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
FPGT	8790	broad.mit.edu	37	1	74670342	74670342	+	Missense_Mutation	SNP	G	A	A			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:74670342G>A	uc001dgb.1	+	4	648	c.611G>A	c.(610-612)GGA>GAA	p.G204E	TNNI3K_uc001dgc.1_Intron|TNNI3K_uc001dgd.2_Intron|TNNI3K_uc001dge.1_Intron|FPGT_uc010oqt.1_Intron|FPGT_uc010oqu.1_Intron|FPGT_uc010oqv.1_Intron	NM_003838	NP_003829	O14772	FPGT_HUMAN	fucose-1-phosphate guanyltransferase	204					fucose metabolic process	cytoplasm	fucose-1-phosphate guanylyltransferase activity|GTP binding			skin(1)	1						ACCACACATGGAGTATTTGTC	0.363													69	164	---	---	---	---	PASS
TAGLN2	8407	broad.mit.edu	37	1	159888948	159888948	+	Intron	SNP	T	A	A			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:159888948T>A	uc001fum.1	-						CCDC19_uc001ful.2_Intron|TAGLN2_uc001fun.1_Intron|TAGLN2_uc001fuo.1_3'UTR	NM_003564	NP_003555	P37802	TAGL2_HUMAN	transgelin 2						muscle organ development	nuclear membrane|plasma membrane	protein binding				0	all_hematologic(112;0.0597)		BRCA - Breast invasive adenocarcinoma(70;0.111)			atgaggaattttctgaaagtg	0.174													8	26	---	---	---	---	PASS
FAM58B	339521	broad.mit.edu	37	1	200183197	200183197	+	Missense_Mutation	SNP	C	G	G			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:200183197C>G	uc009wzi.1	+	1	542	c.506C>G	c.(505-507)CCC>CGC	p.P169R		NM_001105517	NP_001098987	P0C7Q3	FA58B_HUMAN	family with sequence similarity 58 member B	169					regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent		protein kinase binding				0	Prostate(682;0.19)					CAGCGGACCCCCGTTGCCGTC	0.632													21	86	---	---	---	---	PASS
RPS6KC1	26750	broad.mit.edu	37	1	213302912	213302912	+	Missense_Mutation	SNP	T	C	C			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:213302912T>C	uc010ptr.1	+	6	674	c.515T>C	c.(514-516)GTG>GCG	p.V172A	RPS6KC1_uc001hkd.2_Missense_Mutation_p.V160A|RPS6KC1_uc010pts.1_5'UTR|RPS6KC1_uc010ptt.1_5'UTR|RPS6KC1_uc010ptu.1_5'UTR|RPS6KC1_uc010ptv.1_5'UTR|RPS6KC1_uc001hke.2_5'UTR	NM_012424	NP_036556	Q96S38	KS6C1_HUMAN	ribosomal protein S6 kinase, 52kDa, polypeptide	172					cell communication|signal transduction	early endosome|membrane	ATP binding|phosphatidylinositol binding|protein binding|protein serine/threonine kinase activity			lung(4)|ovary(3)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(81;0.00705)|all cancers(67;0.016)|GBM - Glioblastoma multiforme(131;0.0663)|Epithelial(68;0.145)		ACTGTTGATGTGGATTCTCTT	0.378													69	246	---	---	---	---	PASS
PLD5	200150	broad.mit.edu	37	1	242428747	242428747	+	Missense_Mutation	SNP	G	T	T			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:242428747G>T	uc001hzn.1	-	4	626	c.499C>A	c.(499-501)CAA>AAA	p.Q167K	PLD5_uc001hzl.3_Missense_Mutation_p.Q105K|PLD5_uc001hzm.3_5'UTR|PLD5_uc001hzo.1_Missense_Mutation_p.Q75K			Q8N7P1	PLD5_HUMAN	RecName: Full=Inactive phospholipase D5;          Short=Inactive PLD 5; AltName: Full=Inactive choline phosphatase 5; AltName: Full=Inactive phosphatidylcholine-hydrolyzing phospholipase D5; AltName: Full=PLDc;	167						integral to membrane	catalytic activity			ovary(6)	6	Melanoma(84;0.242)		OV - Ovarian serous cystadenocarcinoma(106;0.0329)			AAAAGACGTTGACCCTGGAAA	0.323													22	80	---	---	---	---	PASS
KIDINS220	57498	broad.mit.edu	37	2	8871251	8871251	+	Missense_Mutation	SNP	T	C	C			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:8871251T>C	uc002qzc.2	-	30	5097	c.4915A>G	c.(4915-4917)ATT>GTT	p.I1639V	KIDINS220_uc010yiv.1_Intron|KIDINS220_uc002qzd.2_Missense_Mutation_p.I1540V|KIDINS220_uc002qzb.2_Missense_Mutation_p.I493V	NM_020738	NP_065789	Q9ULH0	KDIS_HUMAN	kinase D-interacting substrate of 220 kDa	1639	Cytoplasmic (Potential).				activation of MAPKK activity|nerve growth factor receptor signaling pathway	cytosol|integral to membrane				ovary(3)|central_nervous_system(1)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					CGAGCTATAATTGGATCTTGC	0.498													37	82	---	---	---	---	PASS
RAD51AP2	729475	broad.mit.edu	37	2	17698328	17698328	+	Missense_Mutation	SNP	A	G	G			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:17698328A>G	uc002rcl.1	-	1	1379	c.1355T>C	c.(1354-1356)ATC>ACC	p.I452T	RAD51AP2_uc010exn.1_Missense_Mutation_p.I443T	NM_001099218	NP_001092688	Q09MP3	R51A2_HUMAN	RAD51 associated protein 2	452										ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					ATATGCATTGATGACTTTTGC	0.308													23	84	---	---	---	---	PASS
PDK1	5163	broad.mit.edu	37	2	173435508	173435508	+	Missense_Mutation	SNP	A	G	G			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:173435508A>G	uc002uhr.2	+	8	1001	c.901A>G	c.(901-903)ATT>GTT	p.I301V	PDK1_uc010zdz.1_Missense_Mutation_p.I146V|PDK1_uc010zea.1_RNA|PDK1_uc002uhq.1_Missense_Mutation_p.I321V|PDK1_uc002uhs.2_Missense_Mutation_p.I301V|PDK1_uc010zeb.1_Missense_Mutation_p.I321V	NM_002610	NP_002601	Q15118	PDK1_HUMAN	pyruvate dehydrogenase kinase 1 precursor	301	Histidine kinase.				glucose metabolic process|peptidyl-histidine phosphorylation|pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate|small GTPase mediated signal transduction	mitochondrial matrix	ATP binding|pyruvate dehydrogenase (acetyl-transferring) kinase activity|two-component sensor activity			lung(3)|central_nervous_system(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.12)			TTACCCCCCTATTCAAGTTCA	0.348									Autosomal_Dominant_Polycystic_Kidney_Disease				37	78	---	---	---	---	PASS
SPATS2L	26010	broad.mit.edu	37	2	201304031	201304031	+	Missense_Mutation	SNP	A	G	G			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:201304031A>G	uc002uvn.3	+	7	984	c.632A>G	c.(631-633)GAT>GGT	p.D211G	SPATS2L_uc010fst.2_Missense_Mutation_p.D211G|SPATS2L_uc002uvo.3_Missense_Mutation_p.D151G|SPATS2L_uc002uvp.3_Missense_Mutation_p.D211G|SPATS2L_uc002uvq.3_Intron|SPATS2L_uc002uvr.3_Missense_Mutation_p.D211G|SPATS2L_uc010zhc.1_Missense_Mutation_p.D241G	NM_015535	NP_056350	Q9NUQ6	SPS2L_HUMAN	SPATS2-like protein isoform a	211						cytoplasm|nucleolus				ovary(2)|pancreas(1)	3						ATAAAGCCAGATGAGTTGGCA	0.413													24	69	---	---	---	---	PASS
DOCK10	55619	broad.mit.edu	37	2	225637922	225637922	+	Silent	SNP	C	T	T			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:225637922C>T	uc010fwz.1	-	53	6395	c.6156G>A	c.(6154-6156)GTG>GTA	p.V2052V	DOCK10_uc002vob.2_Silent_p.V2046V|DOCK10_uc002voa.2_Silent_p.V708V	NM_014689	NP_055504	Q96BY6	DOC10_HUMAN	dedicator of cytokinesis 10	2052	DHR-2.						GTP binding			ovary(2)	2		Renal(207;0.0113)|all_lung(227;0.0486)|Lung NSC(271;0.0653)|all_hematologic(139;0.14)		Epithelial(121;2.37e-10)|all cancers(144;2.26e-07)|Lung(261;0.0143)|LUSC - Lung squamous cell carcinoma(224;0.0178)		TGATCATGTCCACTTCTTCCA	0.473													17	31	---	---	---	---	PASS
SNED1	25992	broad.mit.edu	37	2	241989270	241989270	+	Missense_Mutation	SNP	A	G	G			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:241989270A>G	uc002wah.1	+	12	1655	c.1655A>G	c.(1654-1656)AAC>AGC	p.N552S		NM_001080437	NP_001073906	Q8TER0	SNED1_HUMAN	6720455I24Rik homolog precursor	552	EGF-like 7.				cell-matrix adhesion	extracellular region	calcium ion binding			breast(1)|central_nervous_system(1)	2		all_cancers(19;7.48e-31)|all_epithelial(40;1.35e-12)|Breast(86;0.000148)|Renal(207;0.00528)|Ovarian(221;0.104)|Esophageal squamous(248;0.131)|all_lung(227;0.17)|all_hematologic(139;0.182)|Melanoma(123;0.238)		Epithelial(32;6.46e-32)|all cancers(36;6.23e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.1e-14)|Kidney(56;6.35e-09)|KIRC - Kidney renal clear cell carcinoma(57;5.98e-08)|BRCA - Breast invasive adenocarcinoma(100;3.66e-06)|Lung(119;0.00072)|LUSC - Lung squamous cell carcinoma(224;0.00553)|Colorectal(34;0.0162)|COAD - Colon adenocarcinoma(134;0.109)		CCCTGCTTCAACGGAGGCTCC	0.687													10	26	---	---	---	---	PASS
HACL1	26061	broad.mit.edu	37	3	15602349	15602349	+	3'UTR	SNP	A	G	G			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:15602349A>G	uc003caf.2	-	17					HACL1_uc011avr.1_Intron|HACL1_uc011avs.1_3'UTR|HACL1_uc011avt.1_3'UTR|HACL1_uc003cag.2_3'UTR|HACL1_uc011avu.1_3'UTR|HACL1_uc010hep.2_3'UTR	NM_012260	NP_036392	Q9UJ83	HACL1_HUMAN	2-hydroxyphytanoyl-CoA lyase						fatty acid alpha-oxidation	peroxisomal matrix	carbon-carbon lyase activity|identical protein binding|magnesium ion binding|thiamine pyrophosphate binding				0						AGAAAACTCAAGACCACCAAC	0.303													30	53	---	---	---	---	PASS
SETD2	29072	broad.mit.edu	37	3	47143014	47143014	+	Missense_Mutation	SNP	A	G	G			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:47143014A>G	uc003cqs.2	-	8	5002	c.4949T>C	c.(4948-4950)TTT>TCT	p.F1650S	SETD2_uc003cqv.2_Missense_Mutation_p.F1717S	NM_014159	NP_054878	Q9BYW2	SETD2_HUMAN	SET domain containing 2	1650	SET.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	DNA binding|histone-lysine N-methyltransferase activity|oxidoreductase activity|transition metal ion binding			kidney(24)|ovary(5)|skin(1)|central_nervous_system(1)|breast(1)	32		Acute lymphoblastic leukemia(5;0.0169)		BRCA - Breast invasive adenocarcinoma(193;0.000302)|KIRC - Kidney renal clear cell carcinoma(197;0.00732)|Kidney(197;0.00844)		GGTGGTAAAAAACCCAACCCT	0.328			N|F|S|Mis		clear cell renal carcinoma								75	109	---	---	---	---	PASS
NFKBIZ	64332	broad.mit.edu	37	3	101570960	101570960	+	Missense_Mutation	SNP	G	C	C			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:101570960G>C	uc003dvp.2	+	2	436	c.321G>C	c.(319-321)CAG>CAC	p.Q107H	NFKBIZ_uc003dvo.2_Missense_Mutation_p.Q7H|NFKBIZ_uc010hpo.2_Missense_Mutation_p.Q7H|NFKBIZ_uc003dvq.2_Missense_Mutation_p.Q107H	NM_031419	NP_113607	Q9BYH8	IKBZ_HUMAN	nuclear factor of kappa light polypeptide gene	107					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(2)	2						GCAGGCAGCAGAGAGGCCCCT	0.448													64	217	---	---	---	---	PASS
MYH15	22989	broad.mit.edu	37	3	108117669	108117669	+	Missense_Mutation	SNP	C	G	G			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:108117669C>G	uc003dxa.1	-	36	5065	c.5008G>C	c.(5008-5010)GAT>CAT	p.D1670H		NM_014981	NP_055796	Q9Y2K3	MYH15_HUMAN	myosin, heavy polypeptide 15	1670	Potential.					myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(5)|central_nervous_system(2)	7						GTGCTGTCATCCAGCTGCATT	0.498													111	249	---	---	---	---	PASS
PARP14	54625	broad.mit.edu	37	3	122447427	122447427	+	Missense_Mutation	SNP	A	C	C			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:122447427A>C	uc003efq.3	+	17	5448	c.5389A>C	c.(5389-5391)ATT>CTT	p.I1797L	PARP14_uc010hrk.2_RNA|PARP14_uc003efr.2_Missense_Mutation_p.I1514L	NM_017554	NP_060024	Q460N5	PAR14_HUMAN	poly (ADP-ribose) polymerase family, member 14	1797	PARP catalytic.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	NAD+ ADP-ribosyltransferase activity			ovary(2)|breast(2)|lung(1)|pancreas(1)	6				GBM - Glioblastoma multiforme(114;0.0531)		AGAGTACCTTATTACGTTTAG	0.328													101	225	---	---	---	---	PASS
SI	6476	broad.mit.edu	37	3	164767593	164767593	+	Missense_Mutation	SNP	G	A	A			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:164767593G>A	uc003fei.2	-	14	1645	c.1583C>T	c.(1582-1584)CCA>CTA	p.P528L		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	528	Lumenal.|Isomaltase.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|brush border|Golgi apparatus|integral to membrane	carbohydrate binding|oligo-1,6-glucosidase activity|sucrose alpha-glucosidase activity			ovary(7)|upper_aerodigestive_tract(4)|skin(2)|pancreas(1)	14		Prostate(884;0.00314)|Melanoma(1037;0.0153)|all_neural(597;0.0199)			Acarbose(DB00284)	AGTAAACGGTGGATAATTCAA	0.279										HNSCC(35;0.089)			23	109	---	---	---	---	PASS
TBL1XR1	79718	broad.mit.edu	37	3	176767807	176767807	+	Missense_Mutation	SNP	T	C	C			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:176767807T>C	uc003fiw.3	-	7	940	c.680A>G	c.(679-681)GAT>GGT	p.D227G	TBL1XR1_uc003fix.3_Missense_Mutation_p.D227G|TBL1XR1_uc011bpz.1_5'UTR	NM_024665	NP_078941	Q9BZK7	TBL1R_HUMAN	transducin (beta)-like 1 X-linked receptor 1	227	WD 2.				canonical Wnt receptor signaling pathway|cellular lipid metabolic process|chromatin modification|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|proteasomal ubiquitin-dependent protein catabolic process|transcription, DNA-dependent	spindle microtubule|transcriptional repressor complex	beta-catenin binding|histone binding|protein N-terminus binding|transcription corepressor activity|transcription regulatory region DNA binding			ovary(1)	1	all_cancers(143;1.44e-17)|Ovarian(172;0.00163)|Breast(254;0.214)	Acute lymphoblastic leukemia(1;0.00599)|all_hematologic(1;0.0632)|Prostate(884;0.215)	OV - Ovarian serous cystadenocarcinoma(80;9.83e-31)			AGATGTGACATCCTTGTTGCT	0.413													31	77	---	---	---	---	PASS
ANK2	287	broad.mit.edu	37	4	114302688	114302688	+	3'UTR	SNP	G	A	A			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:114302688G>A	uc003ibe.3	+	46					ANK2_uc003ibd.3_3'UTR|ANK2_uc003ibf.3_3'UTR|ANK2_uc011cgc.1_3'UTR|ANK2_uc003ibg.3_3'UTR|ANK2_uc003ibh.3_3'UTR|ANK2_uc011cgd.1_3'UTR|ANK2_uc010imr.2_Silent_p.E152E|ANK2_uc010ims.2_Silent_p.E91E	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1						axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		TTGACTTGGAGCACCTGGAGG	0.522													13	60	---	---	---	---	PASS
PHF17	79960	broad.mit.edu	37	4	129782923	129782923	+	Missense_Mutation	SNP	T	G	G			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:129782923T>G	uc003igk.2	+	9	1326	c.1046T>G	c.(1045-1047)ATG>AGG	p.M349R	PHF17_uc003igj.2_Missense_Mutation_p.M349R|PHF17_uc003igl.2_Missense_Mutation_p.M337R|PHF17_uc011cgy.1_Missense_Mutation_p.M349R|PHF17_uc003igm.2_Missense_Mutation_p.M349R	NM_199320	NP_955352	Q6IE81	JADE1_HUMAN	PHD finger protein 17 long isoform	349	PHD-type 2; atypical.				apoptosis|histone H3 acetylation|histone H4-K12 acetylation|histone H4-K5 acetylation|histone H4-K8 acetylation|negative regulation of cell growth|regulation of transcription, DNA-dependent|response to stress|transcription, DNA-dependent	histone acetyltransferase complex|mitochondrion	protein binding|zinc ion binding				0						GGCCTGGAGATGAAGACCATC	0.498													16	245	---	---	---	---	PASS
CDH18	1016	broad.mit.edu	37	5	19747190	19747190	+	Silent	SNP	A	C	C			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:19747190A>C	uc003jgc.2	-	3	761	c.384T>G	c.(382-384)GCT>GCG	p.A128A	CDH18_uc003jgd.2_Silent_p.A128A|CDH18_uc011cnm.1_Silent_p.A128A	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	128	Extracellular (Potential).|Cadherin 1.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					CAATAGCTTGAGCATGAAGCA	0.433													66	183	---	---	---	---	PASS
DMGDH	29958	broad.mit.edu	37	5	78350168	78350168	+	Missense_Mutation	SNP	C	G	G			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:78350168C>G	uc003kfs.2	-	4	385	c.379G>C	c.(379-381)GTG>CTG	p.V127L	DMGDH_uc011cte.1_5'UTR|DMGDH_uc011ctf.1_Intron|DMGDH_uc011ctg.1_Intron	NM_013391	NP_037523	Q9UI17	M2GD_HUMAN	dimethylglycine dehydrogenase precursor	127					choline metabolic process|glycine catabolic process	mitochondrial matrix	aminomethyltransferase activity|dimethylglycine dehydrogenase activity|electron carrier activity			ovary(2)|liver(1)|skin(1)	4		all_lung(232;0.000638)|Lung NSC(167;0.00173)|Ovarian(174;0.0262)|Prostate(461;0.192)		OV - Ovarian serous cystadenocarcinoma(54;6.52e-45)|Epithelial(54;5.96e-40)|all cancers(79;3.56e-35)		TGGAATCCCACCACCTGTGAC	0.413													22	69	---	---	---	---	PASS
TSLP	85480	broad.mit.edu	37	5	110407687	110407687	+	Silent	SNP	C	T	T			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:110407687C>T	uc003kpb.2	+	1	298	c.99C>T	c.(97-99)AAC>AAT	p.N33N	TSLP_uc003kpa.2_RNA|TSLP_uc010jbt.1_5'Flank	NM_033035	NP_149024	Q969D9	TSLP_HUMAN	thymic stromal lymphopoietin isoform 1	33						extracellular space	cytokine activity				0		all_cancers(142;2.72e-05)|all_epithelial(76;4.39e-07)|Prostate(80;0.00955)|Lung NSC(167;0.0417)|Ovarian(225;0.0443)|Colorectal(57;0.0464)|all_lung(232;0.0507)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;1.24e-08)|Epithelial(69;1.54e-07)|all cancers(49;1.73e-05)|COAD - Colon adenocarcinoma(37;0.109)		ACTTCACTAACTGTGACTTTG	0.353													66	148	---	---	---	---	PASS
ARHGAP26	23092	broad.mit.edu	37	5	142526819	142526819	+	Missense_Mutation	SNP	A	T	T			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:142526819A>T	uc011dbj.1	+	20	1896	c.1861A>T	c.(1861-1863)AAC>TAC	p.N621Y	ARHGAP26_uc003lmt.2_Missense_Mutation_p.N621Y|ARHGAP26_uc003lmw.2_Missense_Mutation_p.N621Y	NM_015071	NP_055886	Q9UNA1	RHG26_HUMAN	GTPase regulator associated with the focal	621	Ser-rich.				actin cytoskeleton organization|filopodium assembly|nervous system development|small GTPase mediated signal transduction	cytoskeleton|cytosol|focal adhesion	cytoskeletal adaptor activity|Rho GTPase activator activity|SH3 domain binding			ovary(1)	1		all_hematologic(541;0.0416)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CAGCATCATCAACTCCAGTTT	0.443													59	185	---	---	---	---	PASS
IP6K3	117283	broad.mit.edu	37	6	33693343	33693343	+	Missense_Mutation	SNP	G	C	C			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:33693343G>C	uc010jvf.2	-	6	1176	c.640C>G	c.(640-642)CTG>GTG	p.L214V	IP6K3_uc003ofb.2_Missense_Mutation_p.L214V	NM_001142883	NP_001136355	Q96PC2	IP6K3_HUMAN	inositol hexakisphosphate kinase 3	214	Substrate binding (By similarity).				inositol phosphate biosynthetic process|phosphatidylinositol metabolic process|protein phosphorylation	cytoplasm	ATP binding|inositol hexakisphosphate 5-kinase activity|inositol hexakisphosphate 6-kinase activity|inositol trisphosphate 3-kinase activity				0						TTCAGATCCAGGACACAGGGA	0.552													23	83	---	---	---	---	PASS
UHRF1BP1	54887	broad.mit.edu	37	6	34826414	34826414	+	Nonsense_Mutation	SNP	C	T	T			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:34826414C>T	uc003oju.3	+	14	2515	c.2281C>T	c.(2281-2283)CAG>TAG	p.Q761*	UHRF1BP1_uc010jvm.1_RNA|UHRF1BP1_uc010jvn.2_RNA|UHRF1BP1_uc010jvo.2_RNA	NM_017754	NP_060224	Q6BDS2	URFB1_HUMAN	ICBP90 binding protein 1	761										ovary(3)	3						AAGTCCTGTCCAGTCTGAGGC	0.537													14	148	---	---	---	---	PASS
TAAR5	9038	broad.mit.edu	37	6	132910010	132910010	+	Silent	SNP	C	T	T			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:132910010C>T	uc003qdk.2	-	1	868	c.816G>A	c.(814-816)ACG>ACA	p.T272T		NM_003967	NP_003958	O14804	TAAR5_HUMAN	trace amine associated receptor 5	272	Helical; Name=6; (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity			skin(1)	1	Breast(56;0.112)			OV - Ovarian serous cystadenocarcinoma(155;0.00604)|GBM - Glioblastoma multiforme(226;0.015)		TGTCGACCATCGTGTCTATGG	0.527													40	98	---	---	---	---	PASS
MTRF1L	54516	broad.mit.edu	37	6	153323724	153323724	+	Silent	SNP	G	A	A			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:153323724G>A	uc003qpi.3	-	1	202	c.97C>T	c.(97-99)CTG>TTG	p.L33L	MTRF1L_uc003qpl.3_Silent_p.L33L|MTRF1L_uc011efa.1_Silent_p.L33L|MTRF1L_uc003qpj.3_5'UTR|MTRF1L_uc003qpk.3_Silent_p.L33L	NM_019041	NP_061914	Q9UGC7	RF1ML_HUMAN	mitochondrial translational release factor	33						mitochondrion	translation release factor activity, codon specific				0		Ovarian(120;0.125)		OV - Ovarian serous cystadenocarcinoma(155;4.24e-10)|BRCA - Breast invasive adenocarcinoma(81;0.0888)		AGCTCCTCCAGCGGCGGGCTA	0.736													7	6	---	---	---	---	PASS
ARID1B	57492	broad.mit.edu	37	6	157528622	157528622	+	Missense_Mutation	SNP	T	G	G			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:157528622T>G	uc003qqn.2	+	20	6445	c.6293T>G	c.(6292-6294)GTT>GGT	p.V2098G	ARID1B_uc003qqo.2_Missense_Mutation_p.V2058G|ARID1B_uc003qqp.2_Missense_Mutation_p.V2045G	NM_017519	NP_059989	Q8NFD5	ARI1B_HUMAN	AT rich interactive domain 1B (SWI1-like)	2103					chromatin-mediated maintenance of transcription|nervous system development|transcription, DNA-dependent	SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			ovary(1)|breast(1)	2		Breast(66;0.000162)|Ovarian(120;0.0265)		OV - Ovarian serous cystadenocarcinoma(65;3.19e-17)|BRCA - Breast invasive adenocarcinoma(81;1.01e-05)		GCTACATTAGTTAGGTACGTT	0.488													19	497	---	---	---	---	PASS
CCDC146	57639	broad.mit.edu	37	7	76891575	76891575	+	Missense_Mutation	SNP	G	T	T			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:76891575G>T	uc003uga.2	+	9	1251	c.1124G>T	c.(1123-1125)TGG>TTG	p.W375L	CCDC146_uc010ldp.2_Missense_Mutation_p.W121L	NM_020879	NP_065930	Q8IYE0	CC146_HUMAN	coiled-coil domain containing 146	375										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)				AAAGTGTCCTGGGATGCACTT	0.408													53	122	---	---	---	---	PASS
ZNF804B	219578	broad.mit.edu	37	7	88963296	88963296	+	Missense_Mutation	SNP	G	A	A			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:88963296G>A	uc011khi.1	+	4	1538	c.1000G>A	c.(1000-1002)GTA>ATA	p.V334I		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	334						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			TCTTTCAGATGTAGATTTTAC	0.333										HNSCC(36;0.09)			27	70	---	---	---	---	PASS
CUX1	1523	broad.mit.edu	37	7	101891738	101891738	+	Missense_Mutation	SNP	A	G	G			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:101891738A>G	uc003uyx.3	+	24	3972	c.3934A>G	c.(3934-3936)AGT>GGT	p.S1312G	CUX1_uc003uys.3_Missense_Mutation_p.S1323G|CUX1_uc003uyt.2_Intron|CUX1_uc011kkn.1_Intron|CUX1_uc003uyw.2_Intron|CUX1_uc003uyv.2_Intron|CUX1_uc003uyu.2_Intron	NM_181552	NP_853530	P39880	CUX1_HUMAN	cut-like homeobox 1 isoform a	1312					negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8						TCAGGCCGGGAGTCAGGGCCA	0.697													5	14	---	---	---	---	PASS
DOCK4	9732	broad.mit.edu	37	7	111509659	111509659	+	Missense_Mutation	SNP	G	A	A			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:111509659G>A	uc003vfx.2	-	21	2349	c.2080C>T	c.(2080-2082)CGG>TGG	p.R694W	DOCK4_uc003vfw.2_Missense_Mutation_p.R135W|DOCK4_uc003vfy.2_Missense_Mutation_p.R694W|DOCK4_uc003vga.1_Missense_Mutation_p.R299W	NM_014705	NP_055520	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4	694					cell chemotaxis	cytosol|endomembrane system|membrane|stereocilium	GTP binding|guanyl-nucleotide exchange factor activity|PDZ domain binding|Rac GTPase activator activity|Rac GTPase binding|receptor tyrosine kinase binding|SH3 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(1;0.0441)				TGCTCTTGCCGCTCTGCTTCT	0.423													15	102	---	---	---	---	PASS
C7orf58	79974	broad.mit.edu	37	7	120765873	120765873	+	Splice_Site	SNP	G	T	T			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:120765873G>T	uc003vjq.3	+	9	1509	c.1062_splice	c.e9-1	p.R354_splice	C7orf58_uc003vjr.1_Splice_Site_p.R354_splice|C7orf58_uc003vjs.3_Splice_Site_p.R354_splice|C7orf58_uc003vjt.3_Splice_Site_p.R134_splice|C7orf58_uc010lkk.1_Splice_Site_p.R134_splice	NM_024913	NP_079189	A4D0V7	CG058_HUMAN	hypothetical protein LOC79974 isoform 1							endoplasmic reticulum				ovary(4)|large_intestine(2)|skin(2)|pancreas(1)	9	all_neural(327;0.117)					TTTCATTTTAGATGCAGATTC	0.259													25	88	---	---	---	---	PASS
ZFHX4	79776	broad.mit.edu	37	8	77616514	77616514	+	Missense_Mutation	SNP	T	G	G			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:77616514T>G	uc003yav.2	+	2	578	c.191T>G	c.(190-192)TTC>TGC	p.F64C	ZFHX4_uc003yat.1_Missense_Mutation_p.F64C|ZFHX4_uc003yau.1_Missense_Mutation_p.F64C|ZFHX4_uc003yaw.1_Missense_Mutation_p.F64C	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	64						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			TTGCTGGGTTTCAGCGTTGAG	0.493										HNSCC(33;0.089)			41	98	---	---	---	---	PASS
ZFPM2	23414	broad.mit.edu	37	8	106801068	106801068	+	Missense_Mutation	SNP	T	G	G			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:106801068T>G	uc003ymd.2	+	6	678	c.655T>G	c.(655-657)TAC>GAC	p.Y219D	ZFPM2_uc011lhs.1_5'UTR	NM_012082	NP_036214	Q8WW38	FOG2_HUMAN	zinc finger protein, multitype 2	219					blood coagulation|negative regulation of fat cell differentiation|outflow tract septum morphogenesis|right ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	nucleoplasm	DNA binding|RNA polymerase II transcription coactivator activity|transcription corepressor activity|transcription factor binding|zinc ion binding			ovary(4)|large_intestine(1)	5			OV - Ovarian serous cystadenocarcinoma(57;8.28e-08)			AGAAGGGATGTACCCTGCACG	0.498													32	79	---	---	---	---	PASS
ZFP37	7539	broad.mit.edu	37	9	115806234	115806234	+	Missense_Mutation	SNP	C	G	G			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:115806234C>G	uc004bgm.1	-	4	692	c.664G>C	c.(664-666)GGC>CGC	p.G222R	ZFP37_uc011lwz.1_Missense_Mutation_p.G237R|ZFP37_uc011lxa.1_Missense_Mutation_p.G223R	NM_003408	NP_003399	Q9Y6Q3	ZFP37_HUMAN	zinc finger protein 37 homolog	222						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						TGCTTTTTGCCTTTCCTTGTA	0.353													75	273	---	---	---	---	PASS
FCN1	2219	broad.mit.edu	37	9	137805435	137805435	+	Missense_Mutation	SNP	C	G	G			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:137805435C>G	uc004cfi.2	-	5	424	c.332G>C	c.(331-333)TGT>TCT	p.C111S		NM_002003	NP_001994	O00602	FCN1_HUMAN	ficolin 1 precursor	111	Fibrinogen C-terminal.				opsonization|signal transduction	collagen|extracellular space	antigen binding|calcium ion binding|receptor binding|sugar binding			large_intestine(1)|ovary(1)	2		Myeloproliferative disorder(178;0.0333)		OV - Ovarian serous cystadenocarcinoma(145;3.46e-08)|Epithelial(140;6.01e-08)|all cancers(34;3.69e-07)		ACCTGTCGCACACGACTGAGA	0.592													8	22	---	---	---	---	PASS
CAMK2G	818	broad.mit.edu	37	10	75612974	75612974	+	Missense_Mutation	SNP	C	G	G			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:75612974C>G	uc001jvv.1	-	4	351	c.227G>C	c.(226-228)GGG>GCG	p.G76A	CAMK2G_uc001jvm.1_Missense_Mutation_p.G84A|CAMK2G_uc001jvo.1_Missense_Mutation_p.G84A|CAMK2G_uc001jvq.1_Missense_Mutation_p.G84A|CAMK2G_uc001jvr.1_Missense_Mutation_p.G84A|CAMK2G_uc001jvp.1_Missense_Mutation_p.G84A|CAMK2G_uc001jvs.1_Missense_Mutation_p.G84A|CAMK2G_uc001jvt.1_Intron|CAMK2G_uc001jvu.1_Missense_Mutation_p.G84A|CAMK2G_uc010qkv.1_Intron	NM_172171	NP_751911	Q13555	KCC2G_HUMAN	calcium/calmodulin-dependent protein kinase II	84	Protein kinase.				insulin secretion|interferon-gamma-mediated signaling pathway|synaptic transmission	calcium- and calmodulin-dependent protein kinase complex|cytosol|endocytic vesicle membrane|nucleoplasm|plasma membrane	ATP binding|calcium-dependent protein serine/threonine phosphatase activity|calmodulin binding|calmodulin-dependent protein kinase activity			lung(1)|stomach(1)	2	Prostate(51;0.0112)					GTAGTGAAACCCTTCTTCAGA	0.493													24	65	---	---	---	---	PASS
KCNQ1	3784	broad.mit.edu	37	11	2606466	2606466	+	Silent	SNP	C	T	T			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:2606466C>T	uc001lwn.2	+	8	1165	c.1057C>T	c.(1057-1059)CTG>TTG	p.L353L	KCNQ1_uc009ydp.1_Silent_p.L137L|KCNQ1_uc001lwo.2_Silent_p.L226L	NM_000218	NP_000209	P51787	KCNQ1_HUMAN	potassium voltage-gated channel, KQT-like	353	Cytoplasmic (Potential).		L -> P (in LQT1).		blood circulation|membrane depolarization|muscle contraction|sensory perception of sound		delayed rectifier potassium channel activity|protein binding			ovary(1)	1		all_epithelial(84;3.26e-05)|Breast(177;0.001)|Medulloblastoma(188;0.00111)|Ovarian(85;0.00158)|all_neural(188;0.00725)|all_lung(207;0.11)|Lung NSC(207;0.159)		BRCA - Breast invasive adenocarcinoma(625;0.00251)|Lung(200;0.131)	Bepridil(DB01244)|Indapamide(DB00808)	GGGGTTTGCCCTGAAGGTGCA	0.632													30	126	---	---	---	---	PASS
DCDC1	341019	broad.mit.edu	37	11	31327871	31327871	+	Missense_Mutation	SNP	G	T	T			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:31327871G>T	uc001msv.2	-	5	701	c.499C>A	c.(499-501)CAC>AAC	p.H167N	DCDC1_uc001msu.1_5'UTR	NM_181807	NP_861523	P59894	DCDC1_HUMAN	doublecortin domain containing 1	167					intracellular signal transduction					skin(1)	1	Lung SC(675;0.225)					TGAAGTTTGTGTCTTTGAGAC	0.378													37	102	---	---	---	---	PASS
DGKZ	8525	broad.mit.edu	37	11	46401517	46401517	+	3'UTR	SNP	A	G	G	rs61882687	by1000genomes	TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:46401517A>G	uc001ncn.1	+	32					DGKZ_uc001nch.1_3'UTR|DGKZ_uc001ncj.1_3'UTR|DGKZ_uc010rgr.1_3'UTR|DGKZ_uc001nck.1_3'UTR|DGKZ_uc001ncl.2_3'UTR|DGKZ_uc001ncm.2_3'UTR|DGKZ_uc009yky.1_3'UTR|DGKZ_uc010rgs.1_3'UTR|MDK_uc009ykz.1_5'Flank|MDK_uc001nco.2_5'Flank|MDK_uc001ncp.2_5'Flank|MDK_uc009yla.2_5'Flank|MDK_uc009ylb.2_5'Flank|MDK_uc001ncq.2_5'Flank|MDK_uc001ncr.2_5'Flank|MDK_uc001ncs.2_5'Flank	NM_001105540	NP_001099010	Q13574	DGKZ_HUMAN	diacylglycerol kinase zeta isoform 4						activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|cell migration|intracellular signal transduction|mitotic cell cycle G1/S transition DNA damage checkpoint|negative regulation of mitotic cell cycle|platelet activation	cytoplasm|lamellipodium|nucleus|plasma membrane	ATP binding|diacylglycerol kinase activity|diacylglycerol kinase activity|lipid kinase activity|metal ion binding|protein binding|protein C-terminus binding			pancreas(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(35;0.0259)|Lung(87;0.141)		CACGGGCAGCAGGAGGGACAA	0.682													3	8	---	---	---	---	PASS
LRP4	4038	broad.mit.edu	37	11	46916747	46916747	+	Missense_Mutation	SNP	G	A	A			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:46916747G>A	uc001ndn.3	-	11	1425	c.1279C>T	c.(1279-1281)CGG>TGG	p.R427W		NM_002334	NP_002325	O75096	LRP4_HUMAN	low density lipoprotein receptor-related protein	427	Extracellular (Potential).|EGF-like 2; calcium-binding (Potential).				endocytosis|negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to membrane	calcium ion binding|receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4				Lung(87;0.159)		CGGTCGGGCCGTAGTTCATAG	0.612													36	120	---	---	---	---	PASS
RTN3	10313	broad.mit.edu	37	11	63487838	63487838	+	Missense_Mutation	SNP	G	A	A			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:63487838G>A	uc001nxq.2	+	3	2051	c.1864G>A	c.(1864-1866)GAG>AAG	p.E622K	RTN3_uc001nxo.2_Intron|RTN3_uc001nxm.2_Intron|RTN3_uc001nxn.2_Missense_Mutation_p.E603K|RTN3_uc001nxp.2_Intron|RTN3_uc009yov.2_Missense_Mutation_p.E510K|RTN3_uc010rmt.1_Intron|RTN3_uc010rmu.1_Intron	NM_201428	NP_958831	O95197	RTN3_HUMAN	reticulon 3 isoform b	622					apoptosis|endoplasmic reticulum tubular network organization|interspecies interaction between organisms|response to stress|vesicle-mediated transport	endoplasmic reticulum membrane|extracellular space|Golgi membrane|integral to membrane				ovary(1)	1						TGTTTTTAATGAGACAGAATT	0.383													62	166	---	---	---	---	PASS
CRYAB	1410	broad.mit.edu	37	11	111782457	111782457	+	5'UTR	SNP	G	T	T			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:111782457G>T	uc001pmf.1	-	1					CRYAB_uc010rwp.1_5'UTR|HSPB2_uc001pmg.2_5'Flank|HSPB2_uc009yyj.2_5'Flank|C11orf52_uc001pmh.2_5'Flank	NM_001885	NP_001876	P02511	CRYAB_HUMAN	crystallin, alpha B						anti-apoptosis|muscle contraction|negative regulation of intracellular transport|protein folding|protein homooligomerization|response to heat	cytoplasm|nucleus	protein homodimerization activity|structural constituent of eye lens|unfolded protein binding				0		all_cancers(61;1.26e-15)|all_epithelial(67;9.52e-10)|Melanoma(852;1.91e-06)|all_hematologic(158;0.000405)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0112)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		Epithelial(105;3.57e-07)|BRCA - Breast invasive adenocarcinoma(274;1.1e-06)|all cancers(92;6.57e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.051)		ATGGTGGCTAGGTGAGTGTGA	0.577													7	11	---	---	---	---	PASS
SLCO1B1	10599	broad.mit.edu	37	12	21355474	21355474	+	Nonsense_Mutation	SNP	T	G	G			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:21355474T>G	uc001req.3	+	10	1289	c.1185T>G	c.(1183-1185)TAT>TAG	p.Y395*		NM_006446	NP_006437	Q9Y6L6	SO1B1_HUMAN	solute carrier organic anion transporter family,	395	Helical; Name=8; (Potential).				bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|integral to plasma membrane|membrane fraction	bile acid transmembrane transporter activity|sodium-independent organic anion transmembrane transporter activity|thyroid hormone transmembrane transporter activity			ovary(3)|skin(3)|pancreas(1)|central_nervous_system(1)	8					Digoxin(DB00390)|Gemfibrozil(DB01241)|Pravastatin(DB00175)	TAGGAGGATATATCATTAAAA	0.289													3	88	---	---	---	---	PASS
SLITRK6	84189	broad.mit.edu	37	13	86368512	86368512	+	Missense_Mutation	SNP	C	T	T			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:86368512C>T	uc001vll.1	-	2	2591	c.2132G>A	c.(2131-2133)GGA>GAA	p.G711E	SLITRK6_uc010afe.1_Missense_Mutation_p.G164E	NM_032229	NP_115605	Q9H5Y7	SLIK6_HUMAN	slit and trk like 6 precursor	711	Cytoplasmic (Potential).					integral to membrane				large_intestine(1)|ovary(1)|central_nervous_system(1)	3	all_neural(89;0.117)|Medulloblastoma(90;0.163)			GBM - Glioblastoma multiforme(99;0.0456)		TGCATCACTTCCTTCTTTCTC	0.413													191	525	---	---	---	---	PASS
GABRA5	2558	broad.mit.edu	37	15	27193284	27193284	+	Silent	SNP	C	A	A			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:27193284C>A	uc001zbd.1	+	12	1632	c.1293C>A	c.(1291-1293)ATC>ATA	p.I431I	GABRA5_uc001zbe.1_RNA	NM_000810	NP_000801	P31644	GBRA5_HUMAN	gamma-aminobutyric acid A receptor, alpha 5	431	Helical; (Potential).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity			ovary(1)	1		all_lung(180;4.59e-13)|Breast(32;0.000563)|Colorectal(260;0.227)		all cancers(64;1.45e-08)|Epithelial(43;4.96e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0232)|Lung(196;0.182)	Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	TGTCCCGAATCGTATTCCCAG	0.428													9	19	---	---	---	---	PASS
VPS39	23339	broad.mit.edu	37	15	42479524	42479524	+	Missense_Mutation	SNP	G	A	A			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:42479524G>A	uc001zpd.2	-	8	663	c.512C>T	c.(511-513)GCG>GTG	p.A171V	VPS39_uc001zpc.2_Missense_Mutation_p.A160V	NM_015289	NP_056104	Q96JC1	VPS39_HUMAN	vacuolar protein sorting 39	171	CNH.				protein transport	HOPS complex|late endosome membrane|lysosomal membrane	small GTPase regulator activity			ovary(1)|pancreas(1)|skin(1)	3		all_cancers(109;6.78e-16)|all_epithelial(112;1.81e-14)|Lung NSC(122;5.01e-09)|all_lung(180;2.24e-08)|Melanoma(134;0.0574)|Colorectal(260;0.152)		GBM - Glioblastoma multiforme(94;3.05e-06)		TTCACACCACGCCATGGACTT	0.353													28	96	---	---	---	---	PASS
TGM7	116179	broad.mit.edu	37	15	43571460	43571460	+	Missense_Mutation	SNP	A	C	C			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:43571460A>C	uc001zrf.1	-	11	1699	c.1694T>G	c.(1693-1695)CTC>CGC	p.L565R		NM_052955	NP_443187	Q96PF1	TGM7_HUMAN	transglutaminase 7	565					peptide cross-linking		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(2)	2		all_cancers(109;2.12e-14)|all_epithelial(112;1.99e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;9.14e-07)	L-Glutamine(DB00130)	GGGCAGGAGGAGCGGCCACTG	0.517													10	41	---	---	---	---	PASS
MAN2C1	4123	broad.mit.edu	37	15	75655087	75655087	+	Missense_Mutation	SNP	A	G	G			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:75655087A>G	uc002baf.2	-	7	810	c.793T>C	c.(793-795)TGG>CGG	p.W265R	MAN2C1_uc002bag.2_Missense_Mutation_p.W265R|MAN2C1_uc002bah.2_Missense_Mutation_p.W265R|MAN2C1_uc010bkk.2_Intron|MAN2C1_uc010umi.1_Missense_Mutation_p.W47R|MAN2C1_uc010umj.1_RNA	NM_006715	NP_006706	Q9NTJ4	MA2C1_HUMAN	mannosidase, alpha, class 2C, member 1	265					mannose metabolic process		alpha-mannosidase activity|carbohydrate binding|protein binding|zinc ion binding				0						GGCCAAAGCCAGGCTATACGG	0.627													18	63	---	---	---	---	PASS
GOLGA6L10	647042	broad.mit.edu	37	15	83014106	83014106	+	Silent	SNP	T	C	C			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:83014106T>C	uc010uny.1	-	6	539	c.441A>G	c.(439-441)GTA>GTG	p.V147V	GOLGA6L10_uc010unt.1_RNA|uc002bhl.2_Intron|uc002bhm.2_Intron|GOLGA6L10_uc002bia.1_5'Flank	NM_198181	NP_937824	A6NI86	GG6LA_HUMAN	golgi autoantigen, golgin subfamily a, 6D-like	159	Potential.										0						GTAGCTGCTCTACCTTAGATG	0.498													3	4	---	---	---	---	PASS
ZNF646	9726	broad.mit.edu	37	16	31094339	31094339	+	Missense_Mutation	SNP	C	G	G			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:31094339C>G	uc002eap.2	+	3	5714	c.5425C>G	c.(5425-5427)CCT>GCT	p.P1809A		NM_014699	NP_055514	O15015	ZN646_HUMAN	zinc finger protein 646	1645					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			breast(2)	2						GCCATTGCCCCCTCCACCCAC	0.632													9	24	---	---	---	---	PASS
ALOXE3	59344	broad.mit.edu	37	17	8021249	8021249	+	Missense_Mutation	SNP	G	T	T			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:8021249G>T	uc010cnr.2	-	2	430	c.60C>A	c.(58-60)GAC>GAA	p.D20E	ALOXE3_uc002gka.2_Missense_Mutation_p.D176E|ALOXE3_uc010vuo.1_Missense_Mutation_p.D152E|ALOXE3_uc010vup.1_RNA	NM_021628	NP_067641	Q9BYJ1	LOXE3_HUMAN	arachidonate lipoxygenase 3 isoform 2	20	PLAT.				leukotriene biosynthetic process		iron ion binding|lipoxygenase activity			skin(3)|lung(1)|central_nervous_system(1)	5						CAGAGATGTTGTCCAGTGTGC	0.617													10	18	---	---	---	---	PASS
MFSD6L	162387	broad.mit.edu	37	17	8701942	8701942	+	Missense_Mutation	SNP	C	T	T			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:8701942C>T	uc002glp.1	-	1	645	c.497G>A	c.(496-498)CGT>CAT	p.R166H		NM_152599	NP_689812	Q8IWD5	MFS6L_HUMAN	major facilitator superfamily domain containing	166						integral to membrane				central_nervous_system(1)	1						GTGCAGATCACGGAAAGTTTC	0.567													57	163	---	---	---	---	PASS
NFE2L1	4779	broad.mit.edu	37	17	46136322	46136322	+	Silent	SNP	T	C	C			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:46136322T>C	uc002imz.3	+	6	2289	c.1638T>C	c.(1636-1638)CCT>CCC	p.P546P	NFE2L1_uc002ina.3_Silent_p.P516P|NFE2L1_uc002inb.3_Silent_p.P516P|NFE2L1_uc010wle.1_Silent_p.P358P|NFE2L1_uc010wlf.1_Silent_p.P390P	NM_003204	NP_003195	Q14494	NF2L1_HUMAN	nuclear factor erythroid 2-like 1	546					anatomical structure morphogenesis|heme biosynthetic process|inflammatory response|transcription from RNA polymerase II promoter	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription cofactor activity			skin(1)	1						GCTACCAGCCTGAGTATTCCA	0.527													3	102	---	---	---	---	PASS
TEX14	56155	broad.mit.edu	37	17	56638955	56638955	+	Missense_Mutation	SNP	A	C	C			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:56638955A>C	uc010dcz.1	-	30	4339	c.4221T>G	c.(4219-4221)GAT>GAG	p.D1407E	TEX14_uc002iwr.1_Missense_Mutation_p.D1401E|TEX14_uc002iws.1_Missense_Mutation_p.D1361E|TEX14_uc010dda.1_Missense_Mutation_p.D1141E	NM_198393	NP_938207	Q8IWB6	TEX14_HUMAN	testis expressed sequence 14 isoform a	1407						cytoplasm	ATP binding|protein kinase activity			stomach(4)|lung(3)|breast(3)|ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)|pancreas(1)	17	Medulloblastoma(34;0.127)|all_neural(34;0.237)					CCAGGTCCTCATCCAGAGTAG	0.488													67	201	---	---	---	---	PASS
KCNJ2	3759	broad.mit.edu	37	17	68171679	68171679	+	Missense_Mutation	SNP	G	A	A	rs140147979		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:68171679G>A	uc010dfg.2	+	2	900	c.499G>A	c.(499-501)GTG>ATG	p.V167M	KCNJ2_uc002jir.2_Missense_Mutation_p.V167M	NM_000891	NP_000882	P63252	IRK2_HUMAN	potassium inwardly-rectifying channel J2	167	Helical; Name=M2; (By similarity).				synaptic transmission	integral to plasma membrane	inward rectifier potassium channel activity|protein binding				0	Breast(10;1.64e-08)					CCAGTCAATCGTGGGCTGCAT	0.483													72	171	---	---	---	---	PASS
AQP4	361	broad.mit.edu	37	18	24436385	24436385	+	Silent	SNP	T	A	A			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:24436385T>A	uc002kwa.2	-	5	825	c.762A>T	c.(760-762)CCA>CCT	p.P254P	AQP4_uc002kvz.2_Silent_p.P232P	NM_001650	NP_001641	P55087	AQP4_HUMAN	aquaporin 4 isoform a	254	Cytoplasmic (Potential).				cellular response to interferon-gamma|excretion|nervous system development	cytoplasm|external side of plasma membrane|integral to plasma membrane	water channel activity				0	all_cancers(21;0.0172)|Lung NSC(5;0.00299)|all_lung(6;0.00747)|Ovarian(20;0.124)					ATTCAACATCTGGACAGAAGA	0.458													92	284	---	---	---	---	PASS
PQLC1	80148	broad.mit.edu	37	18	77679354	77679354	+	Nonsense_Mutation	SNP	G	T	T			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:77679354G>T	uc002lnl.2	-	5	610	c.438C>A	c.(436-438)TAC>TAA	p.Y146*	PQLC1_uc010dre.2_Nonsense_Mutation_p.Y63*|PQLC1_uc002lnk.2_Nonsense_Mutation_p.Y128*|PQLC1_uc010xfm.1_Intron	NM_025078	NP_079354	Q8N2U9	PQLC1_HUMAN	PQ loop repeat containing 1 isoform 1	146	Helical; (Potential).					integral to membrane				large_intestine(1)|ovary(1)	2		Esophageal squamous(42;0.0212)|Melanoma(33;0.2)		OV - Ovarian serous cystadenocarcinoma(15;8.2e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0258)		CGCACTGCACGTAGTCCGAGA	0.622													3	77	---	---	---	---	PASS
MUC16	94025	broad.mit.edu	37	19	9064631	9064631	+	Silent	SNP	G	A	A			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:9064631G>A	uc002mkp.2	-	3	23019	c.22815C>T	c.(22813-22815)CCC>CCT	p.P7605P		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	7607	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CAGAAATCCTGGGGATGGTTC	0.483													35	83	---	---	---	---	PASS
RPSAP58	388524	broad.mit.edu	37	19	24010294	24010294	+	Missense_Mutation	SNP	C	G	G			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:24010294C>G	uc002nrn.2	+	4	754	c.331C>G	c.(331-333)CAG>GAG	p.Q111E		NM_002295	NP_002286			ribosomal protein SA												0						CTTCACTAACCAGATCCAGGC	0.567													3	62	---	---	---	---	PASS
CGB1	114335	broad.mit.edu	37	19	49540093	49540093	+	5'UTR	SNP	A	C	C	rs10853805	by1000genomes	TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:49540093A>C	uc002plx.2	-	1					CGB_uc010yad.1_Intron|SNAR-G1_uc010emp.1_5'Flank	NM_033377	NP_203695	A6NKQ9	CGB1_HUMAN	chorionic gonadotropin, beta polypeptide 1							extracellular region	hormone activity				0		all_epithelial(76;9.62e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		all cancers(93;0.000371)|OV - Ovarian serous cystadenocarcinoma(262;0.000503)|GBM - Glioblastoma multiforme(486;0.00518)|Epithelial(262;0.0427)		GAACCTGGCCAGAGTCAGCGG	0.632													4	26	---	---	---	---	PASS
NLRP8	126205	broad.mit.edu	37	19	56473595	56473595	+	Silent	SNP	A	G	G			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:56473595A>G	uc002qmh.2	+	4	2276	c.2205A>G	c.(2203-2205)CAA>CAG	p.Q735Q	NLRP8_uc010etg.2_Silent_p.Q735Q	NM_176811	NP_789781	Q86W28	NALP8_HUMAN	NLR family, pyrin domain containing 8	735						cytoplasm	ATP binding			ovary(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|kidney(1)	13		Colorectal(82;0.000147)|Ovarian(87;0.17)		GBM - Glioblastoma multiforme(193;0.0695)		GCAAACTGCAAAAGCTACTGT	0.483													30	91	---	---	---	---	PASS
ZNF805	390980	broad.mit.edu	37	19	57764639	57764639	+	Missense_Mutation	SNP	C	G	G			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:57764639C>G	uc010ygt.1	+	4	659	c.452C>G	c.(451-453)CCT>CGT	p.P151R	ZNF805_uc010ygu.1_Missense_Mutation_p.P18R	NM_001023563	NP_001018857	Q5CZA5	ZN805_HUMAN	zinc finger protein 805 isoform 1	151					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GAGAAGCTTCCTGGAAAAATG	0.488													4	6	---	---	---	---	PASS
OGFR	11054	broad.mit.edu	37	20	61444100	61444100	+	Missense_Mutation	SNP	G	T	T	rs6122312		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:61444100G>T	uc002ydj.2	+	7	1168	c.1133G>T	c.(1132-1134)AGC>ATC	p.S378I	OGFR_uc002ydk.2_Missense_Mutation_p.S361I|OGFR_uc002ydl.2_Missense_Mutation_p.S326I|uc011aam.1_3'UTR	NM_007346	NP_031372	Q9NZT2	OGFR_HUMAN	opioid growth factor receptor	378					regulation of cell growth	cytoplasm|membrane|nucleus	opioid receptor activity				0	Breast(26;3.65e-08)					GAGCCCTTAAGCCCCAAAGAG	0.677													7	15	---	---	---	---	PASS
TPTE	7179	broad.mit.edu	37	21	11014987	11014987	+	RNA	SNP	A	G	G			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:11014987A>G	uc002yis.1	-	7		c.1459T>C						P56180	TPTE_HUMAN	Homo sapiens putative tyrosine phosphatase mRNA, complete cds.						signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		CTATAGTTTCAATAGCAGACT	0.388													3	55	---	---	---	---	PASS
PPM1F	9647	broad.mit.edu	37	22	22300480	22300480	+	5'UTR	SNP	C	A	A			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:22300480C>A	uc002zvp.1	-	2					PPM1F_uc002zvq.2_5'UTR	NM_014634	NP_055449	P49593	PPM1F_HUMAN	protein phosphatase 1F						apoptosis|protein dephosphorylation	protein serine/threonine phosphatase complex	metal ion binding|protein serine/threonine phosphatase activity			ovary(2)|large_intestine(1)|breast(1)|kidney(1)	5	Colorectal(54;0.105)			READ - Rectum adenocarcinoma(21;0.155)		CAGGCTTCACCCTGGGGAGAA	0.627													3	15	---	---	---	---	PASS
SMARCB1	6598	broad.mit.edu	37	22	24175874	24175874	+	Nonsense_Mutation	SNP	C	T	T			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:24175874C>T	uc002zyb.2	+	8	1309	c.1102C>T	c.(1102-1104)CAG>TAG	p.Q368*	SMARCB1_uc002zya.2_Intron|SMARCB1_uc002zyc.2_Nonsense_Mutation_p.Q359*|SMARCB1_uc002zyd.2_Nonsense_Mutation_p.Q377*	NM_003073	NP_003064	Q12824	SNF5_HUMAN	SWI/SNF related, matrix associated, actin	368					cell cycle|chromatin remodeling|DNA integration|interspecies interaction between organisms|nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|retroviral genome replication|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleolus|nucleoplasm|SWI/SNF complex	p53 binding	p.?(2)|p.Q368R(1)|p.L266_*386del(1)|p.Q368*(1)		soft_tissue(193)|central_nervous_system(172)|haematopoietic_and_lymphoid_tissue(23)|meninges(5)|skin(5)|bone(4)|ovary(2)|endometrium(1)|lung(1)|pancreas(1)	407		Medulloblastoma(6;2.2e-09)|all_neural(6;2.73e-05)				GATCCGCGACCAGGACAGGAA	0.622			D|N|F|S		malignant rhabdoid 	malignant rhabdoid			Rhabdoid_Predisposition_syndrome|Schwannomatosis				33	101	---	---	---	---	PASS
MAGEB16	139604	broad.mit.edu	37	X	35820494	35820494	+	Missense_Mutation	SNP	C	T	T			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:35820494C>T	uc010ngt.1	+	2	460	c.181C>T	c.(181-183)CCT>TCT	p.P61S		NM_001099921	NP_001093391	A2A368	MAGBG_HUMAN	melanoma antigen family B, 16	61										lung(3)|ovary(2)|breast(1)|skin(1)	7						GGCAGAGAGTCCTCTTGAGGT	0.527													9	24	---	---	---	---	PASS
LHFPL1	340596	broad.mit.edu	37	X	111914413	111914413	+	Missense_Mutation	SNP	C	T	T			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:111914413C>T	uc004epq.2	-	2	539	c.206G>A	c.(205-207)CGC>CAC	p.R69H	LHFPL1_uc004epp.2_Missense_Mutation_p.R92H|LHFPL1_uc010nqa.2_Intron|LHFPL1_uc010nqb.2_Missense_Mutation_p.R69H	NM_178175	NP_835469	Q86WI0	LHPL1_HUMAN	lipoma HMGIC fusion partner-like 1 precursor	69						integral to membrane					0						GCTGGCATAGCGCCCACATTC	0.592													14	171	---	---	---	---	PASS
VPS13D	55187	broad.mit.edu	37	1	12464219	12464220	+	Intron	INS	-	A	A			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:12464219_12464220insA	uc001atv.2	+						VPS13D_uc001atw.2_Intron|VPS13D_uc001atx.2_Intron|VPS13D_uc009vnl.2_Intron	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1						protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		TATTTGTCTTTAAAAAAAAAAA	0.312													5	4	---	---	---	---	
ARHGEF10L	55160	broad.mit.edu	37	1	17948124	17948124	+	Intron	DEL	A	-	-	rs149251724	by1000genomes	TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:17948124delA	uc001ban.2	+						ARHGEF10L_uc009vpe.1_Intron|ARHGEF10L_uc001bao.2_Intron|ARHGEF10L_uc001bap.2_Intron|ARHGEF10L_uc010ocr.1_Intron|ARHGEF10L_uc001baq.2_Intron|ARHGEF10L_uc010ocs.1_Intron|ARHGEF10L_uc001bar.2_Intron	NM_018125	NP_060595	Q9HCE6	ARGAL_HUMAN	Rho guanine nucleotide exchange factor (GEF)						regulation of Rho protein signal transduction	cytoplasm	Rho guanyl-nucleotide exchange factor activity			large_intestine(1)|ovary(1)|pancreas(1)	3		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000337)|Lung NSC(340;0.000419)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00598)|COAD - Colon adenocarcinoma(227;1.62e-05)|BRCA - Breast invasive adenocarcinoma(304;1.68e-05)|Kidney(64;0.000269)|KIRC - Kidney renal clear cell carcinoma(64;0.00361)|STAD - Stomach adenocarcinoma(196;0.00656)|READ - Rectum adenocarcinoma(331;0.0718)|Lung(427;0.204)		atgtgcacagaggGGCTTTCC	0.284													4	2	---	---	---	---	
SEMA4A	64218	broad.mit.edu	37	1	156146086	156146087	+	Intron	INS	-	A	A	rs77230341		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:156146086_156146087insA	uc001fnl.2	+						SEMA4A_uc009wrq.2_Intron|SEMA4A_uc001fnm.2_Intron|SEMA4A_uc001fnn.2_Intron|SEMA4A_uc001fno.2_Intron	NM_022367	NP_071762	Q9H3S1	SEM4A_HUMAN	semaphorin B precursor						axon guidance	integral to membrane|plasma membrane	receptor activity			ovary(1)|skin(1)	2	Hepatocellular(266;0.158)					gaacctgcctcaaaaaaaaaaa	0.163													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	38456195	38456196	+	IGR	INS	-	A	A			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:38456195_38456196insA								C2orf58 (47204 upstream) : ATL2 (65835 downstream)																							atacccaacttaaaaaaaaaaa	0.010													4	2	---	---	---	---	
IGFBP2	3485	broad.mit.edu	37	2	217528566	217528566	+	Intron	DEL	A	-	-			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:217528566delA	uc010zjt.1	+						IGFBP2_uc010zju.1_3'UTR	NM_000597	NP_000588	P18065	IBP2_HUMAN	insulin-like growth factor binding protein 2,						positive regulation of activated T cell proliferation|regulation of cell growth|regulation of insulin-like growth factor receptor signaling pathway	extracellular space	insulin-like growth factor I binding|insulin-like growth factor II binding				0		Renal(323;0.0458)		Epithelial(149;2.9e-06)|all cancers(144;0.000223)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00968)		GCGCATGGGTAGCTGCAAGGG	0.388													15	8	---	---	---	---	
ARPC2	10109	broad.mit.edu	37	2	219118832	219118832	+	3'UTR	DEL	A	-	-			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:219118832delA	uc002vhd.2	+	11					ARPC2_uc002vhe.2_3'UTR|ARPC2_uc002vhf.2_3'UTR	NM_152862	NP_690601	O15144	ARPC2_HUMAN	actin related protein 2/3 complex subunit 2						cellular component movement	Arp2/3 protein complex|cell projection|Golgi apparatus	actin binding|structural constituent of cytoskeleton			ovary(1)	1		Renal(207;0.0474)		Epithelial(149;1.21e-06)|all cancers(144;0.000212)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.0103)		CCCAAGAATTAAAAAAAAAAA	0.368													5	3	---	---	---	---	
KIF1A	547	broad.mit.edu	37	2	241739532	241739533	+	Intron	INS	-	AT	AT	rs145245222	by1000genomes	TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:241739532_241739533insAT	uc002vzy.2	-						KIF1A_uc010fzk.2_Intron|KIF1A_uc002vzz.1_Intron	NM_004321	NP_004312	Q12756	KIF1A_HUMAN	axonal transport of synaptic vesicles						anterograde axon cargo transport	cytoplasm|microtubule|nucleus	ATP binding|microtubule motor activity			lung(1)	1		all_epithelial(40;1.35e-15)|Breast(86;2.14e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0295)|all_neural(83;0.0459)|Lung NSC(271;0.0942)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;6.12e-30)|all cancers(36;3.46e-27)|OV - Ovarian serous cystadenocarcinoma(60;1.38e-14)|Kidney(56;5e-09)|KIRC - Kidney renal clear cell carcinoma(57;5e-08)|BRCA - Breast invasive adenocarcinoma(100;5.87e-06)|Lung(119;0.00209)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Colorectal(34;0.0282)|COAD - Colon adenocarcinoma(134;0.176)		Gacacacacacacacacacaca	0.183													4	2	---	---	---	---	
VHL	7428	broad.mit.edu	37	3	10188204	10188204	+	Frame_Shift_Del	DEL	T	-	-			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:10188204delT	uc003bvc.2	+	2	560	c.347delT	c.(346-348)CTTfs	p.L116fs	VHL_uc003bvd.2_Intron	NM_000551	NP_000542	P40337	VHL_HUMAN	von Hippel-Lindau tumor suppressor isoform 1	116	Involved in binding to CCT complex.		L -> V (in VHLD).		anti-apoptosis|cell morphogenesis|negative regulation of cell proliferation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of cell differentiation|positive regulation of transcription, DNA-dependent|protein stabilization|protein ubiquitination|proteolysis	cytosol|endoplasmic reticulum|membrane|mitochondrion|nucleus	protein binding|transcription factor binding	p.?(2)|p.L116V(1)|p.W117fs*14(1)|p.W117fs*42(1)|p.L116fs*43(1)|p.H115fs*41(1)|p.H115fs*42(1)		kidney(1273)|soft_tissue(24)|adrenal_gland(15)|large_intestine(13)|pancreas(5)|endometrium(4)|thyroid(3)|upper_aerodigestive_tract(3)|central_nervous_system(2)|lung(2)|pleura(1)|paratesticular_tissues(1)	1346				Kidney(1;0.000404)|KIRC - Kidney renal clear cell carcinoma(1;0.000569)		ATAGGTCACCTTTGGCTCTTC	0.348		1	D|Mis|N|F|S		renal|hemangioma|pheochromocytoma	renal|hemangioma|pheochromocytoma			von_Hippel-Lindau_disease|Chuvash_Polycythemia_|Pheochromocytoma_(Adrenal)_Familial				184	97	---	---	---	---	
PTPRG	5793	broad.mit.edu	37	3	62058305	62058306	+	Intron	INS	-	TC	TC	rs144463523	by1000genomes	TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:62058305_62058306insTC	uc003dlb.2	+						PTPRG_uc003dlc.2_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)		gtgtgtgtgtgtgtgtgtgtgt	0.282													4	3	---	---	---	---	
C3orf49	132200	broad.mit.edu	37	3	63820037	63820038	+	Intron	DEL	AA	-	-			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:63820037_63820038delAA	uc003dls.3	+						THOC7_uc003dlt.3_Intron|THOC7_uc003dlu.3_Intron	NR_026866				RecName: Full=Putative uncharacterized protein C3orf49;												0						GACTTCACTTAAAAAAAAAAAA	0.149													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	180863907	180863907	+	IGR	DEL	A	-	-			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:180863907delA								DNAJC19 (156377 upstream) : SOX2OT (417602 downstream)																							tagaaaatccaaaaaaaaaaa	0.005													4	2	---	---	---	---	
NSUN7	79730	broad.mit.edu	37	4	40763013	40763014	+	Intron	INS	-	T	T	rs142152476	by1000genomes	TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:40763013_40763014insT	uc003gvj.3	+						NSUN7_uc003gvh.2_Intron|NSUN7_uc003gvi.3_Intron	NM_024677	NP_078953			NOL1/NOP2/Sun domain family, member 7												0						TTTTGAAAGGGTTTTTTTTTTC	0.282													4	2	---	---	---	---	
ADH5	128	broad.mit.edu	37	4	99996377	99996377	+	Intron	DEL	T	-	-	rs112636325		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:99996377delT	uc003hui.2	-						ADH5_uc003huk.1_3'UTR|ADH5_uc003huj.2_Intron	NM_000671	NP_000662	P11766	ADHX_HUMAN	class III alcohol dehydrogenase, chi subunit						ethanol oxidation|response to redox state		alcohol dehydrogenase (NAD) activity|electron carrier activity|fatty acid binding|formaldehyde dehydrogenase activity|S-(hydroxymethyl)glutathione dehydrogenase activity|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(123;2.5e-07)	NADH(DB00157)	ttttttgttgttttttttttt	0.119													5	3	---	---	---	---	
CCDC125	202243	broad.mit.edu	37	5	68599933	68599933	+	Intron	DEL	T	-	-	rs35098133		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:68599933delT	uc003jvv.1	-						CCDC125_uc003jvx.1_Intron|CCDC125_uc003jvy.1_Intron|CCDC125_uc003jvw.2_Intron	NM_176816	NP_789786	Q86Z20	CC125_HUMAN	coiled-coil domain containing 125							cytoplasm					0		Lung NSC(167;7.26e-05)|Prostate(74;0.0143)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;2.2e-56)|Epithelial(20;2.31e-52)|all cancers(19;5.85e-48)|Lung(70;0.0183)		GTGGTAAGAAttttttttttt	0.129													4	2	---	---	---	---	
CCDC125	202243	broad.mit.edu	37	5	68630835	68630836	+	5'Flank	INS	-	G	G			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:68630835_68630836insG	uc003jvw.2	-									Q86Z20	CC125_HUMAN	RecName: Full=Coiled-coil domain-containing protein 125; AltName: Full=Protein kenae;							cytoplasm					0		Lung NSC(167;7.26e-05)|Prostate(74;0.0143)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;2.2e-56)|Epithelial(20;2.31e-52)|all cancers(19;5.85e-48)|Lung(70;0.0183)		GTGGCCTCGGCGGCCGGCAGGC	0.619													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	79173109	79173110	+	IGR	DEL	TG	-	-			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:79173109_79173110delTG								CMYA5 (77061 upstream) : MTX3 (99431 downstream)																							tgtgtgtgtatgtgtgtgtgtg	0.089													4	2	---	---	---	---	
LARS	51520	broad.mit.edu	37	5	145518604	145518606	+	Intron	DEL	AAA	-	-	rs112008700		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:145518604_145518606delAAA	uc003lnx.1	-						LARS_uc011dbq.1_Intron|LARS_uc011dbr.1_Intron|LARS_uc011dbs.1_Intron	NM_020117	NP_064502	Q9P2J5	SYLC_HUMAN	leucyl-tRNA synthetase						leucyl-tRNA aminoacylation	cytosol	ATP binding|leucine-tRNA ligase activity|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		L-Leucine(DB00149)	TGGATTTGTGaaaaaaaaaaaaa	0.192													8	4	---	---	---	---	
SLC17A2	10246	broad.mit.edu	37	6	25925739	25925739	+	Intron	DEL	A	-	-			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:25925739delA	uc011dkb.1	-						SLC17A2_uc011dkc.1_Intron|SLC17A2_uc003nfl.2_Intron			O00624	NPT3_HUMAN	SubName: Full=Solute carrier family 17 (Sodium phosphate), member 2, isoform CRA_b; SubName: Full=Putative uncharacterized protein SLC17A2;						phosphate metabolic process	integral to plasma membrane|membrane fraction	sodium:phosphate symporter activity			ovary(1)	1						agactcagtcaaaaaaaaaaa	0.159													4	2	---	---	---	---	
ZFAND3	60685	broad.mit.edu	37	6	37953275	37953276	+	Intron	INS	-	CA	CA	rs141266327	by1000genomes	TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:37953275_37953276insCA	uc003onx.2	+							NM_021943	NP_068762	Q9H8U3	ZFAN3_HUMAN	zinc finger, AN1-type domain 3								DNA binding|zinc ion binding			ovary(1)	1						gcttgtggttccacacacacac	0.000													2	4	---	---	---	---	
NOX3	50508	broad.mit.edu	37	6	155749721	155749721	+	Intron	DEL	T	-	-	rs111606766		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:155749721delT	uc003qqm.2	-							NM_015718	NP_056533	Q9HBY0	NOX3_HUMAN	NADPH oxidase 3								electron carrier activity|flavin adenine dinucleotide binding|iron ion binding			ovary(1)	1		Breast(66;0.0183)		OV - Ovarian serous cystadenocarcinoma(155;2.18e-12)|BRCA - Breast invasive adenocarcinoma(81;0.00815)		TCtttttttcttttttttttt	0.363													4	2	---	---	---	---	
C7orf46	340277	broad.mit.edu	37	7	23730802	23730803	+	Intron	INS	-	T	T			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:23730802_23730803insT	uc003swo.3	+						C7orf46_uc003swq.3_Intron|C7orf46_uc003swr.3_Intron|C7orf46_uc003swp.3_Intron|C7orf46_uc010kup.2_Intron	NM_199136	NP_954587	A4D161	CG046_HUMAN	hypothetical protein LOC340277 isoform 1												0						GTGTTTTGCAGTTTTTTTTTTT	0.431													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	24355530	24355531	+	IGR	INS	-	G	G			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:24355530_24355531insG								NPY (24053 upstream) : MPP6 (257554 downstream)																							aAAAAAAAAAAAaaggaaggaa	0.099													4	2	---	---	---	---	
DPY19L2P1	554236	broad.mit.edu	37	7	35201867	35201868	+	Intron	DEL	TG	-	-			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:35201867_35201868delTG	uc003teq.1	-						DPY19L2P1_uc010kwz.1_5'Flank					RecName: Full=Protein dpy-19 homolog 2-like 2; AltName: Full=Dpy-19-like protein 2 pseudogene 2;												0						TATAACAGTTTGTGTGTGTGTG	0.282													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	56231403	56231403	+	IGR	DEL	A	-	-			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:56231403delA								PSPH (47313 upstream) : DKFZp434L192 (332513 downstream)																							TGCTGCTGCGAAAAAAAAAAA	0.244													4	2	---	---	---	---	
RASA4	10156	broad.mit.edu	37	7	102246649	102246649	+	Intron	DEL	C	-	-			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:102246649delC	uc003vae.2	-						UPK3BL_uc003uzy.2_Intron|RASA4_uc011kla.1_Intron|RASA4_uc010lig.2_Intron|RASA4_uc003vaf.2_Intron|RASA4_uc011klb.1_Intron|RASA4_uc010lih.2_Intron|RASA4_uc011kld.1_Intron	NM_006989	NP_008920	O43374	RASL2_HUMAN	RAS p21 protein activator 4 isoform 1						intracellular signal transduction|negative regulation of Ras protein signal transduction	cytosol|intrinsic to internal side of plasma membrane	metal ion binding|Ras GTPase activator activity				0						aagtcagtgacctggggcctg	0.090													3	3	---	---	---	---	
DGKI	9162	broad.mit.edu	37	7	137237500	137237501	+	Intron	INS	-	A	A			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:137237500_137237501insA	uc003vtt.2	-						DGKI_uc003vtu.2_Intron	NM_004717	NP_004708	O75912	DGKI_HUMAN	diacylglycerol kinase, iota						activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	nucleus|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)|skin(1)	3						actaaaaatacaaaaaaaaaaa	0.000													4	2	---	---	---	---	
GIMAP2	26157	broad.mit.edu	37	7	150384031	150384032	+	Intron	INS	-	AA	AA	rs76731830		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:150384031_150384032insAA	uc003who.2	+						GIMAP1_uc003whp.2_Intron	NM_015660	NP_056475	Q9UG22	GIMA2_HUMAN	GTPase, IMAP family member 2							integral to membrane	GTP binding			skin(1)	1			OV - Ovarian serous cystadenocarcinoma(82;0.0145)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		aactgtgtctcaaaaaaaaaaa	0.084													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	5325342	5325343	+	IGR	INS	-	T	T	rs11368820		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:5325342_5325343insT								CSMD1 (473014 upstream) : MCPH1 (938778 downstream)																							ttctttctttcttttttttttt	0.000													5	5	---	---	---	---	
HR	55806	broad.mit.edu	37	8	21977130	21977130	+	Intron	DEL	A	-	-			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:21977130delA	uc003xas.2	-						HR_uc003xat.2_Intron	NM_005144	NP_005135	O43593	HAIR_HUMAN	hairless protein isoform a								DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)|ovary(1)	2		Breast(100;0.000162)|Acute lymphoblastic leukemia(644;0.0775)|Prostate(55;0.116)		KIRC - Kidney renal clear cell carcinoma(542;1.19e-05)|BRCA - Breast invasive adenocarcinoma(99;3.56e-05)|Colorectal(74;0.00191)|COAD - Colon adenocarcinoma(73;0.0615)|READ - Rectum adenocarcinoma(644;0.1)		caacaacaacaaaaaaaaaaa	0.234													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	30778987	30778987	+	IGR	DEL	A	-	-	rs146807720		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:30778987delA								TEX15 (32765 upstream) : PURG (74334 downstream)																							TGATTTCTACAAAAAAAAAAA	0.159													5	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	99419943	99419950	+	IGR	DEL	TGTGTGTG	-	-	rs71974075		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:99419943_99419950delTGTGTGTG								NIPAL2 (113322 upstream) : KCNS2 (19300 downstream)																							GATGAgtgcatgtgtgtgtgtgtgtgtg	0.409													3	4	---	---	---	---	
FREM1	158326	broad.mit.edu	37	9	14803313	14803314	+	Intron	INS	-	TCCCCTCCCC	TCCCCTCCCC	rs141611687	by1000genomes	TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:14803313_14803314insTCCCCTCCCC	uc003zlm.2	-						FREM1_uc010mic.2_Intron	NM_144966	NP_659403	Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1 precursor						cell communication|multicellular organismal development	basement membrane|integral to membrane	metal ion binding|sugar binding			ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(50;3.53e-06)		tctttttcttttcccctcccct	0.020													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	15017688	15017689	+	Intron	INS	-	T	T	rs150778914	by1000genomes	TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:15017688_15017689insT	uc003zln.1	-						LOC389705_uc010mid.1_Intron					Homo sapiens cDNA FLJ46077 fis, clone TESTI2003768, weakly  similar to Chloride channel protein 3.																		TTTTGAAGTGATTTTTTTTAAA	0.332													4	3	---	---	---	---	
HAUS6	54801	broad.mit.edu	37	9	19086619	19086619	+	Intron	DEL	A	-	-	rs77592990		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:19086619delA	uc003znk.2	-						HAUS6_uc003znl.1_Intron	NM_017645	NP_060115	Q7Z4H7	HAUS6_HUMAN	HAUS augmin-like complex, subunit 6						cell division|centrosome organization|mitosis|spindle assembly	centrosome|HAUS complex|microtubule|nucleus|spindle				ovary(2)	2						ctccaactccaaaaaaaaaaa	0.124													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	45362789	45362791	+	IGR	DEL	TTC	-	-			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:45362789_45362791delTTC								FAM27C (371298 upstream) : FAM27A (364238 downstream)																							CTTCAGCCTGTTCTTCTTCAGTC	0.468													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	124204991	124204994	+	IGR	DEL	GTGT	-	-	rs113939347		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:124204991_124204994delGTGT								STOM (72446 upstream) : GGTA1 (2275 downstream)																							GATGGTTAAAgtgtgtgtgtgtgt	0.196													4	2	---	---	---	---	
GOLGA1	2800	broad.mit.edu	37	9	127670455	127670455	+	Intron	DEL	G	-	-			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:127670455delG	uc004bpc.2	-						GOLGA1_uc010mws.2_Intron	NM_002077	NP_002068	Q92805	GOGA1_HUMAN	golgin 97							Golgi cisterna membrane				ovary(1)	1						ggggataaaagggtataaata	0.144													3	3	---	---	---	---	
MIR606	693191	broad.mit.edu	37	10	77312184	77312184	+	5'Flank	DEL	C	-	-	rs1367290		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:77312184delC	hsa-mir-606|MI0003619	+																							0						ttttttttttcccccccctct	0.000													6	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	122114156	122114156	+	IGR	DEL	T	-	-	rs146890294		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:122114156delT								SEC23IP (412911 upstream) : PPAPDC1A (102310 downstream)																							AAGTTCATTCTTTTTTTTTTT	0.303													10	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	27505351	27505352	+	IGR	INS	-	AAAA	AAAA	rs11030023	by1000genomes	TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:27505351_27505352insAAAA								LGR4 (11017 upstream) : LIN7C (10619 downstream)																							aacaaacaaacaaaaaaacaCA	0.218													5	4	---	---	---	---	
TMEM136	219902	broad.mit.edu	37	11	120199790	120199791	+	Intron	DEL	TG	-	-			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:120199790_120199791delTG	uc001pxh.1	+						TMEM136_uc001pxg.2_Intron|TMEM136_uc010rzm.1_Intron|TMEM136_uc001pxj.2_Intron|TMEM136_uc009zas.1_Intron|TMEM136_uc001pxi.1_Intron	NM_174926	NP_777586	Q6ZRR5	TM136_HUMAN	transmembrane protein 136							integral to membrane				ovary(1)	1		Breast(109;0.00663)|Medulloblastoma(222;0.0523)|Hepatocellular(160;0.206)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;5.07e-06)		acagtcatattgtgtgtgtgtg	0.045													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	129902697	129902698	+	IGR	INS	-	T	T	rs71481901	byFrequency	TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:129902697_129902698insT								NCRNA00167 (27316 upstream) : APLP2 (37018 downstream)																							TTTTTCCATGGTTTTTTTTTTT	0.376													4	2	---	---	---	---	
KRT1	3848	broad.mit.edu	37	12	53069236	53069256	+	In_Frame_Del	DEL	TAGCTGCTACCTCCGGAGCCA	-	-	rs66529359		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:53069236_53069256delTAGCTGCTACCTCCGGAGCCA	uc001sau.1	-	9	1715_1735	c.1656_1676delTGGCTCCGGAGGTAGCAGCTA	c.(1654-1677)TATGGCTCCGGAGGTAGCAGCTAC>TAC	p.552_559YGSGGSSY>Y	KRT1_uc001sav.1_Splice_Site_p.G556_splice	NM_006121	NP_006112	P04264	K2C1_HUMAN	keratin 1	552_559	Gly/Ser-rich.|Tail.				complement activation, lectin pathway|epidermis development|fibrinolysis|regulation of angiogenesis|response to oxidative stress	plasma membrane	protein binding|receptor activity|structural constituent of cytoskeleton|sugar binding			ovary(1)|skin(1)	2						tccggagccgtagctgctacctccggagccatagctgccac	0.000													4	6	---	---	---	---	
MYL2	4633	broad.mit.edu	37	12	111358113	111358113	+	Intron	DEL	T	-	-	rs3216816		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:111358113delT	uc001try.3	-						MYL2_uc001trx.3_5'Flank	NM_000432	NP_000423	P10916	MLRV_HUMAN	slow cardiac myosin regulatory light chain 2						cardiac myofibril assembly|heart contraction|muscle filament sliding|negative regulation of cell growth|regulation of striated muscle contraction|ventricular cardiac muscle tissue morphogenesis	cytosol|myosin complex|sarcomere	actin monomer binding|calcium ion binding|myosin heavy chain binding|structural constituent of muscle			ovary(1)	1						AACTCTCTTATTTTGTGTTTG	0.463													7	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	21764478	21764479	+	IGR	DEL	CA	-	-			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:21764478_21764479delCA								MRP63 (11260 upstream) : ZDHHC20 (186031 downstream)																							accttattaccacacacacaca	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	23265335	23265336	+	IGR	INS	-	G	G			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:23265335_23265336insG								GOLGA9P (2592 upstream) : HERC2P2 (16929 downstream)																							AGGCAGGAAGAGGGGGCTCCCA	0.639													8	4	---	---	---	---	
SLC12A6	9990	broad.mit.edu	37	15	34546967	34546967	+	Intron	DEL	T	-	-	rs72135323		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:34546967delT	uc001zhw.2	-						SLC12A6_uc001zhv.2_Intron|SLC12A6_uc001zhx.2_Intron|SLC12A6_uc001zhy.2_Intron|SLC12A6_uc001zhz.2_Intron|SLC12A6_uc001zia.2_Intron|SLC12A6_uc001zib.2_Intron|SLC12A6_uc001zic.2_Intron|SLC12A6_uc010bau.2_Intron|SLC12A6_uc001zid.2_Intron|SLC12A6_uc001zhu.2_Intron	NM_133647	NP_598408	Q9UHW9	S12A6_HUMAN	solute carrier family 12, member 6 isoform a						angiogenesis|cellular hypotonic salinity response|potassium ion transport|sodium ion transport	basolateral plasma membrane|integral to membrane	potassium:chloride symporter activity			central_nervous_system(5)|ovary(1)|skin(1)	7		all_lung(180;2.78e-08)		all cancers(64;3.43e-17)|GBM - Glioblastoma multiforme(113;2.6e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0301)	Potassium Chloride(DB00761)	ATGTCATGGATTTTTTTTTTT	0.318													4	2	---	---	---	---	
DUOX1	53905	broad.mit.edu	37	15	45447768	45447769	+	Intron	DEL	AA	-	-			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:45447768_45447769delAA	uc001zus.1	+						DUOX1_uc001zut.1_Intron|DUOX1_uc010bee.1_Intron	NM_017434	NP_059130	Q9NRD9	DUOX1_HUMAN	dual oxidase 1 precursor						cuticle development|cytokine-mediated signaling pathway|hormone biosynthetic process|hydrogen peroxide biosynthetic process|hydrogen peroxide catabolic process|response to cAMP|superoxide anion generation	apical plasma membrane|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|NADP binding|peroxidase activity			ovary(5)|skin(2)|breast(1)	8		all_cancers(109;5.7e-11)|all_epithelial(112;4.65e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;5.77e-18)|GBM - Glioblastoma multiforme(94;5.11e-07)|COAD - Colon adenocarcinoma(120;0.071)|Colorectal(133;0.0717)		actccatctcaaaaaaaaaaaa	0.000													4	2	---	---	---	---	
SLC28A2	9153	broad.mit.edu	37	15	45561372	45561372	+	Intron	DEL	A	-	-			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:45561372delA	uc001zva.2	+							NM_004212	NP_004203	O43868	S28A2_HUMAN	solute carrier family 28 (sodium-coupled						nucleobase, nucleoside and nucleotide metabolic process	integral to plasma membrane|membrane fraction	nucleoside binding|nucleoside:sodium symporter activity|purine nucleoside transmembrane transporter activity			ovary(4)	4		all_cancers(109;8.53e-07)|all_epithelial(112;1.39e-05)|Lung NSC(122;8.3e-05)|all_lung(180;0.000547)|Melanoma(134;0.0417)		all cancers(107;3.77e-16)|GBM - Glioblastoma multiforme(94;2.71e-06)		taataataataaaaaaaAAAC	0.234													6	3	---	---	---	---	
NPTN	27020	broad.mit.edu	37	15	73889752	73889753	+	Intron	INS	-	A	A	rs75691546		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:73889752_73889753insA	uc002avs.2	-						NPTN_uc010bjc.2_Intron|NPTN_uc002avt.2_Intron|NPTN_uc002avr.2_Intron|NPTN_uc010ula.1_Intron	NM_012428	NP_036560	Q9Y639	NPTN_HUMAN	neuroplastin isoform b precursor						elevation of cytosolic calcium ion concentration|homophilic cell adhesion|long-term synaptic potentiation|positive regulation of fibroblast growth factor receptor signaling pathway|positive regulation of long-term neuronal synaptic plasticity|positive regulation of neuron projection development|positive regulation of protein phosphorylation	integral to membrane|plasma membrane|presynaptic membrane	cell adhesion molecule binding|type 1 fibroblast growth factor receptor binding				0						AGGCCAATCAGAAAAAAAAAAA	0.396													13	7	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	55014689	55014692	+	IGR	DEL	GTGT	-	-	rs71775218		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:55014689_55014692delGTGT								IRX5 (46296 upstream) : IRX6 (343779 downstream)																							TTTTGTTTTGgtgtgtgtgtgtgt	0.216													3	3	---	---	---	---	
BBS2	583	broad.mit.edu	37	16	56543747	56543748	+	Intron	INS	-	A	A			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:56543747_56543748insA	uc002ejd.2	-						BBS2_uc010ccg.2_Intron	NM_031885	NP_114091	Q9BXC9	BBS2_HUMAN	Bardet-Biedl syndrome 2 protein						adult behavior|brain morphogenesis|cerebral cortex development|cilium morphogenesis|fat cell differentiation|hippocampus development|melanosome transport|negative regulation of multicellular organism growth|photoreceptor cell maintenance|protein localization to organelle|regulation of cilium beat frequency involved in ciliary motility|sperm axoneme assembly|striatum development	BBSome|cilium membrane|microtubule basal body|motile cilium	protein binding			ovary(1)	1						ACCCCCTCCCCAAGCTTTTATC	0.371									Bardet-Biedl_syndrome				23	17	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	60938957	60938958	+	IGR	INS	-	CACACA	CACACA	rs149592904	by1000genomes	TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:60938957_60938958insCACACA								MARCH10 (53252 upstream) : MIR633 (82618 downstream)																							Gcacgcacgtgcacacacacac	0.342													3	4	---	---	---	---	
CYTH1	9267	broad.mit.edu	37	17	76696613	76696614	+	Intron	INS	-	T	T			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:76696613_76696614insT	uc002jvw.2	-						CYTH1_uc010wtw.1_Intron|CYTH1_uc010wtx.1_Intron	NM_017456	NP_059430	Q15438	CYH1_HUMAN	cytohesin 1 isoform 2						regulation of ARF protein signal transduction|regulation of cell adhesion|vesicle-mediated transport	cytoplasm|plasma membrane	ARF guanyl-nucleotide exchange factor activity|protein binding			ovary(1)	1						ttttttttttcttttttttttt	0.193													4	2	---	---	---	---	
RGL3	57139	broad.mit.edu	37	19	11495431	11495434	+	Intron	DEL	TCCC	-	-	rs71164195		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:11495431_11495434delTCCC	uc002mrn.2	-						EPOR_uc002mri.2_5'Flank|EPOR_uc002mrk.1_5'Flank|EPOR_uc002mrl.1_5'Flank|EPOR_uc002mrj.1_5'Flank|EPOR_uc010xlx.1_5'Flank|EPOR_uc010xly.1_5'Flank|RGL3_uc002mrm.2_Intron			Q3MIN7	RGL3_HUMAN	SubName: Full=FLJ00153 protein; Flags: Fragment;						regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular				ovary(1)	1						cttccttccttccctccttccctc	0.000													6	3	---	---	---	---	
ZNF382	84911	broad.mit.edu	37	19	37101356	37101356	+	Intron	DEL	A	-	-	rs77109814		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:37101356delA	uc002oek.2	+						ZNF382_uc010efa.2_Intron|ZNF382_uc010efb.2_Intron|ZNF382_uc002oel.2_Intron	NM_032825	NP_116214	Q96SR6	ZN382_HUMAN	zinc finger protein 382						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.198)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			agactgtctcaaaaaaaaaaa	0.080													4	2	---	---	---	---	
CGB	1082	broad.mit.edu	37	19	49532321	49532322	+	Intron	INS	-	T	T			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:49532321_49532322insT	uc010yad.1	-						CGB2_uc002plw.2_5'Flank|CGB2_uc010yaf.1_5'Flank	NM_033183	NP_149439	P01233	CGHB_HUMAN	chorionic gonadotropin, beta polypeptide 8						apoptosis|cell-cell signaling|cellular nitrogen compound metabolic process|female gamete generation|hormone biosynthetic process|peptide hormone processing|signal transduction	extracellular region|soluble fraction	hormone activity				0		all_epithelial(76;9.62e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		all cancers(93;0.000371)|OV - Ovarian serous cystadenocarcinoma(262;0.000503)|GBM - Glioblastoma multiforme(486;0.00518)|Epithelial(262;0.0427)	Choriogonadotropin alfa(DB00097)	ttctttctttcttttttttttt	0.248													4	3	---	---	---	---	
MYH14	79784	broad.mit.edu	37	19	50794392	50794399	+	Intron	DEL	CCCCTCGC	-	-			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:50794392_50794399delCCCCTCGC	uc002prr.1	+						MYH14_uc010enu.1_Intron|MYH14_uc002prq.1_Intron|MYH14_uc010ycb.1_Intron|MYH14_uc002prs.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)		CTAGCTCGGACCCCTCGCTCTCAACCCA	0.538													11	6	---	---	---	---	
BACH1	571	broad.mit.edu	37	21	30693966	30693967	+	Intron	INS	-	T	T			TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:30693966_30693967insT	uc002ynj.2	+						BACH1_uc002ynk.2_Intron|BACH1_uc002ynl.2_Intron	NM_001186	NP_001177	O14867	BACH1_HUMAN	BTB and CNC homology 1 transcription factor							nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|liver(1)	2						TGTGCAACCCCttttttttttt	0.297													4	2	---	---	---	---	
KRTAP10-9	386676	broad.mit.edu	37	21	46048132	46048132	+	3'UTR	DEL	C	-	-	rs67739305		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:46048132delC	uc002zfp.3	+	1					C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198690	NP_941963	P60411	KR109_HUMAN	keratin associated protein 10-9							keratin filament					0						TCCCTGACCTCCCCCCCGGGC	0.697													3	3	---	---	---	---	
GYG2	8908	broad.mit.edu	37	X	2774829	2774830	+	Intron	INS	-	T	T	rs55951939		TCGA-AK-3455-01A-01D-0966-08	TCGA-AK-3455-10A-01D-0966-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:2774829_2774830insT	uc004cqs.1	+						GYG2_uc004cqt.1_Intron|GYG2_uc004cqu.1_Intron|GYG2_uc004cqv.1_Intron|GYG2_uc004cqw.1_Intron|GYG2_uc004cqx.1_Intron|GYG2_uc010ndc.1_Intron	NM_003918	NP_003909	O15488	GLYG2_HUMAN	glycogenin 2 isoform b						glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol|soluble fraction	glycogenin glucosyltransferase activity			ovary(1)|kidney(1)	2		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				atctatctatcatctatctatc	0.173													3	5	---	---	---	---	
