_152759	NP_689972	Q8N309	LRC43_HUMAN	leucine rich repeat containing 43 isoform 2												0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000312)|Epithelial(86;0.000539)|BRCA - Breast invasive adenocarcinoma(302;0.225)		tTTTAAAAAGttttttttttt	0.005													6	4	---	---	---	---	
DNAH10	196385	broad.mit.edu	37	12	124358509	124358509	+	Intron	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:124358509delT	uc001uft.3	+							NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10						microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		GCCAGCAGCCTTTGAACTAAA	0.458													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	128588372	128588372	+	IGR	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:128588372delA								None (None upstream) : TMEM132C (310919 downstream)																							catctccaacaaaagtcatca	0.045													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	131855942	131855955	+	IGR	DEL	GCAGCAGTCCTGTG	-	-	rs145452225		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:131855942_131855955delGCAGCAGTCCTGTG								LOC116437 (158467 upstream) : SFRS8 (339680 downstream)																							TTACCTGTGAGCAGCAGTCCTGTGGAGCGCAGCA	0.430													1	7	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	133012119	133012119	+	IGR	DEL	A	-	-	rs113394537		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:133012119delA								GALNT9 (106214 upstream) : FBRSL1 (55038 downstream)																							actccgtctcaaaaaaaaaaa	0.000													5	3	---	---	---	---	
GOLGA3	2802	broad.mit.edu	37	12	133363543	133363543	+	Intron	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:133363543delT	uc001ukz.1	-						GOLGA3_uc001ula.1_Intron|GOLGA3_uc001ulb.2_Intron	NM_005895	NP_005886	Q08378	GOGA3_HUMAN	Golgi autoantigen, golgin subfamily a, 3						intra-Golgi vesicle-mediated transport	Golgi cisterna membrane|Golgi transport complex	protein binding|transporter activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.27e-08)|Epithelial(86;3.34e-07)|all cancers(50;9.4e-06)		CAAACCACtcttttttttttt	0.279													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	19066412	19066413	+	IGR	INS	-	C	C			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:19066412_19066413insC								None (None upstream) : LOC284232 (342130 downstream)																							TGAGACAGTTTCTCTCTAAACA	0.351													9	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	22204037	22204037	+	IGR	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:22204037delT								EFHA1 (25730 upstream) : FGF9 (41178 downstream)																							ttgacttggcttttttctttg	0.000													4	2	---	---	---	---	
SGCG	6445	broad.mit.edu	37	13	23755694	23755694	+	Intron	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:23755694delA	uc001uom.2	+						SGCG_uc009zzv.2_Intron|SGCG_uc009zzw.2_Intron	NM_000231	NP_000222	Q13326	SGCG_HUMAN	gamma sarcoglycan						cytoskeleton organization|muscle organ development	cytoplasm|cytoskeleton|integral to membrane|sarcoglycan complex|sarcolemma					0		all_cancers(29;4.34e-23)|all_epithelial(30;4.4e-19)|all_lung(29;2.45e-18)|Lung SC(185;0.0228)|Breast(139;0.188)		all cancers(112;0.00255)|Epithelial(112;0.0129)|OV - Ovarian serous cystadenocarcinoma(117;0.0365)|Lung(94;0.205)		TATAAGTTGGAAATAAACAAA	0.289													4	2	---	---	---	---	
KIAA0564	23078	broad.mit.edu	37	13	42358281	42358281	+	Intron	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:42358281delA	uc001uyj.2	-						KIAA0564_uc001uyk.2_Intron	NM_015058	NP_055873	A3KMH1	K0564_HUMAN	hypothetical protein LOC23078 isoform a							extracellular region	ATP binding|ATPase activity			ovary(3)|upper_aerodigestive_tract(1)|kidney(1)|skin(1)	6		Lung NSC(96;4.61e-06)|Prostate(109;0.0167)|Lung SC(185;0.0262)|Breast(139;0.0854)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000368)|GBM - Glioblastoma multiforme(144;0.0033)|BRCA - Breast invasive adenocarcinoma(63;0.0969)		GTGAGAAACTAAAAAAAAAAA	0.279													4	2	---	---	---	---	
ENOX1	55068	broad.mit.edu	37	13	44265532	44265533	+	Intron	INS	-	A	A	rs74832349		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:44265532_44265533insA	uc001uzc.3	-							NM_017993	NP_060463	Q8TC92	ENOX1_HUMAN	ecto-NOX disulfide-thiol exchanger 1						electron transport chain|rhythmic process|transport	extracellular space|plasma membrane	nucleic acid binding|nucleotide binding|oxidoreductase activity			pancreas(1)|skin(1)	2		Lung NSC(96;0.000518)|Prostate(109;0.0233)|Hepatocellular(98;0.0268)|Lung SC(185;0.0367)|Breast(139;0.0406)		GBM - Glioblastoma multiforme(144;0.00333)|BRCA - Breast invasive adenocarcinoma(63;0.172)		TCCATGAAAAGAAAAAAAAAAA	0.386													3	3	---	---	---	---	
CAB39L	81617	broad.mit.edu	37	13	49975699	49975700	+	5'UTR	INS	-	CT	CT	rs143801646	by1000genomes	TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:49975699_49975700insCT	uc001vcw.2	-	1					CAB39L_uc001vcx.2_Intron|CAB39L_uc010adf.2_Intron	NM_030925	NP_112187	Q9H9S4	CB39L_HUMAN	calcium binding protein 39-like						cell cycle arrest|insulin receptor signaling pathway|regulation of fatty acid oxidation	cytosol	protein binding				0		Lung NSC(96;2.11e-05)|Breast(56;0.00017)|Prostate(109;0.00314)|Hepatocellular(98;0.0207)|Myeloproliferative disorder(33;0.163)|Lung SC(185;0.187)|all_neural(104;0.19)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;3.66e-09)|COAD - Colon adenocarcinoma(199;0.226)		GTCACAGCTCCCTTTTACTTCC	0.446													4	2	---	---	---	---	
MYCBP2	23077	broad.mit.edu	37	13	77720556	77720556	+	Intron	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:77720556delA	uc001vkf.2	-						MYCBP2_uc010aev.2_Intron	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		accaaaacttaaaaaaaaaaa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	91525628	91525628	+	IGR	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:91525628delA								MIR622 (642097 upstream) : LOC144776 (17580 downstream)																							AACAGAAGAGAAAAAAATAAA	0.234													4	2	---	---	---	---	
STK24	8428	broad.mit.edu	37	13	99190982	99190983	+	Intron	DEL	AA	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:99190982_99190983delAA	uc001vnn.1	-						STK24_uc010tim.1_Intron	NM_001032296	NP_001027467	Q9Y6E0	STK24_HUMAN	serine/threonine kinase 24 isoform b						cellular component disassembly involved in apoptosis|signal transduction	cytosol|nucleoplasm	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(1)|lung(1)	2	all_neural(89;0.0982)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.233)			GCCTTGTGCTAAACCCTACCTC	0.465													3	6	---	---	---	---	
NALCN	259232	broad.mit.edu	37	13	101721411	101721411	+	Intron	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:101721411delA	uc001vox.1	-							NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1							integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					TGCCATTTTTAAAAGCACAAT	0.378													4	2	---	---	---	---	
NALCN	259232	broad.mit.edu	37	13	101944211	101944211	+	Intron	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:101944211delT	uc001vox.1	-						NALCN_uc001voy.2_Intron|NALCN_uc001voz.2_Intron|NALCN_uc001vpa.2_Intron	NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1							integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					ggcaactgtatttttaaacag	0.209													92	45	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	111452317	111452318	+	IGR	DEL	CA	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:111452317_111452318delCA								ING1 (78897 upstream) : C13orf29 (64016 downstream)																							GTAGCTCTTCCACACACACACA	0.441													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	38272928	38272928	+	Intron	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:38272928delA	uc001wug.2	+						uc001wuh.2_Intron|uc001wui.2_Intron|uc001wuj.2_Intron					Homo sapiens chromosome 14 open reading frame 25, mRNA (cDNA clone IMAGE:5268731), partial cds.																		GACAGGAGAGAAAAAGGTGAA	0.433													4	2	---	---	---	---	
FAM179B	23116	broad.mit.edu	37	14	45490402	45490402	+	Intron	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:45490402delA	uc001wvv.2	+						FAM179B_uc001wvw.2_Intron|FAM179B_uc010anc.2_Intron	NM_015091	NP_055906	Q9Y4F4	F179B_HUMAN	hypothetical protein LOC23116								binding			skin(2)|upper_aerodigestive_tract(1)	3						cagtggctccaagtcctcccg	0.000													5	3	---	---	---	---	
MDGA2	161357	broad.mit.edu	37	14	47911236	47911236	+	Intron	DEL	G	-	-	rs56412346		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:47911236delG	uc001wwj.3	-						MDGA2_uc010ani.2_Intron	NM_001113498	NP_001106970	Q7Z553	MDGA2_HUMAN	MAM domain containing 1 isoform 1						spinal cord motor neuron differentiation	anchored to membrane|plasma membrane				ovary(4)|large_intestine(1)|pancreas(1)	6						GTCTAGTGAAGAAAAGATAAA	0.259													5	3	---	---	---	---	
FRMD6	122786	broad.mit.edu	37	14	52188469	52188471	+	Intron	DEL	GAA	-	-	rs149590944	by1000genomes	TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:52188469_52188471delGAA	uc001wzd.2	+						FRMD6_uc001wzb.2_Intron|FRMD6_uc001wzc.2_Intron|FRMD6_uc001wze.2_Intron|FRMD6_uc001wzf.2_Intron|FRMD6_uc001wzg.2_Intron	NM_152330	NP_689543	Q96NE9	FRMD6_HUMAN	FERM domain containing 6							cytoskeleton|mitochondrion|plasma membrane	binding			ovary(1)|breast(1)|central_nervous_system(1)	3	all_epithelial(31;0.0163)|Breast(41;0.089)					aggaagggaggaaggaaggaggg	0.187													5	7	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	70831836	70831836	+	IGR	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:70831836delA								COX16 (5392 upstream) : SYNJ2BP (1379 downstream)																							aaagtacaacaaaaaaaagcc	0.119													4	2	---	---	---	---	
SPTLC2	9517	broad.mit.edu	37	14	78021964	78021964	+	Intron	DEL	T	-	-	rs151267420	by1000genomes	TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:78021964delT	uc001xub.2	-							NM_004863	NP_004854	O15270	SPTC2_HUMAN	serine palmitoyltransferase, long chain base							integral to membrane|serine C-palmitoyltransferase complex	pyridoxal phosphate binding|serine C-palmitoyltransferase activity|transferase activity, transferring nitrogenous groups			upper_aerodigestive_tract(1)|ovary(1)	2			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0346)	L-Serine(DB00133)|Pyridoxal Phosphate(DB00114)	TTACTGCttcttttttttttc	0.134													5	5	---	---	---	---	
TTC8	123016	broad.mit.edu	37	14	89327356	89327357	+	Intron	INS	-	A	A			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:89327356_89327357insA	uc010ath.2	+						TTC8_uc001xxl.2_Intron|TTC8_uc010ati.2_Intron|TTC8_uc001xxm.2_Intron|TTC8_uc010atj.2_Intron|TTC8_uc001xxi.2_Intron|TTC8_uc001xxj.2_Intron|TTC8_uc001xxk.2_Intron	NM_198309	NP_938051	Q8TAM2	TTC8_HUMAN	tetratricopeptide repeat domain 8 isoform B						cilium assembly|establishment of anatomical structure orientation|sensory processing	BBSome|centrosome|cilium membrane|microtubule basal body	protein binding				0						ctgtgttgcccaggctggtctc	0.005									Bardet-Biedl_syndrome				10	8	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	95093952	95093952	+	IGR	DEL	C	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:95093952delC								SERPINA3 (3563 upstream) : SERPINA13 (13110 downstream)																							TCTGATGATTCCTAGTATAGG	0.557													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	99284809	99284809	+	IGR	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:99284809delT								C14orf177 (100712 upstream) : BCL11B (350818 downstream)																							GTCAGATGAATTTTTTTTTGT	0.174													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	30897861	30897861	+	IGR	DEL	C	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:30897861delC								FAM7A2 (4961 upstream) : ARHGAP11B (18836 downstream)																							TTGCCTTTTTCTTTTTTTTTT	0.418													4	2	---	---	---	---	
SPG11	80208	broad.mit.edu	37	15	44865552	44865564	+	Intron	DEL	CATGTATTTTGTA	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:44865552_44865564delCATGTATTTTGTA	uc001ztx.2	-						SPG11_uc010bdw.2_Intron|SPG11_uc010ueh.1_Intron|SPG11_uc010uei.1_Intron|SPG11_uc001zty.1_3'UTR	NM_025137	NP_079413	Q96JI7	SPTCS_HUMAN	spatacsin isoform 1						cell death	cytosol|integral to membrane|nucleus	protein binding			ovary(4)|skin(1)	5		all_cancers(109;1.29e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;1.34e-07)|all_lung(180;1.21e-06)|Melanoma(134;0.0122)		all cancers(107;2.93e-22)|GBM - Glioblastoma multiforme(94;1.55e-06)|COAD - Colon adenocarcinoma(120;0.0432)|Colorectal(105;0.0484)|Lung(196;0.104)|LUSC - Lung squamous cell carcinoma(244;0.214)		AAAGCAACAGCATGTATTTTGTACATGTATTTT	0.263													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	52397073	52397073	+	IGR	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:52397073delA								MAPK6 (38612 upstream) : BCL2L10 (4751 downstream)																							GTAAGACCAGAAATTTGAATA	0.189													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	53508664	53508664	+	IGR	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:53508664delA								ONECUT1 (426455 upstream) : WDR72 (297274 downstream)																							AAACTCAGTTAAAAAAAATCA	0.353													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	58021701	58021703	+	IGR	DEL	GCA	-	-	rs72082872		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:58021701_58021703delGCA								GCOM1 (11949 upstream) : ALDH1A2 (223925 downstream)																							GGCTTCACATGCAGCAGCAGACC	0.547													8	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	59157372	59157372	+	IGR	DEL	G	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:59157372delG								FAM63B (7640 upstream) : SLTM (13873 downstream)																							TGCACACCAAGGAGCAGATGC	0.726													4	2	---	---	---	---	
VPS13C	54832	broad.mit.edu	37	15	62148198	62148198	+	Intron	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:62148198delA	uc002agz.2	-						VPS13C_uc002aha.2_Intron	NM_020821	NP_065872	Q709C8	VP13C_HUMAN	vacuolar protein sorting 13C protein isoform 2A						protein localization					ovary(2)	2						ATATGAAGTTAAAAAAAAAAC	0.294													3	3	---	---	---	---	
ANKDD1A	348094	broad.mit.edu	37	15	65211464	65211464	+	Intron	DEL	C	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:65211464delC	uc002aoa.2	+						ANKDD1A_uc002anx.1_Intron|ANKDD1A_uc002any.2_Intron|ANKDD1A_uc002anz.2_Intron|ANKDD1A_uc002aob.2_Intron|ANKDD1A_uc002aoc.2_5'Flank|ANKDD1A_uc010bha.2_5'Flank	NM_182703	NP_874362	Q495B1	AKD1A_HUMAN	ankyrin repeat and death domain containing 1A						signal transduction					ovary(1)	1						CCTTTTTACTCCCAAGCGTCT	0.572													4	2	---	---	---	---	
RPL4	6124	broad.mit.edu	37	15	66796912	66796912	+	Intron	DEL	C	-	-	rs139436991	byFrequency	TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:66796912delC	uc002apv.2	-						RPL4_uc010bhr.2_Intron|RPL4_uc002apw.2_Intron|RPL4_uc002apx.2_Intron|RPL4_uc010ujq.1_Intron|SNORD18B_uc002apy.1_5'Flank|SNORD16_uc010bht.2_5'Flank|SNORD18A_uc002apz.1_5'Flank|ZWILCH_uc010bhu.1_5'Flank|ZWILCH_uc002aqb.2_5'Flank|ZWILCH_uc002aqa.2_5'Flank|ZWILCH_uc010bhv.2_5'Flank	NM_000968	NP_000959	P36578	RL4_HUMAN	ribosomal protein L4						endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit|nucleolus	protein binding|RNA binding|structural constituent of ribosome				0						TCCACTACTGCTTCCCGGCGC	0.532													6	3	---	---	---	---	
GOLGA6C	653641	broad.mit.edu	37	15	75552532	75552532	+	Intron	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:75552532delT	uc002azs.1	+							NM_001145224	NP_001138696	A6NDK9	GOG6C_HUMAN	golgi autoantigen, golgin subfamily a, 6D											ovary(1)	1						CCCCCCACACTTTTTTTTTTA	0.443													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	96818599	96818599	+	Intron	DEL	C	-	-	rs66778463		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:96818599delC	uc010bol.1	-						uc002bto.1_Intron					Homo sapiens cDNA FLJ10010 fis, clone HEMBA1000302.																		TCAACCCCCACCCCCCCCAAA	0.348													1	5	---	---	---	---	
DNAJA3	9093	broad.mit.edu	37	16	4484747	4484748	+	Intron	INS	-	T	T			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:4484747_4484748insT	uc002cwk.2	+						DNAJA3_uc002cwl.2_Intron|DNAJA3_uc010uxk.1_Intron	NM_005147	NP_005138	Q96EY1	DNJA3_HUMAN	DnaJ (Hsp40) homolog, subfamily A, member 3						activation of caspase activity|negative regulation of apoptosis|negative regulation of caspase activity|negative regulation of cell proliferation|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of interferon-gamma-mediated signaling pathway|negative regulation of NF-kappaB transcription factor activity|negative regulation of protein kinase activity|neuromuscular junction development|positive regulation of apoptosis|positive regulation of protein ubiquitination|protein folding|protein folding|protein stabilization|response to heat|response to interferon-gamma	cytosol|mitochondrial matrix|mitochondrial nucleoid|nucleus	ATP binding|heat shock protein binding|interferon-gamma receptor binding|metal ion binding|NF-kappaB binding|protein kinase binding			ovary(2)|breast(2)	4						ATTTTAAGAAGTTTTTTTTTCT	0.332													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	7960463	7960463	+	IGR	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:7960463delA								A2BP1 (197123 upstream) : TMEM114 (659040 downstream)																							AAGCTGAGGGAAAAAAGACTA	0.234													4	2	---	---	---	---	
FAM18A	780776	broad.mit.edu	37	16	10864435	10864435	+	Intron	DEL	C	-	-	rs75373227		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:10864435delC	uc010buo.1	-						FAM18A_uc010uyr.1_Intron|FAM18A_uc010uys.1_Intron|FAM18A_uc010uyt.1_Intron|FAM18A_uc010bun.2_Intron|FAM18A_uc010uyu.1_Intron|FAM18A_uc002dad.3_Intron|FAM18A_uc002daf.1_Intron|FAM18A_uc002dae.1_Intron	NM_001079512	NP_001072980	A6NH52	FA18A_HUMAN	hypothetical protein LOC780776							integral to membrane					0						AAAAAAAAAACAAAACAAAAA	0.164													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	27178480	27178480	+	IGR	DEL	A	-	-	rs11367962		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:27178480delA								C16orf82 (97994 upstream) : JMJD5 (36327 downstream)																							CAGAATCGCCACCCAGACCCA	0.542													15	7	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	32408376	32408377	+	IGR	INS	-	T	T	rs112712028		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:32408376_32408377insT								HERC2P4 (244502 upstream) : TP53TG3B (276464 downstream)																							gtattttgtagttttttttgtg	0.000													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	32848313	32848313	+	IGR	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:32848313delT								TP53TG3B (159435 upstream) : SLC6A10P (40484 downstream)																							gttagcccaatttttttatca	0.000													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	49900520	49900523	+	IGR	DEL	GGGA	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:49900520_49900523delGGGA								ZNF423 (39602 upstream) : TMEM188 (158666 downstream)																							CCACTGGGATGGGAGCAGATGGGG	0.637													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	50080933	50080933	+	IGR	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:50080933delA								TMEM188 (9935 upstream) : HEATR3 (18948 downstream)																							ctccatctctaaaaaaaaaaa	0.000													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	56721244	56721244	+	IGR	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:56721244delA								MT1X (3137 upstream) : NUP93 (42773 downstream)																							acaaaccaacaaaaaaaacta	0.000													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	71649105	71649105	+	IGR	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:71649105delT								TAT (38107 upstream) : MARVELD3 (10965 downstream)																							tggtgtggccttttttttttt	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	74419892	74419893	+	Intron	DEL	TT	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:74419892_74419893delTT	uc010vmt.1	+											RecName: Full=Nuclear pore complex-interacting protein-like 2; Flags: Precursor;																		cctttctctctttttttttttt	0.168													9	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	79848733	79848733	+	IGR	DEL	G	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:79848733delG								MAF (214111 upstream) : DYNLRB2 (726121 downstream)																							TTGCCTTGGTGATCCTCAAAG	0.423													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	80944825	80944825	+	IGR	DEL	T	-	-	rs5818316		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:80944825delT								CDYL2 (106650 upstream) : C16orf61 (64876 downstream)																							cttaggttcctagaacacccc	0.239													1	9	---	---	---	---	
KIAA0182	23199	broad.mit.edu	37	16	85688802	85688802	+	Intron	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:85688802delT	uc002fix.2	+						KIAA0182_uc002fiw.2_Intron|KIAA0182_uc002fiy.2_Intron	NM_014615	NP_055430	Q14687	GSE1_HUMAN	genetic suppressor element 1 isoform 1								protein binding			large_intestine(3)|ovary(1)|skin(1)	5						ACAGTCCCCCTTGGTGACTGT	0.582													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	86871198	86871199	+	IGR	DEL	AA	-	-	rs72442049		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:86871198_86871199delAA								FOXL1 (255895 upstream) : FBXO31 (491745 downstream)																							CTTGTCAATGAAAACCTACTCC	0.485													6	3	---	---	---	---	
FAM38A	9780	broad.mit.edu	37	16	88800396	88800398	+	In_Frame_Del	DEL	CTG	-	-	rs62639697		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:88800396_88800398delCTG	uc010vpb.1	-	17	2248_2250	c.2245_2247delCAG	c.(2245-2247)CAGdel	p.Q749del	FAM38A_uc002flr.3_In_Frame_Del_p.Q317del|FAM38A_uc010cib.2_In_Frame_Del_p.Q286del|uc010vpc.1_Intron	NM_001142864	NP_001136336	Q92508	PIEZ1_HUMAN	family with sequence similarity 38, member A	749						endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|integral to membrane|plasma membrane	ion channel activity				0						cctcctcctcctgctgctgctgc	0.458													4	3	---	---	---	---	
SLC43A2	124935	broad.mit.edu	37	17	1508525	1508526	+	Intron	INS	-	CT	CT			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:1508525_1508526insCT	uc002fsv.2	-						SLC43A2_uc002fsu.2_Intron|SLC43A2_uc002fsw.2_Intron|SLC43A2_uc002fsx.2_Intron|SLC43A2_uc010vqo.1_5'Flank	NM_152346	NP_689559	Q8N370	LAT4_HUMAN	solute carrier family 43, member 2						cellular nitrogen compound metabolic process|ion transport	integral to membrane|plasma membrane					0				UCEC - Uterine corpus endometrioid carcinoma (25;0.0883)		GAAGCCCGTGACTCTCTCTCTT	0.653													4	2	---	---	---	---	
SHISA6	388336	broad.mit.edu	37	17	11235061	11235062	+	Intron	DEL	AC	-	-	rs68171794		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:11235061_11235062delAC	uc002gna.3	+						SHISA6_uc002gnb.3_Intron|SHISA6_uc010com.2_Intron	NM_207386	NP_997269	Q6ZSJ9	SHSA6_HUMAN	shisa homolog 6							integral to membrane				breast(1)	1						GCTCTCTCAAACACACACACAC	0.475													3	3	---	---	---	---	
CCDC144A	9720	broad.mit.edu	37	17	16615445	16615445	+	Intron	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:16615445delA	uc002gqk.1	+						CCDC144A_uc002gql.1_Intron|LOC162632_uc010cpj.1_Intron	NM_014695	NP_055510	A2RUR9	C144A_HUMAN	coiled-coil domain containing 144A												0						actccatttcaaaaaaaaaaa	0.109													4	3	---	---	---	---	
TOM1L2	146691	broad.mit.edu	37	17	17759273	17759273	+	Intron	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:17759273delA	uc002grz.3	-						TOM1L2_uc002gry.3_Intron|TOM1L2_uc010vwy.1_Intron|TOM1L2_uc010cpr.2_Intron|TOM1L2_uc010vwz.1_Intron|TOM1L2_uc010vxa.1_Intron|TOM1L2_uc002grv.3_Intron	NM_001082968	NP_001076437	Q6ZVM7	TM1L2_HUMAN	target of myb1-like 2 isoform 3						intracellular protein transport	intracellular					0	all_neural(463;0.228)					TATTTGTTGTAAAGAAAAAAA	0.368													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	21225026	21225027	+	IGR	INS	-	T	T	rs5819752		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:21225026_21225027insT								MAP2K3 (6477 upstream) : KCNJ12 (54672 downstream)																							AGCGCTGGTGGTTCCCCACAGT	0.525													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	21225031	21225032	+	IGR	INS	-	G	G	rs146208204		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:21225031_21225032insG								MAP2K3 (6482 upstream) : KCNJ12 (54667 downstream)																							TGGTGGTTCCCCACAGTCTGAG	0.515													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	21238658	21238658	+	IGR	DEL	T	-	-	rs113708521		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:21238658delT								MAP2K3 (20109 upstream) : KCNJ12 (41041 downstream)																							taaccgtcagttctctctcct	0.000													4	4	---	---	---	---	
ACCN1	40	broad.mit.edu	37	17	31463606	31463607	+	Intron	DEL	TG	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:31463606_31463607delTG	uc002hhu.2	-						ACCN1_uc002hht.2_Intron	NM_001094	NP_001085	Q16515	ACCN1_HUMAN	amiloride-sensitive cation channel 1, neuronal						central nervous system development|peripheral nervous system development|synaptic transmission	integral to plasma membrane	ligand-gated sodium channel activity|protein binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Breast(31;0.042)|Ovarian(249;0.202)		UCEC - Uterine corpus endometrioid carcinoma (308;0.13)|BRCA - Breast invasive adenocarcinoma(366;0.215)	Amiloride(DB00594)	TGATGTGATTTGTGTGTGTGTG	0.421													4	2	---	---	---	---	
ACACA	31	broad.mit.edu	37	17	35581888	35581889	+	Intron	DEL	TA	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:35581888_35581889delTA	uc002hnm.2	-						ACACA_uc002hnk.2_Intron|ACACA_uc002hnl.2_Intron|ACACA_uc002hnn.2_Intron|ACACA_uc002hno.2_Intron|ACACA_uc010cuz.2_Intron	NM_198836	NP_942133	Q13085	ACACA_HUMAN	acetyl-Coenzyme A carboxylase alpha isoform 2						acetyl-CoA metabolic process|energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|triglyceride biosynthetic process	cytosol	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			large_intestine(1)|ovary(1)	2		Breast(25;0.00157)|Ovarian(249;0.15)			Biotin(DB00121)	AGGAAAGGGTtatatatatata	0.312													4	2	---	---	---	---	
ACACA	31	broad.mit.edu	37	17	35686900	35686900	+	Intron	DEL	A	-	-	rs112617527		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:35686900delA	uc002hnm.2	-						ACACA_uc002hnn.2_Intron|ACACA_uc002hno.2_Intron|ACACA_uc010cuz.2_Intron|ACACA_uc002hnq.2_Intron|ACACA_uc002hnp.1_Intron	NM_198836	NP_942133	Q13085	ACACA_HUMAN	acetyl-Coenzyme A carboxylase alpha isoform 2						acetyl-CoA metabolic process|energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|triglyceride biosynthetic process	cytosol	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			large_intestine(1)|ovary(1)	2		Breast(25;0.00157)|Ovarian(249;0.15)			Biotin(DB00121)	aaacaaaaacaaaaaaaaCCT	0.159													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	36387068	36387068	+	Intron	DEL	T	-	-	rs72132300		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:36387068delT	uc002hpx.2	-											Homo sapiens cDNA FLJ43844 fis, clone TESTI4006308, highly  similar to Puromycin-sensitive aminopeptidase (EC 3.4.11.-).																		TTGTTTTTTGTTTTTTTTTaa	0.025													4	2	---	---	---	---	
SRCIN1	80725	broad.mit.edu	37	17	36734707	36734712	+	Intron	DEL	AGCCGG	-	-	rs71384243		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:36734707_36734712delAGCCGG	uc002hqd.2	-						SRCIN1_uc002hqh.1_Intron	NM_025248	NP_079524	Q9C0H9	SRCN1_HUMAN	SNAP25-interacting protein						exocytosis|negative regulation of protein tyrosine kinase activity|positive regulation of protein tyrosine kinase activity|regulation of cell migration|regulation of dendritic spine morphogenesis|substrate adhesion-dependent cell spreading	actin cytoskeleton|axon|cell junction|cytoplasm|dendrite|postsynaptic density|postsynaptic membrane	protein kinase binding				0						CCGTGGCCGCAGCCGGAGCCGCAGCC	0.684													5	3	---	---	---	---	
CDC6	990	broad.mit.edu	37	17	38449495	38449495	+	Intron	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:38449495delA	uc002huj.1	+							NM_001254	NP_001245	Q99741	CDC6_HUMAN	cell division cycle 6 protein						cell division|DNA replication|DNA replication checkpoint|M/G1 transition of mitotic cell cycle|mitosis|negative regulation of cell proliferation|negative regulation of DNA replication|positive regulation of cell cycle cytokinesis|positive regulation of chromosome segregation|regulation of cyclin-dependent protein kinase activity|regulation of mitotic anaphase|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|traversing start control point of mitotic cell cycle	cytosol|nucleoplasm|spindle midzone|spindle pole	ATP binding|kinase binding|nucleoside-triphosphatase activity			ovary(2)|breast(1)	3						cgtctcaaagaaaaaaaaaag	0.095													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	38873465	38873466	+	IGR	INS	-	A	A			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:38873465_38873466insA								KRT24 (13463 upstream) : KRT25 (30808 downstream)																							GTCAGCGAAACAAAAGGACAAA	0.188													4	2	---	---	---	---	
GHDC	84514	broad.mit.edu	37	17	40343484	40343484	+	Intron	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:40343484delT	uc002hzd.2	-						GHDC_uc002hzg.1_Intron|GHDC_uc010wgg.1_Intron|GHDC_uc002hze.3_Intron|GHDC_uc002hzf.3_Intron	NM_032484	NP_115873	Q8N2G8	GHDC_HUMAN	LGP1 homolog isoform 1							endoplasmic reticulum|nuclear envelope					0		all_cancers(22;0.000229)|Breast(137;0.00104)|all_epithelial(22;0.00304)		BRCA - Breast invasive adenocarcinoma(366;0.124)		tgcaagactcttttttttttt	0.109													4	3	---	---	---	---	
TBX21	30009	broad.mit.edu	37	17	45814615	45814615	+	Intron	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:45814615delT	uc002ilv.1	+							NM_013351	NP_037483	Q9UL17	TBX21_HUMAN	T-box 21						lymphocyte migration|multicellular organismal development|positive regulation of transcription, DNA-dependent|response to virus	nucleus	sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding				0						TTGGCGAGTATATAATAGTTG	0.498													4	2	---	---	---	---	
SKAP1	8631	broad.mit.edu	37	17	46280281	46280281	+	Intron	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:46280281delT	uc002ini.1	-						SKAP1_uc002inj.1_Intron|SKAP1_uc010dbd.1_Intron|SKAP1_uc010dbe.1_Intron	NM_003726	NP_003717	Q86WV1	SKAP1_HUMAN	src kinase associated phosphoprotein 1 isoform						positive regulation of transcription from RNA polymerase II promoter|T cell receptor signaling pathway	cytoplasm|nucleus|plasma membrane	antigen binding|protein kinase binding|SH2 domain binding				0						TCTGTCTGTCTTTATTGCTTA	0.418													4	2	---	---	---	---	
ACSF2	80221	broad.mit.edu	37	17	48539288	48539289	+	Intron	INS	-	GTGTGT	GTGTGT	rs138119117	by1000genomes	TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:48539288_48539289insGTGTGT	uc002iqu.2	+						ACSF2_uc010wml.1_Intron|ACSF2_uc010wmm.1_Intron|ACSF2_uc010wmn.1_Intron|ACSF2_uc010wmo.1_Intron	NM_025149	NP_079425	Q96CM8	ACSF2_HUMAN	acyl-CoA synthetase family member 2 precursor						fatty acid metabolic process	mitochondrion	ATP binding|ligase activity				0	Breast(11;1.93e-18)		BRCA - Breast invasive adenocarcinoma(22;1.55e-09)			TCAGGGCAGAGgtgtgtgtgtg	0.480													4	4	---	---	---	---	
SPAG9	9043	broad.mit.edu	37	17	49068269	49068269	+	Intron	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:49068269delT	uc002itc.2	-						SPAG9_uc002itb.2_Intron|SPAG9_uc002itd.2_Intron|SPAG9_uc002itf.2_Intron|SPAG9_uc002ita.2_Intron|SPAG9_uc002ite.2_Intron	NM_001130528	NP_001124000	O60271	JIP4_HUMAN	sperm associated antigen 9 isoform 1						positive regulation of cell migration|positive regulation of muscle cell differentiation|retrograde transport, endosome to Golgi|spermatogenesis	acrosomal vesicle|integral to membrane|perinuclear region of cytoplasm				lung(4)|breast(1)	5			BRCA - Breast invasive adenocarcinoma(22;4.24e-07)			gaaaataaacttttttttttt	0.000													5	3	---	---	---	---	
BRIP1	83990	broad.mit.edu	37	17	59926837	59926838	+	Intron	INS	-	T	T	rs143914388	by1000genomes	TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:59926837_59926838insT	uc002izk.1	-							NM_032043	NP_114432	Q9BX63	FANCJ_HUMAN	BRCA1 interacting protein C-terminal helicase 1						DNA damage checkpoint|double-strand break repair|regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding			ovary(1)	1						GTCCAATTTGATTTTTTAAATC	0.292			F|N|Mis			AML|leukemia|breast		Direct_reversal_of_damage|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				8	7	---	---	---	---	
TANC2	26115	broad.mit.edu	37	17	61281154	61281155	+	Intron	DEL	AA	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:61281154_61281155delAA	uc002jal.3	+						TANC2_uc010wpe.1_Intron	NM_025185	NP_079461	Q9HCD6	TANC2_HUMAN	tetratricopeptide repeat, ankyrin repeat and								binding			ovary(2)	2						AGTGGACACCAAAAAAAAAGTA	0.436													4	2	---	---	---	---	
HELZ	9931	broad.mit.edu	37	17	65220772	65220773	+	Intron	DEL	GT	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:65220772_65220773delGT	uc010wqk.1	-						HELZ_uc002jfv.3_Intron|HELZ_uc002jfx.3_Intron|HELZ_uc010des.1_Intron	NM_014877	NP_055692			helicase with zinc finger domain											ovary(1)|pancreas(1)	2	all_cancers(12;1.24e-11)|Breast(2;1.05e-17)|all_epithelial(3;3.87e-13)					AAATGGCTTAGTGTGATATATG	0.351													2	6	---	---	---	---	
SLC16A5	9121	broad.mit.edu	37	17	73098503	73098504	+	Intron	INS	-	A	A	rs144188845	by1000genomes	TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:73098503_73098504insA	uc002jmr.2	+						SLC16A5_uc002jms.1_Intron|SLC16A5_uc002jmt.2_Intron|SLC16A5_uc002jmu.2_Intron|SLC16A5_uc010wrt.1_Intron	NM_004695	NP_004686	O15375	MOT6_HUMAN	solute carrier family 16, member 5						organic anion transport	integral to plasma membrane|membrane fraction	secondary active monocarboxylate transmembrane transporter activity|symporter activity			central_nervous_system(1)	1	all_lung(278;0.226)		LUSC - Lung squamous cell carcinoma(166;0.162)|Lung(188;0.235)		Pyruvic acid(DB00119)	actccaactcgaaaaaaataaa	0.228													5	3	---	---	---	---	
GALK1	2584	broad.mit.edu	37	17	73758818	73758818	+	Frame_Shift_Del	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:73758818delT	uc010wsi.1	-	5	823	c.760delA	c.(760-762)AGCfs	p.S254fs	GALK1_uc002jpk.2_Frame_Shift_Del_p.S254fs|GALK1_uc010wsj.1_3'UTR	NM_000154	NP_000145	P51570	GALK1_HUMAN	galactokinase 1	254					galactose catabolic process	cytosol	ATP binding|galactokinase activity|galactose binding				0	all_cancers(13;1.5e-07)		all cancers(21;1.03e-06)|Epithelial(20;1.92e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00194)|Lung(188;0.132)|LUSC - Lung squamous cell carcinoma(166;0.154)			TCCCGGAGGCTTTCCTTGCCC	0.637													29	25	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	38731999	38731999	+	IGR	DEL	G	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:38731999delG								None (None upstream) : KC6 (328239 downstream)																							GTATTTGTTTGAAAATAActg	0.174													4	2	---	---	---	---	
PIK3C3	5289	broad.mit.edu	37	18	39573568	39573568	+	Intron	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:39573568delT	uc002lap.2	+						PIK3C3_uc010xcl.1_Intron	NM_002647	NP_002638	Q8NEB9	PK3C3_HUMAN	catalytic phosphatidylinositol 3-kinase 3						cell cycle|cytokinesis|fibroblast growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway	midbody|phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|protein binding			lung(8)|ovary(1)|breast(1)	10						CAGTATACTCTTTTTTTTTTT	0.204										TSP Lung(28;0.18)			4	2	---	---	---	---	
ATP5A1	498	broad.mit.edu	37	18	43664128	43664129	+	3'UTR	INS	-	T	T			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:43664128_43664129insT	uc002lbr.1	-	12					ATP5A1_uc010dnl.1_3'UTR|ATP5A1_uc002lbs.1_3'UTR|ATP5A1_uc002lbt.1_3'UTR	NM_004046	NP_004037	P25705	ATPA_HUMAN	ATP synthase, H+ transporting, mitochondrial F1						ATP hydrolysis coupled proton transport|embryo development|lipid metabolic process|negative regulation of endothelial cell proliferation|respiratory electron transport chain	mitochondrial matrix|plasma membrane	ATP binding|eukaryotic cell surface binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|MHC class I protein binding|proton-transporting ATPase activity, rotational mechanism				0						ATTATGGAACCTTTATTTTTCA	0.297													34	17	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	57851459	57851460	+	IGR	INS	-	CCTCCCCCTCACCAAACTTAA	CCTCCCCCTCACCAAACTTAA			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:57851459_57851460insCCTCCCCCTCACCAAACTTAA								PMAIP1 (279921 upstream) : MC4R (187104 downstream)																							AAGGTCATTTGCCCGCTCTTTC	0.446													4	2	---	---	---	---	
CCDC102B	79839	broad.mit.edu	37	18	66503861	66503862	+	Intron	INS	-	A	A	rs149330255	by1000genomes	TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:66503861_66503862insA	uc002lkk.2	+						CCDC102B_uc002lki.2_Intron|CCDC102B_uc002lkj.1_Intron	NM_001093729	NP_001087198	Q68D86	C102B_HUMAN	coiled-coil domain containing 102B											ovary(1)|lung(1)|skin(1)	3		Esophageal squamous(42;0.0559)|Colorectal(73;0.0604)				aagactctgtcaaaaataaaaa	0.119													6	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	7722607	7722607	+	IGR	DEL	C	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:7722607delC								STXBP2 (9849 upstream) : RETN (11365 downstream)																							GTTTCATAAGCCCCTCCCCCT	0.433													4	2	---	---	---	---	
KLHL26	55295	broad.mit.edu	37	19	18745939	18745940	+	5'Flank	DEL	GT	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:18745939_18745940delGT	uc002njz.1	+							NM_018316	NP_060786	Q53HC5	KLH26_HUMAN	kelch-like 26											ovary(1)	1						GCAGGCAAGGGTGTGTGTGTGT	0.545													4	3	---	---	---	---	
ZNF826	664701	broad.mit.edu	37	19	20502174	20502175	+	Intron	DEL	TA	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:20502174_20502175delTA	uc002now.1	-						ZNF826_uc010ecl.1_Intron					Homo sapiens cDNA FLJ44894 fis, clone BRAMY3000692, moderately similar to Zinc finger protein 91.												0						TTTGAGAAACTAAAACTCTTTT	0.183													7	4	---	---	---	---	
DKFZp566F0947	94023	broad.mit.edu	37	19	31638017	31638018	+	5'Flank	INS	-	TC	TC			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:31638017_31638018insTC	uc010xrm.1	+							NR_026894				Homo sapiens hypothetical LOC94023 (DKFZp566F0947), non-coding RNA.												0						GGATGCCCTTTTCTCTCTACGT	0.569													4	2	---	---	---	---	
CYP2S1	29785	broad.mit.edu	37	19	41706982	41706982	+	Intron	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:41706982delA	uc002opw.2	+						CYP2F1_uc010xvw.1_Intron|CYP2S1_uc010xvx.1_Intron	NM_030622	NP_085125	Q96SQ9	CP2S1_HUMAN	cytochrome P450, family 2, subfamily S,						xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|retinoic acid 4-hydroxylase activity			skin(1)	1						actctgtctcaaaaaaaaaaa	0.204													6	6	---	---	---	---	
MEGF8	1954	broad.mit.edu	37	19	42858271	42858271	+	Intron	DEL	T	-	-	rs36065839		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:42858271delT	uc002otl.3	+						MEGF8_uc002otm.3_Intron	NM_001410	NP_001401	Q7Z7M0	MEGF8_HUMAN	multiple EGF-like-domains 8							integral to membrane	calcium ion binding|structural molecule activity			ovary(1)	1		Prostate(69;0.00682)				AGTATTGCTGTTTTTTTTTTT	0.517													4	3	---	---	---	---	
SLC8A2	6543	broad.mit.edu	37	19	47978105	47978106	+	5'Flank	DEL	TC	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:47978105_47978106delTC	uc002pgx.2	-						SLC8A2_uc010xyq.1_5'Flank|SLC8A2_uc010xyr.1_5'Flank	NM_015063	NP_055878	Q9UPR5	NAC2_HUMAN	solute carrier family 8 member 2 precursor						cell communication|platelet activation	integral to membrane|plasma membrane	calcium:sodium antiporter activity|calmodulin binding			skin(3)|ovary(1)	4		all_cancers(25;3.05e-07)|all_lung(116;4.19e-06)|Lung NSC(112;7.16e-06)|all_epithelial(76;7.65e-06)|all_neural(266;0.0652)|Ovarian(192;0.086)|Breast(70;0.173)		OV - Ovarian serous cystadenocarcinoma(262;0.000501)|all cancers(93;0.00058)|Epithelial(262;0.0181)|GBM - Glioblastoma multiforme(486;0.0457)		TCCACTGGGGTCTCATGTCAGC	0.470													4	2	---	---	---	---	
TRPM4	54795	broad.mit.edu	37	19	49697360	49697362	+	Intron	DEL	CTC	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:49697360_49697362delCTC	uc002pmw.2	+						TRPM4_uc010emu.2_Intron|TRPM4_uc010yak.1_Intron|TRPM4_uc002pmx.2_Intron|TRPM4_uc010emv.2_Intron|TRPM4_uc010yal.1_Intron|TRPM4_uc002pmy.2_Intron	NM_017636	NP_060106	Q8TD43	TRPM4_HUMAN	transient receptor potential cation channel,						dendritic cell chemotaxis|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell proliferation|protein sumoylation|regulation of T cell cytokine production	endoplasmic reticulum|Golgi apparatus|integral to membrane|plasma membrane	ATP binding|calcium activated cation channel activity|calmodulin binding			ovary(1)|central_nervous_system(1)	2		all_lung(116;8.54e-05)|Lung NSC(112;0.000139)|all_neural(266;0.0506)|Ovarian(192;0.15)		all cancers(93;2.88e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000222)|GBM - Glioblastoma multiforme(486;0.00339)|Epithelial(262;0.00751)		cctccgccttctcctcatcctac	0.099													2	4	---	---	---	---	
MYH14	79784	broad.mit.edu	37	19	50752730	50752731	+	Intron	INS	-	GT	GT	rs146824061		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:50752730_50752731insGT	uc002prr.1	+						MYH14_uc010enu.1_Intron|MYH14_uc002prq.1_Intron	NM_024729	NP_079005	Q7Z406	MYH14_HUMAN	myosin, heavy chain 14 isoform 2						axon guidance|regulation of cell shape	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			central_nervous_system(1)	1		all_neural(266;0.0571)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00389)|GBM - Glioblastoma multiforme(134;0.0195)		cctgtctctggctctgtcccct	0.000													8	4	---	---	---	---	
ZNF331	55422	broad.mit.edu	37	19	54052947	54052948	+	Intron	INS	-	A	A	rs34058079		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:54052947_54052948insA	uc002qbx.1	+						ZNF331_uc002qby.1_Intron|ZNF331_uc002qbz.1_Intron|ZNF331_uc002qca.1_Intron|ZNF331_uc010eqr.1_Intron|ZNF331_uc002qcb.1_Intron	NM_018555	NP_061025	Q9NQX6	ZN331_HUMAN	zinc finger protein 331						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|lung(1)	6				GBM - Glioblastoma multiforme(134;0.00555)		gaCTCTGTCTCAAAAAaaaaaa	0.025			T	?	follicular thyroid adenoma								6	3	---	---	---	---	
TMC4	147798	broad.mit.edu	37	19	54667042	54667042	+	Intron	DEL	T	-	-	rs71813752		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:54667042delT	uc010erf.2	-						TMC4_uc002qdn.2_Intron|TMC4_uc002qdo.2_Intron	NM_001145303	NP_001138775	Q7Z404	TMC4_HUMAN	transmembrane channel-like 4 isoform 1							integral to membrane				pancreas(1)	1	all_cancers(19;0.0065)|all_epithelial(19;0.00348)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)					tctttctttcttttttttttt	0.234													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	32314964	32314964	+	IGR	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:32314964delT								PXMP4 (6828 upstream) : ZNF341 (4844 downstream)																							tctctttctctttttttttcc	0.000													6	3	---	---	---	---	
NFS1	9054	broad.mit.edu	37	20	34269624	34269624	+	Intron	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:34269624delA	uc002xdw.1	-						NFS1_uc002xdt.1_Intron|NFS1_uc002xdu.1_Intron|NFS1_uc002xdv.1_Intron|NFS1_uc010zvk.1_Intron|NFS1_uc010zvl.1_Intron	NM_021100	NP_066923	Q9Y697	NFS1_HUMAN	NFS1 nitrogen fixation 1 precursor						cysteine metabolic process|iron incorporation into metallo-sulfur cluster|Mo-molybdopterin cofactor biosynthetic process|protein complex assembly|water-soluble vitamin metabolic process	cytosol|mitochondrial matrix|nucleus	cysteine desulfurase activity|protein homodimerization activity|pyridoxal phosphate binding			ovary(1)|skin(1)	2	Lung NSC(9;0.00608)|all_lung(11;0.00918)		BRCA - Breast invasive adenocarcinoma(18;0.0886)		L-Alanine(DB00160)|L-Cysteine(DB00151)|Pyridoxal Phosphate(DB00114)	tgtctcaatgaaaaaaaaaaT	0.025													8	5	---	---	---	---	
ZBP1	81030	broad.mit.edu	37	20	56185756	56185756	+	Intron	DEL	C	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:56185756delC	uc002xyo.2	-						ZBP1_uc010gjm.2_Intron|ZBP1_uc002xyp.2_Intron	NM_030776	NP_110403	Q9H171	ZBP1_HUMAN	Z-DNA binding protein 1 isoform a							cytoplasm|nucleus	double-stranded RNA adenosine deaminase activity|left-handed Z-DNA binding|RNA binding			ovary(2)	2	Lung NSC(12;0.000545)|all_lung(29;0.00195)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(13;7.87e-13)|Epithelial(14;3.26e-09)|all cancers(14;3.62e-08)			GGAACACTGGCCCCCACTTTT	0.587													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	9827000	9827001	+	IGR	INS	-	T	T	rs71227029		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:9827000_9827001insT								None (None upstream) : None (None downstream)																							cgcgcTCTACCTACCtacctgg	0.064													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	10555385	10555385	+	Intron	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:10555385delA	uc011abv.1	-											Homo sapiens cDNA, FLJ18615.																		CAATTGGTAGAAAAAACAAAT	0.169													4	2	---	---	---	---	
NCAM2	4685	broad.mit.edu	37	21	22651121	22651121	+	Intron	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:22651121delT	uc002yld.1	+						NCAM2_uc011acb.1_Intron|NCAM2_uc011acc.1_Intron	NM_004540	NP_004531	O15394	NCAM2_HUMAN	neural cell adhesion molecule 2 precursor						neuron cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)	4		Lung NSC(9;0.195)		all cancers(11;0.00102)|OV - Ovarian serous cystadenocarcinoma(11;0.00121)|Epithelial(23;0.00147)|Colorectal(24;0.174)		TAtttatttattttttttggt	0.159													4	2	---	---	---	---	
NCAM2	4685	broad.mit.edu	37	21	22707624	22707624	+	Intron	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:22707624delA	uc002yld.1	+						NCAM2_uc011acb.1_Intron|NCAM2_uc011acc.1_Intron	NM_004540	NP_004531	O15394	NCAM2_HUMAN	neural cell adhesion molecule 2 precursor						neuron cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)	4		Lung NSC(9;0.195)		all cancers(11;0.00102)|OV - Ovarian serous cystadenocarcinoma(11;0.00121)|Epithelial(23;0.00147)|Colorectal(24;0.174)		GTTTACATTCAAAAAAAATTT	0.259													4	2	---	---	---	---	
GABPA	2551	broad.mit.edu	37	21	27124066	27124067	+	Intron	DEL	TG	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:27124066_27124067delTG	uc002ylx.3	+						GABPA_uc002yly.3_Intron	NM_002040	NP_002031	Q06546	GABPA_HUMAN	GA binding protein transcription factor, alpha						positive regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	protein heterodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription regulatory region DNA binding			ovary(1)|central_nervous_system(1)	2						AGGTAGGGTTTGTGTGTGTGTC	0.139													4	2	---	---	---	---	
LSS	4047	broad.mit.edu	37	21	47646763	47646766	+	Intron	DEL	TCTA	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:47646763_47646766delTCTA	uc002zij.2	-						LSS_uc011afv.1_Intron|LSS_uc002zil.2_Intron|LSS_uc002zik.2_Intron|MCM3APAS_uc002zim.2_5'Flank|MCM3APAS_uc002zin.2_5'Flank	NM_001001438	NP_001001438	P48449	ERG7_HUMAN	lanosterol synthase isoform 1						cholesterol biosynthetic process	endoplasmic reticulum membrane	lanosterol synthase activity				0	Breast(49;0.214)					ATAAGGACTTTCTATCTATTACAA	0.319													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	22	16955063	16955065	+	IGR	DEL	ATT	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:16955063_16955065delATT								OR11H1 (505259 upstream) : CCT8L2 (116583 downstream)																							TATGTCTCTCATTATTTTGGTAA	0.187													9	6	---	---	---	---	
GAB4	128954	broad.mit.edu	37	22	17488582	17488582	+	Intron	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:17488582delT	uc002zlw.2	-						GAB4_uc010gqs.1_Intron	NM_001037814	NP_001032903	Q2WGN9	GAB4_HUMAN	GRB2-associated binding protein family, member											large_intestine(1)|ovary(1)	2		all_epithelial(15;0.112)|Lung NSC(13;0.248)				CTCTCCGACCTGCAGGCCCAC	0.642													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	22	18843613	18843613	+	Intron	DEL	G	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:18843613delG	uc002zoe.2	+											Homo sapiens cDNA FLJ76361 complete cds.																		AGGAGAGGCAGGGGCGGGGGT	0.622													3	4	---	---	---	---	
PI4KAP1	728233	broad.mit.edu	37	22	20384522	20384523	+	Intron	DEL	AT	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:20384522_20384523delAT	uc010gse.1	-						PI4KAP1_uc010gsf.1_Intron|PI4KAP1_uc010gsg.1_Intron|PI4KAP1_uc010gsh.1_Intron|PI4KAP1_uc002zsc.3_Intron					Homo sapiens cDNA FLJ11279 fis, clone PLACE1009444, highly similar to PHOSPHATIDYLINOSITOL 4-KINASE ALPHA (EC 2.7.1.67).												0						CCAACCCCACATGTTTAAGTGC	0.421													6	4	---	---	---	---	
TOP3B	8940	broad.mit.edu	37	22	22326532	22326532	+	Intron	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:22326532delA	uc002zvs.2	-						TOP3B_uc010gtl.2_Intron|TOP3B_uc002zvt.3_Intron	NM_003935	NP_003926	O95985	TOP3B_HUMAN	topoisomerase (DNA) III beta						DNA topological change	nucleus	ATP binding|DNA topoisomerase type I activity|protein binding			kidney(1)	1	Colorectal(54;0.105)			READ - Rectum adenocarcinoma(21;0.145)		TTTTTGGACCAAAAAAAAAAG	0.289													4	2	---	---	---	---	
LARGE	9215	broad.mit.edu	37	22	34306020	34306021	+	Intron	INS	-	AT	AT			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:34306020_34306021insAT	uc003and.3	-						LARGE_uc003ane.3_Intron|LARGE_uc010gwp.2_Intron|LARGE_uc011ame.1_Intron|LARGE_uc011amf.1_Intron	NM_004737	NP_004728	O95461	LARGE_HUMAN	like-glycosyltransferase						glycosphingolipid biosynthetic process|muscle cell homeostasis|N-acetylglucosamine metabolic process|protein glycosylation	integral to Golgi membrane	acetylglucosaminyltransferase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(1;0.219)				AGGAAGCTCCCACCTCTGACTT	0.455													4	2	---	---	---	---	
XPNPEP3	63929	broad.mit.edu	37	22	41264850	41264850	+	Intron	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:41264850delA	uc003azh.2	+						XPNPEP3_uc011aox.1_Intron|XPNPEP3_uc003azi.2_Intron|XPNPEP3_uc011aoy.1_Intron|XPNPEP3_uc010gyh.1_Intron	NM_022098	NP_071381	Q9NQH7	XPP3_HUMAN	X-prolyl aminopeptidase (aminopeptidase P) 3,						cellular process	mitochondrion	aminopeptidase activity|manganese ion binding|metallopeptidase activity				0						actctgtcttaaaaaaaaaat	0.129													9	4	---	---	---	---	
FAM19A5	25817	broad.mit.edu	37	22	48982867	48982870	+	Intron	DEL	TGTT	-	-	rs71765757		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:48982867_48982870delTGTT	uc003bim.3	+						FAM19A5_uc003bio.3_Intron	NM_001082967	NP_001076436	Q7Z5A7	F19A5_HUMAN	family with sequence similarity 19 (chemokine							extracellular region|integral to membrane				large_intestine(1)	1		all_cancers(38;2.95e-11)|all_epithelial(38;3.07e-10)|all_lung(38;2.89e-05)|Breast(42;0.000396)|Lung NSC(38;0.000471)|Ovarian(80;0.00934)|Lung SC(80;0.195)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0227)|BRCA - Breast invasive adenocarcinoma(115;0.119)		CAGCTGTGTCTGTTTGTCTGTGGT	0.593													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	54927355	54927355	+	IGR	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:54927355delA								MAGED2 (84910 upstream) : TRO (19894 downstream)																							TCTGATCAAGAAAAAAAAAAA	0.388													4	2	---	---	---	---	
LAMP2	3920	broad.mit.edu	37	X	119580473	119580473	+	Intron	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:119580473delA	uc004est.3	-						LAMP2_uc004ess.3_Intron|LAMP2_uc011mtz.1_Intron|LAMP2_uc011mua.1_Intron|LAMP2_uc010nqp.1_Intron	NM_002294	NP_002285	P13473	LAMP2_HUMAN	lysosomal-associated membrane protein 2 isoform						platelet activation|platelet degranulation	endosome membrane|integral to membrane|late endosome|lysosomal membrane|membrane fraction|plasma membrane|platelet dense granule membrane				ovary(1)	1						CAGACAACTTAAAAAAAAAAA	0.373													5	3	---	---	---	---	
BCORL1	63035	broad.mit.edu	37	X	129184445	129184445	+	Intron	DEL	T	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:129184445delT	uc004evb.1	+						BCORL1_uc004evc.1_Intron	NM_021946	NP_068765	Q5H9F3	BCORL_HUMAN	BCL6 co-repressor-like 1						chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				ovary(4)|breast(2)|lung(1)	7						caaattgggattttttttttc	0.035													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	132316076	132316077	+	IGR	INS	-	C	C			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:132316076_132316077insC								USP26 (84941 upstream) : TFDP3 (34620 downstream)																							ACCTCCTGTTTCCCTGAACTCT	0.455													4	2	---	---	---	---	
SPANXC	64663	broad.mit.edu	37	X	140475399	140475399	+	Intron	DEL	A	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:140475399delA	uc004fbl.2	-									Q9NY87	SPNXC_HUMAN	Homo sapiens nuclear-associated protein SPAN-Xa (SPANX) mRNA, complete cds.							cytoplasm|nucleus					0	Acute lymphoblastic leukemia(192;7.65e-05)					AAAAAAAAGTAAAAAAAAaga	0.139													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	Y	9945223	9945224	+	IGR	INS	-	T	T	rs147580695		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrY:9945223_9945224insT								TTTY22 (294369 upstream) : None (None downstream)																							tatcagataaatttaacaatga	0.000													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	Y	13430917	13430918	+	IGR	INS	-	AT	AT			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrY:13430917_13430918insAT								None (None upstream) : None (None downstream)																							TTTAAACTTGGAAAAAATTGAA	0.361													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	Y	13445900	13445900	+	IGR	DEL	C	-	-	rs149511831		TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrY:13445900delC								None (None upstream) : None (None downstream)																							AAAGTCCCAACAAACTTCTCA	0.244													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	Y	13451341	13451341	+	IGR	DEL	C	-	-			TCGA-B8-4621-01A-01D-1501-10	TCGA-B8-4621-10A-01D-1501-10									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrY:13451341delC								None (None upstream) : None (None downstream)																							ccatttctttctttcaacagc	0.010													7	4	---	---	---	---	
