Hugo_Symbol	Entrez_Gene_Id	Center	NCBI_Build	Chromosome	Start_position	End_position	Strand	Variant_Classification	Variant_Type	Reference_Allele	Tumor_Seq_Allele1	Tumor_Seq_Allele2	dbSNP_RS	dbSNP_Val_Status	Tumor_Sample_Barcode	Matched_Norm_Sample_Barcode	Match_Norm_Seq_Allele1	Match_Norm_Seq_Allele2	Tumor_Validation_Allele1	Tumor_Validation_Allele2	Match_Norm_Validation_Allele1	Match_Norm_Validation_Allele2	Verification_Status	Validation_Status	Mutation_Status	Sequencing_Phase	Sequence_Source	Validation_Method	Score	BAM_file	Sequencer	Tumor_Sample_UUID	Matched_Norm_Sample_UUID	Genome_Change	Annotation_Transcript	Transcript_Strand	Transcript_Exon	Transcript_Position	cDNA_Change	Codon_Change	Protein_Change	Other_Transcripts	Refseq_mRNA_Id	Refseq_prot_Id	SwissProt_acc_Id	SwissProt_entry_Id	Description	UniProt_AApos	UniProt_Region	UniProt_Site	UniProt_Natural_Variations	UniProt_Experimental_Info	GO_Biological_Process	GO_Cellular_Component	GO_Molecular_Function	COSMIC_overlapping_mutations	COSMIC_fusion_genes	COSMIC_tissue_types_affected	COSMIC_total_alterations_in_gene	Tumorscape_Amplification_Peaks	Tumorscape_Deletion_Peaks	TCGAscape_Amplification_Peaks	TCGAscape_Deletion_Peaks	DrugBank	ref_context	gc_content	CCLE_ONCOMAP_overlapping_mutations	CCLE_ONCOMAP_total_mutations_in_gene	CGC_Mutation_Type	CGC_Translocation_Partner	CGC_Tumor_Types_Somatic	CGC_Tumor_Types_Germline	CGC_Other_Diseases	DNARepairGenes_Role	FamilialCancerDatabase_Syndromes	MUTSIG_Published_Results	OREGANNO_ID	OREGANNO_Values	t_alt_count	t_ref_count	validation_status	validation_method	validation_tumor_sample	validation_alt_allele	pox	qox	isArtifactMode	oxoGCut
CROCCL1	84809	broad.mit.edu	37	1	16946407	16946407	+	RNA	SNP	T	G	G	rs10796418	by1000genomes	TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr1:16946407T>G	uc010ocf.1	-	3		c.491A>C			CROCCL1_uc009vov.1_RNA|CROCCL1_uc001aze.2_RNA|CROCCL1_uc001azf.2_RNA					Homo sapiens mRNA for FLJ00313 protein.												0						AGCAATCTCCTCACTCAGCTG	0.672													8	34					0	0	0	0
TIE1	7075	broad.mit.edu	37	1	43777409	43777409	+	Silent	SNP	G	A	A			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr1:43777409G>A	uc001ciu.2	+	10	1480	c.1401G>A	c.(1399-1401)CCG>CCA	p.P467P	TIE1_uc010okd.1_Silent_p.P467P|TIE1_uc010oke.1_Silent_p.P422P|TIE1_uc009vwq.2_Silent_p.P423P|TIE1_uc010okf.1_Silent_p.P112P|TIE1_uc010okg.1_Silent_p.P112P	NM_005424	NP_005415	P35590	TIE1_HUMAN	tyrosine kinase with immunoglobulin-like and	467	Extracellular (Potential).|Fibronectin type-III 1.				mesoderm development	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|stomach(1)|salivary_gland(1)|ovary(1)|skin(1)	7	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				TGGTCTCCCCGCTGGTCTCGT	0.647													23	60					0	0	0	0
MPL	4352	broad.mit.edu	37	1	43804269	43804269	+	Missense_Mutation	SNP	G	A	A			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr1:43804269G>A	uc001ciw.2	+	3	314	c.269G>A	c.(268-270)CGA>CAA	p.R90Q	MPL_uc001civ.2_Missense_Mutation_p.R90Q|MPL_uc009vwr.2_Missense_Mutation_p.R83Q	NM_005373	NP_005364	P40238	TPOR_HUMAN	myeloproliferative leukemia virus oncogene	90	Extracellular (Potential).				cell proliferation|platelet activation	integral to plasma membrane	cytokine receptor activity			haematopoietic_and_lymphoid_tissue(361)|upper_aerodigestive_tract(1)|pancreas(1)	363	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				TTTGGAACCCGATACGTGTGC	0.572			Mis		MPD	MPD	congenital amegakaryocytic thrombocytopenia						23	84					0	0	0	0
NBPF14	25832	broad.mit.edu	37	1	148012531	148012531	+	Silent	SNP	C	T	T			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr1:148012531C>T	uc001eqq.2	-	12	1445	c.1428G>A	c.(1426-1428)AAG>AAA	p.K476K	LOC200030_uc001eqe.2_Intron|LOC200030_uc001eqf.2_Intron|LOC200030_uc001eqg.2_Intron|FLJ39739_uc001eqo.1_Intron|NBPF14_uc010pab.1_Intron|NBPF14_uc010pac.1_Intron|NBPF14_uc001eqx.2_Silent_p.K387K|NBPF14_uc010pae.1_Silent_p.K143K|NBPF14_uc010paf.1_Silent_p.K631K|NBPF14_uc010pad.1_5'Flank|NBPF14_uc001eqs.1_Intron	NM_015383	NP_056198	Q5TI25	NBPFE_HUMAN	hypothetical protein LOC25832	476	NBPF 5.					cytoplasm				ovary(1)	1	all_hematologic(923;0.032)					AGCCAACATGCTTTTCCTCCA	0.443													3	14					0	0	0	0
PAQR6	79957	broad.mit.edu	37	1	156214599	156214599	+	Missense_Mutation	SNP	G	T	T			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr1:156214599G>T	uc001fnu.1	-	7	783	c.713C>A	c.(712-714)GCC>GAC	p.A238D	PAQR6_uc010phf.1_Intron|PAQR6_uc001fny.1_Missense_Mutation_p.P16T|PAQR6_uc001fnv.1_Missense_Mutation_p.A214D|PAQR6_uc010phg.1_Missense_Mutation_p.A235D|PAQR6_uc001fnx.1_Missense_Mutation_p.A132D|PAQR6_uc001fnw.1_Missense_Mutation_p.A132D|PAQR6_uc001fnz.1_Missense_Mutation_p.A132D|PAQR6_uc010phh.1_Missense_Mutation_p.A238D|PAQR6_uc001foa.1_Missense_Mutation_p.A132D|PAQR6_uc001fob.1_RNA	NM_198406	NP_940798	Q6TCH4	PAQR6_HUMAN	progestin and adipoQ receptor family member VI	238	Helical; (Potential).					integral to membrane	receptor activity				0	Hepatocellular(266;0.158)					CAGGTGGGAGGCGAAGAGGAA	0.672													15	42					0.00400662	0.00414168	1	0
OR2M3	127062	broad.mit.edu	37	1	248366532	248366532	+	Missense_Mutation	SNP	C	A	A			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr1:248366532C>A	uc010pzg.1	+	1	163	c.163C>A	c.(163-165)CTC>ATC	p.L55I		NM_001004689	NP_001004689	Q8NG83	OR2M3_HUMAN	olfactory receptor, family 2, subfamily M,	55	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			GGACACCCAGCTCCACACCCC	0.557													114	271					1.54771e-57	1.82551e-57	1	0
PTCHD3	374308	broad.mit.edu	37	10	27702649	27702649	+	Silent	SNP	C	T	T			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr10:27702649C>T	uc001itu.2	-	1	649	c.531G>A	c.(529-531)CCG>CCA	p.P177P		NM_001034842	NP_001030014	Q3KNS1	PTHD3_HUMAN	patched domain containing 3	177					spermatid development	integral to membrane	hedgehog receptor activity			ovary(2)|pancreas(1)|skin(1)	4						CCGCCTTGGCCGGGCTCCCCA	0.637													44	150					0	0	0	0
KNDC1	85442	broad.mit.edu	37	10	135003312	135003312	+	Missense_Mutation	SNP	G	A	A			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr10:135003312G>A	uc001llz.1	+	9	1571	c.1570G>A	c.(1570-1572)GAA>AAA	p.E524K	KNDC1_uc001lma.1_Missense_Mutation_p.E459K	NM_152643	NP_689856	Q76NI1	VKIND_HUMAN	kinase non-catalytic C-lobe domain (KIND)	524	KIND 2.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction					upper_aerodigestive_tract(1)|ovary(1)	2		all_cancers(35;4.16e-10)|all_epithelial(44;2.07e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00145)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.173)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;8.77e-06)|Epithelial(32;1.13e-05)|all cancers(32;1.51e-05)		GCTGGTAACTGAAAAGGTACC	0.493													5	25					0	0	0	0
OR51G1	79324	broad.mit.edu	37	11	4944867	4944867	+	Nonsense_Mutation	SNP	C	A	A			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr11:4944867C>A	uc010qyr.1	-	1	703	c.703G>T	c.(703-705)GAG>TAG	p.E235*		NM_001005237	NP_001005237	Q8NGK1	O51G1_HUMAN	olfactory receptor, family 51, subfamily G,	235	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;2.58e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0284)|LUSC - Lung squamous cell carcinoma(625;0.19)		CGGAGTCGCTCCTGGTGGGAG	0.552													26	68					3.69857e-22	4.25335e-22	1	0
BTBD10	84280	broad.mit.edu	37	11	13410506	13410506	+	Missense_Mutation	SNP	C	A	A			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr11:13410506C>A	uc001mkz.2	-	9	1557	c.1300G>T	c.(1300-1302)GAC>TAC	p.D434Y	BTBD10_uc010rcl.1_Missense_Mutation_p.D442Y|BTBD10_uc001mla.2_Missense_Mutation_p.D418Y|BTBD10_uc009ygn.2_RNA|BTBD10_uc010rcm.1_Missense_Mutation_p.D386Y	NM_032320	NP_115696	Q9BSF8	BTBDA_HUMAN	K+ channel tetramerization protein	434						nucleus					0				Epithelial(150;0.0214)		TGGGGAATGTCTGCTGCAGCT	0.488													48	77					2.6635e-43	3.1018e-43	1	0
MS4A15	219995	broad.mit.edu	37	11	60531293	60531293	+	Silent	SNP	G	T	T			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr11:60531293G>T	uc009ynf.1	+	2	307	c.87G>T	c.(85-87)CTG>CTT	p.L29L	MS4A15_uc001npx.2_Intron|MS4A15_uc001npy.2_RNA|MS4A15_uc009yng.1_Silent_p.L29L	NM_001098835	NP_001092305	Q8N5U1	M4A15_HUMAN	membrane-spanning 4-domains, subfamily A, member	29						integral to membrane	receptor activity			lung(1)	1						CGGCCATTCTGCCCACATCCA	0.617													37	88					1.00953e-15	1.14663e-15	1	0
MALAT1	378938	broad.mit.edu	37	11	65267841	65267841	+	RNA	SNP	G	A	A			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr11:65267841G>A	uc010roh.1	+	1		c.2609G>A			uc001ody.2_RNA|MALAT1_uc001odz.2_5'Flank	NR_002819				Homo sapiens clone alpha1 mRNA sequence.												0						TAAATCCTGAGGACTAGCATT	0.388													4	52					0	0	0	0
SCYL1	57410	broad.mit.edu	37	11	65303482	65303482	+	Missense_Mutation	SNP	C	A	A			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr11:65303482C>A	uc001oea.1	+	11	1522	c.1445C>A	c.(1444-1446)CCG>CAG	p.P482Q	SCYL1_uc009yqk.2_Missense_Mutation_p.P482Q|SCYL1_uc001oeb.1_Missense_Mutation_p.P482Q|SCYL1_uc001oec.1_Missense_Mutation_p.P482Q|SCYL1_uc001oed.1_Missense_Mutation_p.P339Q|SCYL1_uc001oee.1_Missense_Mutation_p.P126Q	NM_020680	NP_065731	Q96KG9	NTKL_HUMAN	SCY1-like 1 isoform A	482					regulation of transcription, DNA-dependent|retrograde vesicle-mediated transport, Golgi to ER|transcription, DNA-dependent	cis-Golgi network|COPI vesicle coat|ER-Golgi intermediate compartment|microtubule organizing center|nucleus	ATP binding|DNA binding|protein tyrosine kinase activity			skin(1)	1						CCGTTTGCACCGTCCCGGGTT	0.597													18	63					4.72057e-08	5.04991e-08	1	0
RCE1	9986	broad.mit.edu	37	11	66612399	66612399	+	Missense_Mutation	SNP	G	A	A			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr11:66612399G>A	uc001ojk.1	+	5	555	c.511G>A	c.(511-513)GCC>ACC	p.A171T	RCE1_uc001ojl.1_Missense_Mutation_p.A67T	NM_005133	NP_005124	Q9Y256	FACE2_HUMAN	prenyl protein peptidase RCE1 isoform 1	171					proteolysis	endoplasmic reticulum membrane|integral to plasma membrane	metalloendopeptidase activity			ovary(1)|breast(1)	2						CCAAGTGATCGCCCCGCTGAC	0.632													15	28					0	0	0	0
SYTL2	54843	broad.mit.edu	37	11	85420460	85420460	+	Silent	SNP	A	G	G			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr11:85420460A>G	uc010rth.1	-	12	2190	c.1914T>C	c.(1912-1914)TAT>TAC	p.Y638Y	SYTL2_uc010rtg.1_Silent_p.Y639Y|SYTL2_uc010rti.1_Silent_p.Y614Y|SYTL2_uc010rtj.1_Silent_p.Y606Y|SYTL2_uc001pav.2_Silent_p.Y80Y|SYTL2_uc010rte.1_Silent_p.Y40Y|SYTL2_uc001pax.2_Silent_p.Y80Y|SYTL2_uc001paz.2_5'UTR|SYTL2_uc001pba.2_Silent_p.Y23Y|SYTL2_uc001pay.2_Silent_p.Y69Y|SYTL2_uc001paw.2_Silent_p.Y40Y|SYTL2_uc009yvj.2_RNA|SYTL2_uc001pbd.2_Silent_p.Y936Y|SYTL2_uc001pbb.2_Silent_p.Y976Y|SYTL2_uc001pbc.2_Silent_p.Y960Y|SYTL2_uc010rtf.1_Silent_p.Y456Y	NM_001162951	NP_001156423	Q9HCH5	SYTL2_HUMAN	synaptotagmin-like 2 isoform g	638	C2 1.				intracellular protein transport|vesicle docking involved in exocytosis	exocytic vesicle|extrinsic to plasma membrane|melanosome|membrane fraction	neurexin binding|phosphatidylinositol-4,5-bisphosphate binding|phosphatidylserine binding|Rab GTPase binding			ovary(2)|large_intestine(1)	3		Acute lymphoblastic leukemia(157;4.19e-06)|all_hematologic(158;0.0033)		KIRC - Kidney renal clear cell carcinoma(183;0.202)|Kidney(183;0.237)		GTGACTCCACATATTCAATTG	0.408													6	121					0	0	0	0
UBE4A	9354	broad.mit.edu	37	11	118263536	118263536	+	Silent	SNP	G	A	A			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr11:118263536G>A	uc001psw.2	+	19	3129	c.3000G>A	c.(2998-3000)CTG>CTA	p.L1000L	UBE4A_uc001psv.2_Silent_p.L1007L	NM_004788	NP_004779	Q14139	UBE4A_HUMAN	ubiquitination factor E4A	1000	U-box.				ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	protein binding			ovary(2)|upper_aerodigestive_tract(1)|breast(1)|kidney(1)	5	all_hematologic(175;0.046)	Medulloblastoma(222;0.0425)|Breast(348;0.181)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.28e-05)		TGAGCACACTGATGTGTGACC	0.483													56	86					0	0	0	0
MLF2	8079	broad.mit.edu	37	12	6859160	6859160	+	Missense_Mutation	SNP	C	T	T			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr12:6859160C>T	uc010sfi.1	-	7	476	c.413G>A	c.(412-414)CGG>CAG	p.R138Q	MLF2_uc001qqp.2_Missense_Mutation_p.R138Q|MLF2_uc009zey.1_Missense_Mutation_p.R138Q	NM_005439	NP_005430	Q15773	MLF2_HUMAN	myeloid leukemia factor 2	138					defense response	cytoplasm|nucleus	protein binding			large_intestine(1)	1						AACAGTCCTCCGTGTCTCCCG	0.582													15	64					0	0	0	0
LRP6	4040	broad.mit.edu	37	12	12334328	12334328	+	Missense_Mutation	SNP	C	T	T			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr12:12334328C>T	uc001rah.3	-	6	1164	c.1022G>A	c.(1021-1023)CGC>CAC	p.R341H	BCL2L14_uc001raf.1_Intron|LRP6_uc010shl.1_Missense_Mutation_p.R341H	NM_002336	NP_002327	O75581	LRP6_HUMAN	low density lipoprotein receptor-related protein	341	Extracellular (Potential).|Beta-propeller 2.				cellular response to cholesterol|negative regulation of protein phosphorylation|negative regulation of protein serine/threonine kinase activity|negative regulation of smooth muscle cell apoptosis|neural crest formation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell cycle|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway involved in dorsal/ventral axis specification|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	cell surface|cytoplasmic vesicle|endoplasmic reticulum|integral to membrane|plasma membrane	coreceptor activity|frizzled binding|kinase inhibitor activity|low-density lipoprotein receptor activity|protein homodimerization activity|toxin transporter activity|Wnt-protein binding	p.R341H(1)		lung(4)|skin(4)|ovary(2)|kidney(1)|central_nervous_system(1)	12		Prostate(47;0.0865)				CAAAGAAATGCGTCTCAAGTC	0.403													34	81					0	0	0	0
PTPRO	5800	broad.mit.edu	37	12	15699542	15699542	+	Missense_Mutation	SNP	C	A	A			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr12:15699542C>A	uc001rcv.1	+	13	2378	c.2204C>A	c.(2203-2205)ACC>AAC	p.T735N	PTPRO_uc001rcw.1_Missense_Mutation_p.T735N|PTPRO_uc001rcx.1_5'UTR|PTPRO_uc001rcy.1_5'UTR|PTPRO_uc001rcz.1_5'UTR|PTPRO_uc001rda.1_5'UTR	NM_030667	NP_109592	Q16827	PTPRO_HUMAN	receptor-type protein tyrosine phosphatase O	735	Fibronectin type-III 8.|Extracellular (Potential).					integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)	9		Hepatocellular(102;0.244)				GTGAACAAAACCCAGACTTCA	0.388													5	21					0.000602214	0.000636824	1	0
KRT83	3889	broad.mit.edu	37	12	52710276	52710276	+	Silent	SNP	G	A	A	rs143467763	byFrequency	TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr12:52710276G>A	uc001saf.2	-	6	1080	c.1017C>T	c.(1015-1017)GCC>GCT	p.A339A		NM_002282	NP_002273	P78385	KRT83_HUMAN	keratin 83	339	Rod.|Coil 2.				epidermis development	keratin filament	structural molecule activity			skin(1)	1	Myeloproliferative disorder(4;0.0484)|all_hematologic(5;0.088)			BRCA - Breast invasive adenocarcinoma(357;0.189)		TCTCCACCTCGGCTGTCAGCC	0.597													33	50					0	0	0	0
ZCCHC8	55596	broad.mit.edu	37	12	122975114	122975114	+	Silent	SNP	C	T	T			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr12:122975114C>T	uc001ucn.2	-	4	449	c.318G>A	c.(316-318)AAG>AAA	p.K106K	ZCCHC8_uc009zxp.2_5'UTR|ZCCHC8_uc009zxq.2_5'UTR	NM_017612	NP_060082	Q6NZY4	ZCHC8_HUMAN	zinc finger, CCHC domain containing 8	106						catalytic step 2 spliceosome	nucleic acid binding|protein binding|zinc ion binding				0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;5.25e-05)|Epithelial(86;0.000113)|BRCA - Breast invasive adenocarcinoma(302;0.202)		GATGATATTGCCTGTGTAAGA	0.328													5	10					0	0	0	0
FREM2	341640	broad.mit.edu	37	13	39265211	39265211	+	Missense_Mutation	SNP	A	T	T			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr13:39265211A>T	uc001uwv.2	+	1	4039	c.3730A>T	c.(3730-3732)AAT>TAT	p.N1244Y		NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	1244	CSPG 8.|Extracellular (Potential).				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		TCAGCTGATAAATGGCACGGT	0.438													65	179					0	0	0	0
UCHL3	7347	broad.mit.edu	37	13	76134943	76134943	+	Missense_Mutation	SNP	A	G	G			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr13:76134943A>G	uc001vjq.2	+	3	139	c.109A>G	c.(109-111)ATG>GTG	p.M37V	UCHL3_uc001vjr.2_Missense_Mutation_p.M1V	NM_006002	NP_005993	P15374	UCHL3_HUMAN	ubiquitin carboxyl-terminal esterase L3	37					ubiquitin-dependent protein catabolic process	cytoplasm	cysteine-type peptidase activity|ubiquitin binding|ubiquitin thiolesterase activity				0				GBM - Glioblastoma multiforme(99;0.0125)		TGTATATGGAATGGATCCTGA	0.338													25	75					0	0	0	0
CMTM5	116173	broad.mit.edu	37	14	23846483	23846483	+	Missense_Mutation	SNP	G	A	A			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr14:23846483G>A	uc010akm.2	+	1	467	c.23G>A	c.(22-24)CGG>CAG	p.R8Q	CMTM5_uc001wjs.2_Missense_Mutation_p.R8Q|CMTM5_uc001wjt.2_Missense_Mutation_p.R8Q|CMTM5_uc010akn.2_Missense_Mutation_p.R8Q|CMTM5_uc001wju.2_Missense_Mutation_p.R8Q|CMTM5_uc010ako.2_RNA	NM_138460	NP_612469	Q96DZ9	CKLF5_HUMAN	chemokine-like factor superfamily 5 isoform a	8					chemotaxis	extracellular space|integral to membrane	cytokine activity				0	all_cancers(95;2e-05)			GBM - Glioblastoma multiforme(265;0.0064)|READ - Rectum adenocarcinoma(4;0.0276)|Colorectal(4;0.0382)		CGAGATCGCCGGGACCGGCAC	0.607													26	77					0	0	0	0
ADAM20	8748	broad.mit.edu	37	14	70989374	70989374	+	Missense_Mutation	SNP	G	A	A			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr14:70989374G>A	uc001xme.2	-	2	2496	c.2251C>T	c.(2251-2253)CCT>TCT	p.P751S		NM_003814	NP_003805	O43506	ADA20_HUMAN	ADAM metallopeptidase domain 20 preproprotein	701	Helical; (Potential).				proteolysis|single fertilization	integral to membrane	metalloendopeptidase activity|zinc ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(12;0.133)|Kidney(31;0.188)	all cancers(60;0.00294)|BRCA - Breast invasive adenocarcinoma(234;0.00668)|OV - Ovarian serous cystadenocarcinoma(108;0.0344)		GCAACCAAAGGAAGAAGGCAC	0.313													36	74					0	0	0	0
BTBD7	55727	broad.mit.edu	37	14	93760396	93760396	+	Missense_Mutation	SNP	A	G	G			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr14:93760396A>G	uc001ybo.2	-	3	1296	c.970T>C	c.(970-972)TAT>CAT	p.Y324H	BTBD7_uc010aur.2_5'UTR|BTBD7_uc010two.1_Missense_Mutation_p.Y239H|BTBD7_uc001ybp.2_Intron|BTBD7_uc001ybq.3_Missense_Mutation_p.Y239H|BTBD7_uc001ybr.2_Missense_Mutation_p.Y324H	NM_001002860	NP_001002860	Q9P203	BTBD7_HUMAN	BTB (POZ) domain containing 7 isoform 1	324	BTB 2.									pancreas(1)	1		all_cancers(154;0.08)		Epithelial(152;0.196)|COAD - Colon adenocarcinoma(157;0.212)|all cancers(159;0.223)		ACTGTTGCATATTTTTTTGGT	0.418													3	69					0	0	0	0
MIR379	494328	broad.mit.edu	37	14	101488430	101488430	+	RNA	SNP	G	A	A	rs115827677	by1000genomes	TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr14:101488430G>A	hsa-mir-379|MI0000787	+			c.28G>A			uc010awa.1_RNA|MIR411_hsa-mir-411|MI0003675_5'Flank|uc001yjx.1_5'Flank|MIR299_hsa-mir-299|MI0000744_5'Flank|uc010awb.1_5'Flank|MIR380_hsa-mir-380|MI0000788_5'Flank																	0						GAACGTAGGCGTTATGATTTC	0.517													4	36					0	0	0	0
AKT1	207	broad.mit.edu	37	14	105246551	105246551	+	Missense_Mutation	SNP	C	T	T	rs34409589		TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr14:105246551C>T	uc001ypk.2	-	3	603	c.49G>A	c.(49-51)GAG>AAG	p.E17K	INF2_uc010tyi.1_Intron|AKT1_uc001ypl.2_Missense_Mutation_p.E17K|AKT1_uc010axa.2_Missense_Mutation_p.E17K|AKT1_uc001ypm.2_Missense_Mutation_p.E17K|AKT1_uc001ypn.2_Missense_Mutation_p.E17K|AKT1_uc010tyk.1_5'Flank	NM_005163	NP_005154	P31749	AKT1_HUMAN	AKT1 kinase	17	PH.		E -> K (in breast cancer; also detected in colorectal and ovarian cancer; somatic mutation; alters the PH domain conformation; results in activation of the protein; alters the subcellular location of the protein to the plasma membrane).	E->K: Increase in basal ubiquitination, phosphorylation at T-308 and important increase in membrane recruitment. Decrease in ubiquitination, phosphorylation at T-308 as well as impaired association with the membrane; when associated with R-8.	activation of pro-apoptotic gene products|activation-induced cell death of T cells|endocrine pancreas development|G-protein coupled receptor protein signaling pathway|glucose metabolic process|glycogen biosynthetic process|induction of apoptosis by intracellular signals|insulin receptor signaling pathway|insulin-like growth factor receptor signaling pathway|mRNA metabolic process|negative regulation of fatty acid beta-oxidation|negative regulation of plasma membrane long-chain fatty acid transport|negative regulation of protein kinase activity|nerve growth factor receptor signaling pathway|nitric oxide biosynthetic process|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|platelet activation|positive regulation of blood vessel endothelial cell migration|positive regulation of cell growth|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of establishment of protein localization in plasma membrane|positive regulation of fat cell differentiation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of lipid biosynthetic process|positive regulation of nitric oxide biosynthetic process|positive regulation of nitric-oxide synthase activity|positive regulation of peptidyl-serine phosphorylation|positive regulation of sequence-specific DNA binding transcription factor activity|protein autophosphorylation|protein import into nucleus, translocation|regulation of neuron projection development|regulation of translation|response to fluid shear stress|response to heat|response to UV-A|T cell costimulation	cytosol|nucleoplasm|plasma membrane	enzyme binding|identical protein binding|nitric-oxide synthase regulator activity|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|protein serine/threonine kinase activity	p.E17K(126)		breast(86)|urinary_tract(12)|thyroid(10)|lung(7)|endometrium(5)|large_intestine(4)|skin(4)|prostate(3)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|NS(1)	134		all_cancers(154;3.77e-06)|all_lung(585;3.24e-07)|all_epithelial(191;3.45e-05)|all_neural(303;0.0459)|Melanoma(154;0.155)	all cancers(16;0.000486)|OV - Ovarian serous cystadenocarcinoma(23;0.00647)|Epithelial(46;0.0153)|GBM - Glioblastoma multiforme(11;0.116)	all cancers(159;0.0107)|OV - Ovarian serous cystadenocarcinoma(161;0.0132)|Epithelial(152;0.243)	Adenosine triphosphate(DB00171)|Arsenic trioxide(DB01169)	TTGATGTACTCCCCTACAGAC	0.612	E17K(KU1919_URINARY_TRACT)	1	Mis		breast|colorectal|ovarian|NSCLC								8	19					0	0	0	0
OR4N4	283694	broad.mit.edu	37	15	22383350	22383350	+	Missense_Mutation	SNP	A	G	G			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr15:22383350A>G	uc001yuc.1	+	7	1859	c.878A>G	c.(877-879)GAA>GGA	p.E293G	LOC727924_uc001yub.1_RNA|OR4N4_uc010tzv.1_Missense_Mutation_p.E293G	NM_001005241	NP_001005241	Q8N0Y3	OR4N4_HUMAN	olfactory receptor, family 4, subfamily N,	293	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)|skin(1)	5		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		CGCAACCAGGAAGTGAAAACT	0.408													16	140					0	0	0	0
MAP1A	4130	broad.mit.edu	37	15	43821897	43821897	+	Silent	SNP	C	T	T			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr15:43821897C>T	uc001zrt.2	+	5	8552	c.8085C>T	c.(8083-8085)CTC>CTT	p.L2695L		NM_002373	NP_002364	P78559	MAP1A_HUMAN	microtubule-associated protein 1A	2695						cytoplasm|microtubule|microtubule associated complex	protein binding|structural molecule activity			ovary(3)|breast(3)|pancreas(2)|skin(1)	9		all_cancers(109;1.03e-14)|all_epithelial(112;2.23e-12)|Lung NSC(122;2.76e-08)|all_lung(180;3.1e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;3.05e-06)	Estramustine(DB01196)	ATGTGGATCTCGCCTACATCC	0.517													28	89					0	0	0	0
LOC641298	641298	broad.mit.edu	37	16	22447022	22447022	+	5'Flank	SNP	C	T	T			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr16:22447022C>T	uc010bxf.2	+						RRN3P3_uc002dkp.2_RNA|RRN3P3_uc010vbu.1_RNA	NR_027154				Homo sapiens cDNA FLJ54878 complete cds, highly similar to Serine/threonine-protein kinase SMG1 (EC 2.7.11.1).												0						ATAAATTTAGCTCTTGCCAAA	0.353													17	77					0	0	0	0
Unknown	0	broad.mit.edu	37	16	33647791	33647791	+	5'Flank	SNP	G	A	A			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr16:33647791G>A	uc010vga.1	-											Homo sapiens IGH mRNA for immunoglobulin heavy chain VHDJ region, partial cds, clone:kh0002h.																		GGTCAGGGCTGGGCTGGTTTT	0.552													12	7					0	0	0	0
LPCAT2	54947	broad.mit.edu	37	16	55579722	55579722	+	Missense_Mutation	SNP	A	G	G			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr16:55579722A>G	uc002eie.3	+	9	1109	c.928A>G	c.(928-930)ATG>GTG	p.M310V	LPCAT2_uc002eic.2_Missense_Mutation_p.M40V	NM_017839	NP_060309	Q7L5N7	PCAT2_HUMAN	lysophosphatidylcholine acyltransferase 2	310	Lumenal (Potential).				cellular membrane organization|platelet activating factor biosynthetic process	endoplasmic reticulum membrane|Golgi membrane|Golgi stack|integral to membrane	1-acylglycerophosphocholine O-acyltransferase activity|1-alkylglycerophosphocholine O-acetyltransferase activity|calcium ion binding				0						CCGGAATTTAATGGCAGAGTA	0.299													7	77					0	0	0	0
SMYD4	114826	broad.mit.edu	37	17	1704289	1704289	+	Silent	SNP	C	T	T			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr17:1704289C>T	uc002ftm.3	-	5	567	c.399G>A	c.(397-399)CAG>CAA	p.Q133Q	SMYD4_uc002ftn.1_5'UTR	NM_052928	NP_443160	Q8IYR2	SMYD4_HUMAN	SET and MYND domain containing 4	133							zinc ion binding			skin(3)|kidney(2)	5						ACCCATGTGTCTGTGCTCTGT	0.443													53	155					0	0	0	0
DNAH9	1770	broad.mit.edu	37	17	11778325	11778325	+	Silent	SNP	C	T	T			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr17:11778325C>T	uc002gne.2	+	53	10370	c.10302C>T	c.(10300-10302)GAC>GAT	p.D3434D	DNAH9_uc010coo.2_Silent_p.D2728D	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	3434	AAA 5 (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		ATGATGCTGACGTGGCTGCCT	0.592													35	83					0	0	0	0
SUPT6H	6830	broad.mit.edu	37	17	27015218	27015218	+	Missense_Mutation	SNP	C	T	T			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr17:27015218C>T	uc002hby.2	+	24	3206	c.3116C>T	c.(3115-3117)ACG>ATG	p.T1039M	SUPT6H_uc010crt.2_Missense_Mutation_p.T1039M|SUPT6H_uc002hbz.1_5'Flank	NM_003170	NP_003161	Q7KZ85	SPT6H_HUMAN	suppressor of Ty 6 homolog	1039					chromatin remodeling|regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter	nucleus	hydrolase activity, acting on ester bonds|RNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3	Lung NSC(42;0.00431)					AAGATCGACACGGCCTCCCTG	0.577													54	168					0	0	0	0
Unknown	0	broad.mit.edu	37	17	39296662	39296662	+	RNA	SNP	A	G	G			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr17:39296662A>G	uc010cxk.1	-	1		c.42T>C								Homo sapiens partial mRNA for keratin associated protein 4.6 (KRTAP4.6 gene).																		AGGTGGTCTGACAGCAGCTGG	0.642													4	68					0	0	0	0
KRT13	3860	broad.mit.edu	37	17	39658663	39658663	+	Missense_Mutation	SNP	C	T	T			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr17:39658663C>T	uc002hwu.1	-	6	1270	c.1207G>A	c.(1207-1209)GCC>ACC	p.A403T	KRT13_uc002hwv.1_Missense_Mutation_p.A403T|KRT13_uc002hww.2_Missense_Mutation_p.A296T|KRT13_uc010wfr.1_Missense_Mutation_p.A296T|KRT13_uc010cxo.2_Missense_Mutation_p.A403T|KRT13_uc002hwx.1_Missense_Mutation_p.A391T	NM_153490	NP_705694	P13646	K1C13_HUMAN	keratin 13 isoform a	403	Rod.|Coil 2.				epidermis development	intermediate filament	structural molecule activity			ovary(2)|skin(2)|pancreas(1)	5		Breast(137;0.000286)				CGGTAGGTGGCGATCTCCTGC	0.562													48	103					0	0	0	0
CBX8	57332	broad.mit.edu	37	17	77769025	77769025	+	Silent	SNP	C	T	T			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr17:77769025C>T	uc002jxd.1	-	5	672	c.579G>A	c.(577-579)GGG>GGA	p.G193G		NM_020649	NP_065700	Q9HC52	CBX8_HUMAN	chromobox homolog 8	193					negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear chromatin|PcG protein complex	methylated histone residue binding				0			OV - Ovarian serous cystadenocarcinoma(97;0.0102)|BRCA - Breast invasive adenocarcinoma(99;0.0224)			TCGAGCTGTCCCCCGGTGAGC	0.498													3	19					0	0	0	0
LIPG	9388	broad.mit.edu	37	18	47110036	47110036	+	Nonsense_Mutation	SNP	G	A	A			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr18:47110036G>A	uc002ldv.2	+	8	1520	c.1268G>A	c.(1267-1269)TGG>TAG	p.W423*	LIPG_uc010xdh.1_Nonsense_Mutation_p.W349*	NM_006033	NP_006024	Q9Y5X9	LIPE_HUMAN	endothelial lipase precursor	423	PLAT.				cholesterol homeostasis|high-density lipoprotein particle remodeling|phospholipid catabolic process|phospholipid homeostasis|positive regulation of cholesterol transport|positive regulation of high-density lipoprotein particle clearance|reverse cholesterol transport	extracellular space	heparin binding|lipoprotein lipase activity|phospholipase A1 activity|protein binding|triglyceride lipase activity			ovary(1)|skin(1)	2						TCTCAGTCTTGGTACAACCTG	0.582													24	73					0	0	0	0
NOTCH3	4854	broad.mit.edu	37	19	15302992	15302992	+	Missense_Mutation	SNP	C	T	T			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr19:15302992C>T	uc002nan.2	-	4	534	c.458G>A	c.(457-459)CGC>CAC	p.R153H	NOTCH3_uc002nao.1_Missense_Mutation_p.R153H	NM_000435	NP_000426	Q9UM47	NOTC3_HUMAN	Notch homolog 3 precursor	153	Extracellular (Potential).|EGF-like 3.		Missing (in CADASIL).|R -> C (in CADASIL).		Notch receptor processing|Notch signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			lung(8)|ovary(5)|skin(4)|prostate(2)|central_nervous_system(1)|breast(1)	21			OV - Ovarian serous cystadenocarcinoma(3;2.6e-20)|Epithelial(3;1.34e-16)|all cancers(3;5.13e-15)			TCGGCAGCTGCGGCCCTGGTA	0.687													12	23					0	0	0	0
ZNF845	91664	broad.mit.edu	37	19	53854765	53854765	+	Silent	SNP	C	A	A			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr19:53854765C>A	uc010ydv.1	+	4	954	c.837C>A	c.(835-837)ACC>ACA	p.T279T	ZNF845_uc010ydw.1_Silent_p.T279T	NM_138374	NP_612383	Q96IR2	ZN845_HUMAN	zinc finger protein 845	279	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GTGGCAAGACCTTCAGTCAGG	0.423													18	58					2.48551e-13	2.78862e-13	1	0
C2orf16	84226	broad.mit.edu	37	2	27804538	27804538	+	Missense_Mutation	SNP	G	A	A			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr2:27804538G>A	uc002rkz.3	+	1	5150	c.5099G>A	c.(5098-5100)AGG>AAG	p.R1700K	ZNF512_uc010ylv.1_5'Flank|ZNF512_uc010ylw.1_5'Flank|ZNF512_uc002rlb.2_5'Flank|ZNF512_uc010ylx.1_5'Flank|ZNF512_uc002rlc.2_5'Flank|ZNF512_uc002rla.2_5'Flank|ZNF512_uc010yly.1_5'Flank|ZNF512_uc010ylz.1_5'Flank	NM_032266	NP_115642	Q68DN1	CB016_HUMAN	hypothetical protein LOC84226	1700	9.|27 X 8 AA approximative tandem repeat of P-S-E-R-S-H-H-S.|Arg-rich.									large_intestine(1)	1	Acute lymphoblastic leukemia(172;0.155)					CCCTCTCAGAGGAGCCATCGT	0.587													8	237					0	0	0	0
RMND5A	64795	broad.mit.edu	37	2	86947840	86947840	+	Missense_Mutation	SNP	A	T	T			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr2:86947840A>T	uc010ytm.1	+	1	427	c.50A>T	c.(49-51)AAG>ATG	p.K17M	RMND5A_uc002srs.3_Translation_Start_Site|VPS24_uc010ytl.1_Intron|RMND5A_uc002srr.2_Missense_Mutation_p.K17M	NM_022780	NP_073617	Q9H871	RMD5A_HUMAN	required for meiotic nuclear division 5 homolog	17										ovary(1)|skin(1)	2						GTGCTGCACAAGTTCTCAGGC	0.687													4	1					0	0	0	0
CNTNAP5	129684	broad.mit.edu	37	2	125175049	125175049	+	Missense_Mutation	SNP	C	G	G			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr2:125175049C>G	uc002tno.2	+	4	775	c.411C>G	c.(409-411)AGC>AGG	p.S137R	CNTNAP5_uc010flu.2_Missense_Mutation_p.S137R	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	137	F5/8 type C.|Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		ATGCTGACAGCGTGGTGCACC	0.488													11	25					0	0	0	0
CNTNAP5	129684	broad.mit.edu	37	2	125204332	125204332	+	Missense_Mutation	SNP	G	T	T			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr2:125204332G>T	uc002tno.2	+	6	1100	c.736G>T	c.(736-738)GAC>TAC	p.D246Y	CNTNAP5_uc010flu.2_Missense_Mutation_p.D246Y	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	246	Laminin G-like 1.|Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		CTTCACAGGTGACAGCAAAGC	0.567													15	53					1.67942e-08	1.81772e-08	1	0
LRP1B	53353	broad.mit.edu	37	2	141598619	141598619	+	Missense_Mutation	SNP	C	T	T			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr2:141598619C>T	uc002tvj.1	-	30	5954	c.4982G>A	c.(4981-4983)CGT>CAT	p.R1661H		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	1661	Extracellular (Potential).|LDL-receptor class B 15.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		GTATAAATTACGTGACACCCA	0.373										TSP Lung(27;0.18)			24	80					0	0	0	0
TMEM198	130612	broad.mit.edu	37	2	220412472	220412472	+	Silent	SNP	C	T	T			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr2:220412472C>T	uc002vme.2	+	4	996	c.411C>T	c.(409-411)TCC>TCT	p.S137S	TMEM198_uc002vmf.2_Silent_p.S137S	NM_001005209	NP_001005209	Q66K66	TM198_HUMAN	transmembrane protein 198	137	Leu-rich.					integral to membrane				ovary(1)	1		Renal(207;0.0376)		Epithelial(149;6.49e-08)|all cancers(144;6.45e-06)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00802)		TGCTGGGCTCCGCACCCTACT	0.716													12	32					0	0	0	0
TGM3	7053	broad.mit.edu	37	20	2297758	2297758	+	Silent	SNP	C	T	T			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr20:2297758C>T	uc002wfx.3	+	6	811	c.714C>T	c.(712-714)AGC>AGT	p.S238S		NM_003245	NP_003236	Q08188	TGM3_HUMAN	transglutaminase 3 precursor	238					cell envelope organization|hair follicle morphogenesis|keratinization|peptide cross-linking|protein tetramerization	cytoplasm|extrinsic to internal side of plasma membrane	acyltransferase activity|calcium ion binding|GDP binding|GTP binding|GTPase activity|magnesium ion binding|protein-glutamine gamma-glutamyltransferase activity			large_intestine(4)|ovary(3)|breast(1)|skin(1)	9					L-Glutamine(DB00130)	GGAATTGGAGCGGCACTTACA	0.532													32	91					0	0	0	0
PRPF6	24148	broad.mit.edu	37	20	62631039	62631039	+	Missense_Mutation	SNP	G	A	A			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr20:62631039G>A	uc002yho.2	+	8	1118	c.950G>A	c.(949-951)CGC>CAC	p.R317H	PRPF6_uc002yhp.2_Missense_Mutation_p.R317H	NM_012469	NP_036601	O94906	PRP6_HUMAN	PRP6 pre-mRNA processing factor 6 homolog	317					assembly of spliceosomal tri-snRNP|positive regulation of transcription from RNA polymerase II promoter|spliceosome assembly	catalytic step 2 spliceosome|nucleoplasm|U4/U6 snRNP|U4/U6 x U5 tri-snRNP complex|U5 snRNP	androgen receptor binding|ribonucleoprotein binding|transcription coactivator activity			ovary(2)	2	all_cancers(38;6.47e-12)|all_epithelial(29;1.26e-13)|Lung NSC(23;9.37e-10)|all_lung(23;3.23e-09)					GCATCAGCCCGCCTGGAAGAA	0.557													20	28					0	0	0	0
LOC96610	96610	broad.mit.edu	37	22	23199148	23199148	+	RNA	SNP	A	G	G			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr22:23199148A>G	uc011aim.1	+	316		c.13817A>G								Parts of antibodies, mostly variable regions.												0						CAAGTCTGGCAATACGGCCTC	0.527													8	116					0	0	0	0
ELFN2	114794	broad.mit.edu	37	22	37769728	37769728	+	Missense_Mutation	SNP	C	T	T			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr22:37769728C>T	uc003asq.3	-	3	2633	c.1847G>A	c.(1846-1848)CGC>CAC	p.R616H		NM_052906	NP_443138	Q5R3F8	LRFN6_HUMAN	leucine rich repeat containing 62	616	Cytoplasmic (Potential).					cell surface|integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2	Melanoma(58;0.0574)					GCTCAGCTGGCGCTGTAGTGG	0.682													7	8					0	0	0	0
MORC1	27136	broad.mit.edu	37	3	108773723	108773723	+	Silent	SNP	G	A	A	rs7631480	byFrequency	TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr3:108773723G>A	uc003dxl.2	-	14	1269	c.1182C>T	c.(1180-1182)GGC>GGT	p.G394G	MORC1_uc011bhn.1_Silent_p.G394G	NM_014429	NP_055244	Q86VD1	MORC1_HUMAN	MORC family CW-type zinc finger 1	394					cell differentiation|multicellular organismal development|spermatogenesis	nucleus	ATP binding|zinc ion binding	p.G394G(1)		ovary(3)|skin(3)|breast(2)	8						CCACGCCTGCGCCAAGTCTGA	0.303													22	57					0	0	0	0
XRN1	54464	broad.mit.edu	37	3	142103391	142103391	+	Missense_Mutation	SNP	G	T	T			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr3:142103391G>T	uc003eus.2	-	21	2543	c.2476C>A	c.(2476-2478)CCT>ACT	p.P826T	XRN1_uc010huu.2_Missense_Mutation_p.P292T|XRN1_uc003eut.2_Missense_Mutation_p.P826T|XRN1_uc003euu.2_Missense_Mutation_p.P826T|XRN1_uc003euv.1_Missense_Mutation_p.P687T	NM_019001	NP_061874	Q8IZH2	XRN1_HUMAN	5'-3' exoribonuclease 1 isoform a	826					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|histone mRNA catabolic process|nuclear mRNA surveillance|rRNA catabolic process	cytosol|Golgi apparatus|intermediate filament cytoskeleton|plasma membrane	5'-3' exonuclease activity|DNA binding|protein binding|RNA binding			ovary(3)	3						TAAACAAAAGGAACAACTTGT	0.308													26	89					1.85244e-09	2.02886e-09	1	0
TBC1D1	23216	broad.mit.edu	37	4	38023338	38023338	+	Missense_Mutation	SNP	G	C	C			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr4:38023338G>C	uc003gtb.2	+	6	1552	c.1209G>C	c.(1207-1209)GAG>GAC	p.E403D	TBC1D1_uc011byd.1_Missense_Mutation_p.E403D|TBC1D1_uc010ifd.2_Missense_Mutation_p.E150D|TBC1D1_uc011byf.1_Missense_Mutation_p.E274D	NM_015173	NP_055988	Q86TI0	TBCD1_HUMAN	TBC1 (tre-2/USP6, BUB2, cdc16) domain family,	403	PID.					nucleus	Rab GTPase activator activity			ovary(1)	1						AGAGGATAGAGGGTGAGTAGG	0.552													3	20					0	0	0	0
SMARCAD1	56916	broad.mit.edu	37	4	95155227	95155227	+	Missense_Mutation	SNP	C	T	T			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr4:95155227C>T	uc003htc.3	+	4	746	c.491C>T	c.(490-492)ACT>ATT	p.T164I	SMARCAD1_uc003htb.3_Missense_Mutation_p.T164I|SMARCAD1_uc003htd.3_Missense_Mutation_p.T164I|SMARCAD1_uc010ila.2_Missense_Mutation_p.T27I	NM_020159	NP_064544	Q9H4L7	SMRCD_HUMAN	SWI/SNF-related, matrix-associated	164	CUE 1.				chromatin modification|nucleotide metabolic process|positive regulation of transcription, DNA-dependent|protein homooligomerization|regulation of DNA recombination	nuclear matrix	ATP binding|DNA binding|helicase activity			skin(2)|ovary(1)|breast(1)	4				OV - Ovarian serous cystadenocarcinoma(123;4.33e-08)		aaacttcagactttgaaggaa	0.144													19	29					0	0	0	0
ADH4	127	broad.mit.edu	37	4	100062705	100062705	+	Silent	SNP	G	T	T			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr4:100062705G>T	uc003hun.2	-	3	325	c.249C>A	c.(247-249)ACC>ACA	p.T83T	uc003hum.1_Intron|ADH4_uc011ced.1_Silent_p.T102T	NM_000670	NP_000661	P08319	ADH4_HUMAN	class II alcohol dehydrogenase, pi subunit	83					alcohol catabolic process|cellular aldehyde metabolic process|ethanol oxidation|quinone cofactor metabolic process|retinol metabolic process|xenobiotic metabolic process	cytosol|microtubule cytoskeleton	alcohol dehydrogenase activity, zinc-dependent|all-trans retinal binding|benzaldehyde dehydrogenase activity|NAD binding|NADPH:quinone reductase activity|retinol binding|retinol dehydrogenase activity|zinc ion binding			skin(2)	2				OV - Ovarian serous cystadenocarcinoma(123;4.48e-08)	NADH(DB00157)	GTTTGACGTTGGTCACTCCTG	0.398													21	42					0.00395357	0.00413328	1	0
BRD9	65980	broad.mit.edu	37	5	878568	878568	+	Silent	SNP	C	T	T			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr5:878568C>T	uc003jbq.2	-	11	1340	c.1173G>A	c.(1171-1173)TCG>TCA	p.S391S	BRD9_uc003jbl.2_Silent_p.S275S|BRD9_uc003jbm.2_RNA|BRD9_uc003jbn.2_RNA|BRD9_uc011cmb.1_Silent_p.S338S|BRD9_uc003jbo.2_Silent_p.S295S|BRD9_uc003jbp.2_Silent_p.S52S|BRD9_uc011cmc.1_RNA	NM_023924	NP_076413	Q9H8M2	BRD9_HUMAN	bromodomain containing 9 isoform 1	391							nucleic acid binding				0			Epithelial(17;0.00202)|OV - Ovarian serous cystadenocarcinoma(19;0.00353)|all cancers(22;0.00815)|Lung(60;0.185)			TATTCTGCATCGAAAGCGCAG	0.567													9	124					0	0	0	0
ADAMTS12	81792	broad.mit.edu	37	5	33549375	33549375	+	Silent	SNP	G	A	A			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr5:33549375G>A	uc003jia.1	-	21	4402	c.4239C>T	c.(4237-4239)CCC>CCT	p.P1413P	ADAMTS12_uc010iuq.1_Silent_p.P1328P	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1413	TSP type-1 6.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						TGCTCAATGGGGGAGGAATGC	0.612										HNSCC(64;0.19)			24	59					0	0	0	0
RAI14	26064	broad.mit.edu	37	5	34824125	34824125	+	Silent	SNP	C	T	T			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr5:34824125C>T	uc003jir.2	+	15	2374	c.2178C>T	c.(2176-2178)AAC>AAT	p.N726N	RAI14_uc010iur.2_Silent_p.N697N|RAI14_uc011coj.1_Silent_p.N726N|RAI14_uc003jis.2_Silent_p.N729N|RAI14_uc003jit.2_Silent_p.N726N|RAI14_uc011cok.1_Silent_p.N718N	NM_015577	NP_056392	Q9P0K7	RAI14_HUMAN	retinoic acid induced 14 isoform a	726	Potential.					cell cortex|cytoskeleton	protein binding			ovary(1)	1	all_lung(31;0.000191)					AAAAAGAGAACTCTGTCTCTA	0.408													25	33					0	0	0	0
GPRIN1	114787	broad.mit.edu	37	5	176024594	176024594	+	Missense_Mutation	SNP	C	T	T			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr5:176024594C>T	uc003meo.1	-	2	2417	c.2242G>A	c.(2242-2244)GTG>ATG	p.V748M		NM_052899	NP_443131	Q7Z2K8	GRIN1_HUMAN	G protein-regulated inducer of neurite outgrowth	748						growth cone|plasma membrane				ovary(2)	2	all_cancers(89;0.00263)|Renal(175;0.000269)|Lung NSC(126;0.00902)|all_lung(126;0.0142)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TTCGGCTCCACGCGGCCTTCA	0.687													7	19					0	0	0	0
BTN2A3	54718	broad.mit.edu	37	6	26431040	26431040	+	Missense_Mutation	SNP	A	G	G			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr6:26431040A>G	uc011dkl.1	+	6	988	c.958A>G	c.(958-960)AGT>GGT	p.S320G	BTN2A3_uc011dkm.1_Intron					RecName: Full=Butyrophilin subfamily 2 member A3; Flags: Precursor;												0						GGACAAAAGAAGTGTGACATT	0.547													22	50					0	0	0	0
Unknown	0	broad.mit.edu	37	6	26476600	26476600	+	RNA	SNP	G	A	A			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr6:26476600G>A	uc003nie.1	-	3		c.2434C>T								Homo sapiens cDNA FLJ40220 fis, clone TESTI2021667.																		CAGAAAGGTCGAAGATGGCAG	0.537													5	5					0	0	0	0
CCHCR1	54535	broad.mit.edu	37	6	31112526	31112526	+	Missense_Mutation	SNP	C	T	T	rs111409280		TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr6:31112526C>T	uc003nsr.3	-	15	1961	c.1838G>A	c.(1837-1839)CGG>CAG	p.R613Q	CCHCR1_uc011dne.1_Missense_Mutation_p.R613Q|CCHCR1_uc003nsq.3_Missense_Mutation_p.R666Q|CCHCR1_uc003nsp.3_Missense_Mutation_p.R702Q|CCHCR1_uc010jsk.1_Missense_Mutation_p.R645Q	NM_019052	NP_061925	Q8TD31	CCHCR_HUMAN	coiled-coil alpha-helical rod protein 1 isoform	613	Potential.				cell differentiation|multicellular organismal development	cytoplasm|nucleus	protein binding			skin(1)	1						GAGTTGCTCCCGCAGCCGAGT	0.597													53	106					0	0	0	0
C4A	720	broad.mit.edu	37	6	31997106	31997106	+	Missense_Mutation	SNP	G	A	A			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr6:31997106G>A	uc011dpd.1	+	28	3718	c.3667G>A	c.(3667-3669)GAG>AAG	p.E1223K	C4A_uc011dpe.1_Missense_Mutation_p.E1223K	NM_007293	NP_009224	P0C0L4	CO4A_HUMAN	complement component 4A preproprotein	1223					complement activation, classical pathway|inflammatory response|innate immune response	extracellular space	endopeptidase inhibitor activity				0						AATGGCCCAGGAGACTGGAGG	0.642													9	55					0	0	0	0
PHIP	55023	broad.mit.edu	37	6	79697996	79697996	+	Missense_Mutation	SNP	C	T	T			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr6:79697996C>T	uc003pir.2	-	21	2616	c.2390G>A	c.(2389-2391)CGT>CAT	p.R797H	PHIP_uc011dyp.1_Missense_Mutation_p.R796H	NM_017934	NP_060404	Q8WWQ0	PHIP_HUMAN	pleckstrin homology domain interacting protein	797					insulin receptor signaling pathway|negative regulation of apoptosis|positive regulation of cell proliferation|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of mitosis	nucleus	insulin receptor binding			large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)	6		all_cancers(76;0.00125)|Acute lymphoblastic leukemia(125;1.1e-05)|all_hematologic(105;0.00117)|all_epithelial(107;0.219)		BRCA - Breast invasive adenocarcinoma(397;0.231)		AGATCTTGTACGATAATTGTG	0.338													5	101					0	0	0	0
FOXO3	2309	broad.mit.edu	37	6	108984910	108984910	+	Missense_Mutation	SNP	C	T	T			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr6:108984910C>T	uc003psk.2	+	3	1190	c.874C>T	c.(874-876)CCT>TCT	p.P292S	FOXO3_uc003psn.2_Intron|FOXO3_uc003psm.2_Missense_Mutation_p.P292S|FOXO3_uc011ean.1_Missense_Mutation_p.P72S|FOXO3_uc010kdj.1_Missense_Mutation_p.P72S	NM_201559	NP_963853	O43524	FOXO3_HUMAN	forkhead box O3A	292				PGSPTSRSSDELDAWTDFRSRTNSNASTVSGRLSPIMAS -> AWQPHVNAAVMSWMRGRTSVHAPILTPAQSVAACRPSW QV (in Ref. 5; CAA04860).	antral ovarian follicle growth|apoptosis|embryo development|glucose homeostasis|induction of apoptosis|initiation of primordial ovarian follicle growth|insulin receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|oocyte maturation|ovulation from ovarian follicle|pattern specification process|phosphatidylinositol-mediated signaling|positive regulation of erythrocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|regulation of cell proliferation|regulation of sequence-specific DNA binding transcription factor activity|tissue development	cytosol|transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein kinase binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription factor binding			central_nervous_system(4)|lung(2)	6		all_cancers(87;1.78e-07)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;3.88e-05)|Colorectal(196;0.0294)|all_lung(197;0.0487)|Lung SC(18;0.152)		Epithelial(106;0.000759)|all cancers(137;0.00121)|BRCA - Breast invasive adenocarcinoma(108;0.00163)|OV - Ovarian serous cystadenocarcinoma(136;0.00718)		CTCCAAGTGGCCTGGCAGCCC	0.622													4	32					0	0	0	0
IFNGR1	3459	broad.mit.edu	37	6	137527279	137527279	+	Nonsense_Mutation	SNP	G	A	A			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr6:137527279G>A	uc003qho.2	-	3	470	c.367C>T	c.(367-369)CGA>TGA	p.R123*	IFNGR1_uc011edm.1_Nonsense_Mutation_p.R95*|IFNGR1_uc011edn.1_Nonsense_Mutation_p.R113*	NM_000416	NP_000407	P15260	INGR1_HUMAN	interferon gamma receptor 1 precursor	123	Extracellular (Potential).				regulation of interferon-gamma-mediated signaling pathway|response to virus	integral to plasma membrane	interferon-gamma receptor activity			upper_aerodigestive_tract(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000829)|OV - Ovarian serous cystadenocarcinoma(155;0.00389)	Interferon gamma-1b(DB00033)	TCACCATCTCGGCATACAGCA	0.348													7	118					0	0	0	0
SYNE1	23345	broad.mit.edu	37	6	152763322	152763322	+	Missense_Mutation	SNP	G	A	A			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr6:152763322G>A	uc010kiw.2	-	31	4498	c.3896C>T	c.(3895-3897)GCG>GTG	p.A1299V	SYNE1_uc003qot.3_Missense_Mutation_p.A1306V|SYNE1_uc003qou.3_Missense_Mutation_p.A1299V|SYNE1_uc010kjb.1_Missense_Mutation_p.A1282V|SYNE1_uc003qow.2_Missense_Mutation_p.A594V|SYNE1_uc003qox.1_Missense_Mutation_p.A815V	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	1299	Potential.|Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		TCCCTGCTGCGCCTGCGCGAT	0.567										HNSCC(10;0.0054)			22	91					0	0	0	0
MIR148A	406940	broad.mit.edu	37	7	25989618	25989618	+	5'Flank	SNP	C	T	T			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr7:25989618C>T	hsa-mir-148a|MI0000253	-						uc011jzf.1_RNA																	0						AAAGACCAAACGTGCTGTCTT	0.468													5	18					0	0	0	0
C7orf57	136288	broad.mit.edu	37	7	48081064	48081064	+	Missense_Mutation	SNP	A	G	G			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr7:48081064A>G	uc003toh.3	+	3	401	c.189A>G	c.(187-189)ATA>ATG	p.I63M	C7orf57_uc003toi.3_Translation_Start_Site	NM_001100159	NP_001093629	Q8NEG2	CG057_HUMAN	hypothetical protein LOC136288	63										ovary(1)	1						GATACTGGATAAAAGAAACAG	0.592													13	18					0	0	0	0
RELN	5649	broad.mit.edu	37	7	103214639	103214639	+	Missense_Mutation	SNP	C	T	T			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr7:103214639C>T	uc003vca.2	-	30	4571	c.4411G>A	c.(4411-4413)GGA>AGA	p.G1471R	RELN_uc010liz.2_Missense_Mutation_p.G1471R	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	1471					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		CAGCCAGTTCCAACCTGGGCA	0.512													8	123					0	0	0	0
EPHB6	2051	broad.mit.edu	37	7	142563798	142563798	+	Missense_Mutation	SNP	G	A	A			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr7:142563798G>A	uc011kst.1	+	9	1973	c.1186G>A	c.(1186-1188)GGG>AGG	p.G396R	EPHB6_uc011ksu.1_Missense_Mutation_p.G396R|EPHB6_uc003wbs.2_Missense_Mutation_p.G104R|EPHB6_uc003wbt.2_5'UTR|EPHB6_uc003wbu.2_Missense_Mutation_p.G104R|EPHB6_uc003wbv.2_5'Flank	NM_004445	NP_004436	O15197	EPHB6_HUMAN	ephrin receptor EphB6 precursor	396	Extracellular (Potential).|Fibronectin type-III 1.					extracellular region|integral to plasma membrane	ATP binding|ephrin receptor activity			lung(8)|large_intestine(4)|central_nervous_system(3)|stomach(1)|skin(1)|ovary(1)|pancreas(1)	19	Melanoma(164;0.059)					TCGGGAGCTGGGGGGTCGAGG	0.652													7	19					0	0	0	0
HR	55806	broad.mit.edu	37	8	21973915	21973915	+	Silent	SNP	G	A	A			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr8:21973915G>A	uc003xas.2	-	18	4070	c.3405C>T	c.(3403-3405)AGC>AGT	p.S1135S	HR_uc003xat.2_Silent_p.S1080S	NM_005144	NP_005135	O43593	HAIR_HUMAN	hairless protein isoform a	1135	JmjC.						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)		GCTGAGTGACGCTGACTGTGC	0.627													9	26					0	0	0	0
REXO1L1	254958	broad.mit.edu	37	8	86786367	86786367	+	RNA	SNP	G	A	A			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr8:86786367G>A	uc011lfx.1	-	1		c.2482C>T			REXO1L1_uc010mah.2_RNA	NM_172239	NP_758439	Q8IX06	GOR_HUMAN	exonuclease GOR							cytoplasm|nucleus	exonuclease activity|nucleic acid binding				0						cagttgagcggttttgagtga	0													4	24					0	0	0	0
KLF10	7071	broad.mit.edu	37	8	103664557	103664557	+	Silent	SNP	C	T	T			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr8:103664557C>T	uc011lhk.1	-	2	259	c.105G>A	c.(103-105)GAG>GAA	p.E35E	KLF10_uc011lhj.1_Silent_p.E24E	NM_005655	NP_005646	Q13118	KLF10_HUMAN	Kruppel-like factor 10 isoform a	35					cell proliferation|cell-cell signaling|negative regulation of cell proliferation|negative regulation of transcription from RNA polymerase II promoter|skeletal system development|transforming growth factor beta receptor signaling pathway	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_epithelial(15;5.63e-07)|Lung NSC(17;8.18e-05)|all_lung(17;0.000169)		OV - Ovarian serous cystadenocarcinoma(57;0.000112)|STAD - Stomach adenocarcinoma(118;0.0826)			AATCACTTTTCTCTGCAGTTT	0.358													53	130					0	0	0	0
Unknown	0	broad.mit.edu	37	9	68413553	68413553	+	RNA	SNP	T	G	G			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr9:68413553T>G	uc004aex.2	+	1		c.108T>G								Homo sapiens mRNA; cDNA DKFZp564N0763 (from clone DKFZp564N0763).																		TCCACGTCCTTCAGCTCCCCC	0.498													3	16					0	0	0	0
GRIN1	2902	broad.mit.edu	37	9	140058119	140058119	+	Silent	SNP	C	G	G			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr9:140058119C>G	uc004clk.2	+	17	2772	c.2442C>G	c.(2440-2442)GCC>GCG	p.A814A	GRIN1_uc004cli.1_Silent_p.A489A|GRIN1_uc004clj.1_Silent_p.A811A|GRIN1_uc004cll.2_Silent_p.A814A|GRIN1_uc004clm.2_Silent_p.A814A|GRIN1_uc004cln.2_Silent_p.A832A|GRIN1_uc004clo.2_Silent_p.A832A	NM_007327	NP_015566	Q05586	NMDZ1_HUMAN	NMDA receptor 1 isoform NR1-3 precursor	814	Helical; (Potential).				ionotropic glutamate receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|regulation of excitatory postsynaptic membrane potential|response to ethanol|visual learning	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic density|postsynaptic membrane|synaptic vesicle|synaptosome	calcium ion binding|calmodulin binding|extracellular-glutamate-gated ion channel activity|glutamate binding|glycine binding			skin(1)	1	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.0878)	OV - Ovarian serous cystadenocarcinoma(145;6.87e-05)|Epithelial(140;0.00095)	L-Glutamic Acid(DB00142)|Orphenadrine(DB01173)	AGAACATGGCCGGTGCGTTCT	0.597													13	40					0	0	0	0
Unknown	0	broad.mit.edu	37	MT	13208	13208	+	RNA	SNP	G	C	C			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chrM:13208G>C	uc004cox.3	+	1		c.872G>C			uc004coy.2_5'Flank|uc004coz.1_5'Flank					Homo sapiens NADH dehydrogenase subunit 5 (MTND5) mRNA, RNA 5, complete cds; mitochondrial gene for mitochondrial product.																		CGCAGCAGTCTGCGCCCTTAC	0.453													30	104					0	0	0	0
ASMT	438	broad.mit.edu	37	X	1755398	1755398	+	Missense_Mutation	SNP	G	C	C			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chrX:1755398G>C	uc004cqd.2	+	9	1000	c.855G>C	c.(853-855)TGG>TGC	p.W285C	ASMT_uc010ncy.2_Missense_Mutation_p.W285C|ASMT_uc004cqe.2_Missense_Mutation_p.W210C	NM_004043	NP_004034	P46597	HIOM_HUMAN	acetylserotonin O-methyltransferase	257					melatonin biosynthetic process|translation	cytosol	acetylserotonin O-methyltransferase activity|S-methyltransferase activity			skin(1)	1		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)				TCCATGACTGGGCAGACGGAA	0.567													56	143					0	0	0	0
ARMCX5	64860	broad.mit.edu	37	X	101857876	101857876	+	Silent	SNP	T	G	G			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chrX:101857876T>G	uc004ejg.2	+	6	1688	c.807T>G	c.(805-807)CCT>CCG	p.P269P	ARMCX5_uc004ejh.2_Silent_p.P269P	NM_022838	NP_073749	Q6P1M9	ARMX5_HUMAN	armadillo repeat containing, X-linked 5	269							binding			ovary(1)	1						AGATCCCACCTTATCATGGGC	0.488													45	42					0	0	0	0
Unknown	0	broad.mit.edu	37	1	17631664	17631665	+	IGR	DEL	GA	-	-	rs59625190		TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr1:17631664_17631665delGA								PADI3 (20939 upstream) : PADI4 (3025 downstream)																							CAgtgtgagtgagtgtgtgtgt	0.322													---	---	---							
Unknown	0	broad.mit.edu	37	1	20781016	20781017	+	IGR	INS	-	TG	TG			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr1:20781016_20781017insTG								VWA5B1 (99629 upstream) : CAMK2N1 (27868 downstream)																							gtgcatgtttctgtgtgtgtat	0.000													---	---	---							
Unknown	0	broad.mit.edu	37	1	30068132	30068135	+	IGR	DEL	CACA	-	-	rs67445844		TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr1:30068132_30068135delCACA								PTPRU (414817 upstream) : None (None downstream)																							catgcacgtgcacacacacacaca	0.289													---	---	---							
Unknown	0	broad.mit.edu	37	1	115921906	115921907	+	IGR	INS	-	GT	GT	rs59920028		TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr1:115921906_115921907insGT								NGF (41049 upstream) : VANGL1 (262667 downstream)																							agtattccatggtgtgtgtgtg	0.000													---	---	---							
Unknown	0	broad.mit.edu	37	1	161381871	161381871	+	IGR	DEL	A	-	-			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr1:161381871delA								C1orf192 (44207 upstream) : FCGR2A (93334 downstream)																							cgagactgtcaaaaaaaaaaa	0.025													---	---	---							
Unknown	0	broad.mit.edu	37	10	132364303	132364304	+	IGR	DEL	TG	-	-			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr10:132364303_132364304delTG								GLRX3 (381519 upstream) : TCERG1L (526352 downstream)																							AGCTTCCATTtgtgtgtgtgtg	0.371													---	---	---							
SLC43A3	29015	broad.mit.edu	37	11	57195235	57195236	+	5'Flank	INS	-	TATT	TATT	rs138882161	by1000genomes	TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr11:57195235_57195236insTATT	uc001nkg.2	-						SLC43A3_uc001nkh.2_5'Flank|SLC43A3_uc010rjr.1_5'Flank|SLC43A3_uc009yme.2_5'Flank|SLC43A3_uc001nki.2_5'Flank|SLC43A3_uc009ymf.1_5'Flank|SLC43A3_uc010rjs.1_5'Flank|SLC43A3_uc009ymg.1_5'Flank	NM_014096	NP_054815	Q8NBI5	S43A3_HUMAN	solute carrier family 43, member 3						transmembrane transport	integral to membrane				central_nervous_system(1)	1						cattgattaaccattcattgcc	0.005													---	---	---							
Unknown	0	broad.mit.edu	37	11	89591582	89591583	+	IGR	INS	-	TAG	TAG			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr11:89591582_89591583insTAG								TRIM53 (7440 upstream) : TRIM49L (52998 downstream)																							TTGTAGGAAAATATCTTCAGAA	0.351													---	---	---							
Unknown	0	broad.mit.edu	37	12	114720787	114720788	+	IGR	INS	-	ACACAC	ACACAC	rs140814856	by1000genomes	TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr12:114720787_114720788insACACAC								RBM19 (316611 upstream) : TBX5 (70948 downstream)																							TGTGCACGTGTacacacacaca	0.431													---	---	---							
Unknown	0	broad.mit.edu	37	13	81680290	81680291	+	IGR	INS	-	CACACAC	CACACAC			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr13:81680290_81680291insCACACAC								SPRY2 (765204 upstream) : None (None downstream)																							acacacacacacacacacacaG	0.297													---	---	---							
Unknown	0	broad.mit.edu	37	14	35353676	35353676	+	IGR	DEL	T	-	-			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr14:35353676delT								BAZ1A (8823 upstream) : C14orf19 (55452 downstream)																							ttttcttttcttttttttttt	0.119													---	---	---							
Unknown	0	broad.mit.edu	37	14	99798737	99798738	+	IGR	INS	-	CA	CA	rs148460643	by1000genomes	TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr14:99798737_99798738insCA								BCL11B (60915 upstream) : SETD3 (65346 downstream)																							acacgtgccagcacacacacac	0.000													---	---	---							
Unknown	0	broad.mit.edu	37	15	20005758	20005758	+	IGR	DEL	A	-	-			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr15:20005758delA								None (None upstream) : GOLGA6L6 (731336 downstream)																							tgcacacctcacaaagaagtt	0.000													---	---	---							
MYO9A	4649	broad.mit.edu	37	15	72186069	72186071	+	In_Frame_Del	DEL	TCT	-	-	rs150726107	byFrequency	TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr15:72186069_72186071delTCT	uc002atl.3	-	26	5564_5566	c.5091_5093delAGA	c.(5089-5094)GAAGAT>GAT	p.E1697del	MYO9A_uc002atn.1_In_Frame_Del_p.E1678del|MYO9A_uc002atk.2_In_Frame_Del_p.E421del|MYO9A_uc002atm.1_In_Frame_Del_p.E421del	NM_006901	NP_008832	B2RTY4	MYO9A_HUMAN	myosin IXA	1697	Tail.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|visual perception	cytosol|integral to membrane|unconventional myosin complex	actin binding|ATP binding|GTPase activator activity|metal ion binding|motor activity			ovary(1)|pancreas(1)|skin(1)	3						TGCTGGTTCATCTTCTTTATGGA	0.355													---	---	---							
Unknown	0	broad.mit.edu	37	15	102521132	102521134	+	5'Flank	DEL	GTT	-	-			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr15:102521132_102521134delGTT	uc010utv.1	-						uc002cds.2_5'Flank|uc010utw.1_5'Flank					SubName: Full=DEAD/H box polypeptide 11 like 9;																		tagggttagggttgttagggtta	0.000													---	---	---							
Unknown	0	broad.mit.edu	37	16	32474224	32474236	+	IGR	DEL	GGGTCAGGGGTCA	-	-	rs148865151		TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr16:32474224_32474236delGGGTCAGGGGTCA								HERC2P4 (310350 upstream) : TP53TG3B (210605 downstream)																							caggggttaggggtcaggggtcagggtcagggt	0.019													---	---	---							
Unknown	0	broad.mit.edu	37	16	33537023	33537029	+	IGR	DEL	CCAACAA	-	-			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr16:33537023_33537029delCCAACAA								SLC6A10P (640560 upstream) : MIR1826 (428479 downstream)																							TATGTATTTTCCAACAATTTTTTTTCA	0.290													---	---	---							
Unknown	0	broad.mit.edu	37	16	73872662	73872663	+	IGR	DEL	TG	-	-			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr16:73872662_73872663delTG								HTA (744992 upstream) : PSMD7 (458018 downstream)																							tgtgtgtgtctgtgtgtgtgtg	0.337													---	---	---							
Unknown	0	broad.mit.edu	37	17	25293258	25293258	+	IGR	DEL	A	-	-			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr17:25293258delA								None (None upstream) : WSB1 (327848 downstream)																							tgaaatgaagaaatgatatga	0.000													---	---	---							
Unknown	0	broad.mit.edu	37	17	25303981	25303981	+	IGR	DEL	G	-	-	rs76252330		TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr17:25303981delG								None (None upstream) : WSB1 (317125 downstream)																							CTCAAGATTTGATCCCCATTA	0.308													---	---	---							
DDX52	11056	broad.mit.edu	37	17	36003614	36003614	+	5'Flank	DEL	T	-	-			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr17:36003614delT	uc002hoi.1	-						DDX52_uc002hoh.1_5'Flank|DDX52_uc002hoj.1_5'Flank	NM_007010	NP_008941	Q9Y2R4	DDX52_HUMAN	ATP-dependent RNA helicase ROK1 isoform a							nucleolus	ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)|skin(1)	2		Breast(25;0.00637)|Ovarian(249;0.15)				ATTAtttatcttttttttttt	0.244													---	---	---							
GJC1	10052	broad.mit.edu	37	17	42885797	42885798	+	5'Flank	DEL	AC	-	-	rs71908859		TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr17:42885797_42885798delAC	uc002ihj.2	-						GJC1_uc002ihk.2_Intron|GJC1_uc002ihl.2_Intron|GJC1_uc010czx.2_Intron	NM_005497	NP_005488	P36383	CXG1_HUMAN	connexin 45						cellular membrane organization|gap junction assembly|muscle contraction|synaptic transmission|transport	connexon complex|integral to membrane					0		Prostate(33;0.0959)				CCTGTCTCTTacacacacacac	0.198													---	---	---							
PRCD	768206	broad.mit.edu	37	17	74522974	74522974	+	5'Flank	DEL	G	-	-			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr17:74522974delG	uc002jrw.1	+									Q00LT1	PRCD_HUMAN	Homo sapiens cDNA FLJ43629 fis, clone SPLEN2029727.						response to stimulus|visual perception	cytoplasm|integral to membrane					0						GACAGGGGATGGGGCGCCCTT	0.697													---	---	---							
Unknown	0	broad.mit.edu	37	18	15390602	15390604	+	IGR	DEL	GTG	-	-	rs58894375		TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr18:15390602_15390604delGTG								LOC644669 (64684 upstream) : None (None downstream)																							aaacttcttcgtgatgtgtgcat	0.000													---	---	---							
Unknown	0	broad.mit.edu	37	18	76009007	76009008	+	IGR	INS	-	CA	CA	rs144948856	by1000genomes	TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr18:76009007_76009008insCA								None (None upstream) : SALL3 (731267 downstream)																							CAAacacacaccacacacacac	0.243													---	---	---							
Unknown	0	broad.mit.edu	37	18	77393756	77393761	+	IGR	DEL	TGATGA	-	-	rs150832904	by1000genomes	TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr18:77393756_77393761delTGATGA								NFATC1 (104434 upstream) : CTDP1 (46040 downstream)																							gtggtggtggtgatgatggtgctgat	0.000													---	---	---							
Unknown	0	broad.mit.edu	37	19	27736252	27736252	+	IGR	DEL	A	-	-			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr19:27736252delA								None (None upstream) : LOC148189 (545150 downstream)																							tagagatttcaagcgctttga	0.000													---	---	---							
Unknown	0	broad.mit.edu	37	19	27804793	27804793	+	IGR	DEL	T	-	-			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr19:27804793delT								None (None upstream) : LOC148189 (476609 downstream)																							cagaaactgctttgtgatgtg	0.000													---	---	---							
Unknown	0	broad.mit.edu	37	2	1601146	1601147	+	IGR	DEL	AC	-	-			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr2:1601146_1601147delAC								TPO (54648 upstream) : PXDN (34513 downstream)																							CACAGATCAGacacacacacac	0.064													---	---	---							
Unknown	0	broad.mit.edu	37	2	19934791	19934794	+	IGR	DEL	GAAA	-	-	rs72315540	by1000genomes	TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr2:19934791_19934794delGAAA								OSR1 (376419 upstream) : TTC32 (161724 downstream)																							aggaaggaaggaaagaaggaagga	0.064													---	---	---							
EMX1	2016	broad.mit.edu	37	2	73145275	73145276	+	Frame_Shift_Ins	INS	-	T	T			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr2:73145275_73145276insT	uc002sin.1	+	1	672_673	c.294_295insT	c.(292-297)GGCTTCfs	p.G98fs	EMX1_uc002sim.1_Intron	NM_004097	NP_004088	Q04741	EMX1_HUMAN	empty spiracles homolog 1	65_66						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						TCGTGAGTGGCTTCCCTgccgc	0.624													---	---	---							
Unknown	0	broad.mit.edu	37	2	91972760	91972760	+	IGR	DEL	A	-	-			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr2:91972760delA								GGT8P (2607 upstream) : FKSG73 (156399 downstream)																							tcgcaaggacaaaaaaccaaa	0.000													---	---	---							
Unknown	0	broad.mit.edu	37	2	133018714	133018715	+	IGR	DEL	GT	-	-	rs141065944		TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr2:133018714_133018715delGT								NCRNA00164 (3172 upstream) : GPR39 (155432 downstream)																							GGGCGGGGTGGTGGGGGGTGCC	0.530													---	---	---							
Unknown	0	broad.mit.edu	37	2	152051750	152051751	+	IGR	DEL	GT	-	-	rs111669920		TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr2:152051750_152051751delGT								RND3 (707570 upstream) : RBM43 (52978 downstream)																							gttgtgtggggtgtgtgtgtgt	0.213													---	---	---							
Unknown	0	broad.mit.edu	37	2	164420716	164420733	+	IGR	DEL	TGTGTGTGTGTGTGTGTG	-	-	rs66460371		TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr2:164420716_164420733delTGTGTGTGTGTGTGTGTG								KCNH7 (725476 upstream) : FIGN (43385 downstream)																							agcacCAAACtgtgtgtgtgtgtgtgtgtgtgtgtgtg	0.151													---	---	---							
Unknown	0	broad.mit.edu	37	21	10700284	10700285	+	IGR	INS	-	A	A	rs140927768		TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr21:10700284_10700285insA								None (None upstream) : TPTE (206458 downstream)																							ataaaaactagcaaaagcattc	0.000													---	---	---							
Unknown	0	broad.mit.edu	37	21	10701571	10701572	+	IGR	INS	-	T	T	rs62218597		TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr21:10701571_10701572insT								None (None upstream) : TPTE (205171 downstream)																							tggaaagagtcttttgtagtat	0.000													---	---	---							
Unknown	0	broad.mit.edu	37	21	10722937	10722937	+	IGR	DEL	C	-	-			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr21:10722937delC								None (None upstream) : TPTE (183806 downstream)																							gaagatgtttccccttaccac	0.000													---	---	---							
Unknown	0	broad.mit.edu	37	21	11175717	11175718	+	IGR	INS	-	A	A	rs75708488		TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr21:11175717_11175718insA								BAGE (76780 upstream) : None (None downstream)																							gactccatctcaaaaaaaaaaa	0.079													---	---	---							
Unknown	0	broad.mit.edu	37	21	14359936	14359939	+	IGR	DEL	TCAG	-	-	rs113039060		TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr21:14359936_14359939delTCAG								None (None upstream) : C21orf99 (50548 downstream)																							tcaaagccgctcagtcaaaaaatg	0.000													---	---	---							
Unknown	0	broad.mit.edu	37	21	28516210	28516211	+	IGR	DEL	GC	-	-	rs148404345		TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr21:28516210_28516211delGC								ADAMTS5 (176771 upstream) : NCRNA00113 (578487 downstream)																							CGGCCAGCGGGCGCGCGCGGAA	0.693													---	---	---							
Unknown	0	broad.mit.edu	37	21	47488974	47488975	+	IGR	INS	-	CACG	CACG	rs142862773	by1000genomes	TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr21:47488974_47488975insCACG								COL6A1 (64011 upstream) : COL6A2 (29058 downstream)																							gcatgtgtgcatgtgcacacgt	0.000													---	---	---							
Unknown	0	broad.mit.edu	37	22	43159382	43159383	+	IGR	INS	-	AG	AG	rs141437729	by1000genomes	TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr22:43159382_43159383insAG								A4GALT (42096 upstream) : ARFGAP3 (33149 downstream)																							tctcaaaaaacacaaacgcaac	0.000													---	---	---							
Unknown	0	broad.mit.edu	37	22	50777239	50777240	+	IGR	DEL	GT	-	-			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr22:50777239_50777240delGT								FAM116B (11750 upstream) : SAPS2 (4520 downstream)																							acggtgtctggtgtgtgtgtgt	0.000													---	---	---							
Unknown	0	broad.mit.edu	37	22	51082092	51082093	+	IGR	INS	-	CTTA	CTTA			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr22:51082092_51082093insCTTA								ARSA (15485 upstream) : SHANK3 (30977 downstream)																							tctgcactgatcttaggagcag	0.000													---	---	---							
Unknown	0	broad.mit.edu	37	3	13511388	13511391	+	IGR	DEL	TGTG	-	-	rs57237308	by1000genomes	TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr3:13511388_13511391delTGTG								NUP210 (49579 upstream) : HDAC11 (9833 downstream)																							ggcTGgtgtttgtgtgtgtgtgtg	0.010													---	---	---							
Unknown	0	broad.mit.edu	37	4	3665106	3665107	+	IGR	INS	-	GT	GT	rs144660287	by1000genomes	TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr4:3665106_3665107insGT								LRPAP1 (130882 upstream) : ADRA2C (102968 downstream)																							gtgtgagtgtagtgtgtgtgtg	0.000													---	---	---							
Unknown	0	broad.mit.edu	37	4	10994755	10994756	+	IGR	INS	-	CAC	CAC	rs150376675	by1000genomes	TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr4:10994755_10994756insCAC								CLNK (308369 upstream) : MIR572 (375695 downstream)																							gcgcgcgcgcgcacacacacac	0.000													---	---	---							
Unknown	0	broad.mit.edu	37	4	190563598	190563599	+	IGR	DEL	CG	-	-	rs66483179		TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr4:190563598_190563599delCG								None (None upstream) : FRG1 (298375 downstream)																							TCAGTTcatacgcacacacaca	0.188													---	---	---							
Unknown	0	broad.mit.edu	37	5	8209149	8209150	+	IGR	INS	-	GT	GT	rs139464776	by1000genomes	TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr5:8209149_8209150insGT								MTRR (307916 upstream) : SEMA5A (825988 downstream)																							gggcgtgtgtggtgtgtttctg	0.020													---	---	---							
Unknown	0	broad.mit.edu	37	5	78456039	78456040	+	IGR	INS	-	A	A			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr5:78456039_78456040insA								BHMT (27927 upstream) : JMY (75914 downstream)																							aactccatctcaaaaaaaaaaa	0.000													---	---	---							
MCC	4163	broad.mit.edu	37	5	112632624	112632624	+	5'Flank	DEL	A	-	-			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr5:112632624delA	uc003kqj.3	-						MCC_uc003kqk.3_Intron|MCC_uc003kql.3_Intron|MCC_uc011cwb.1_5'Flank|MCC_uc010jcd.1_5'Flank	NM_002387	NP_002378	P23508	CRCM_HUMAN	mutated in colorectal cancers isoform 2						negative regulation of canonical Wnt receptor signaling pathway|negative regulation of epithelial cell migration|negative regulation of epithelial cell proliferation|Wnt receptor signaling pathway	cytoplasm|nucleus|plasma membrane	protein binding|receptor activity			ovary(1)	1		all_cancers(142;5.89e-08)|all_epithelial(76;3.57e-11)|all_lung(232;0.000605)|Lung NSC(810;0.000697)|Colorectal(10;0.00146)|Prostate(80;0.00174)|Ovarian(225;0.0175)|Breast(839;0.198)		OV - Ovarian serous cystadenocarcinoma(64;2.04e-54)|Epithelial(69;9.69e-49)|all cancers(49;6.25e-44)|COAD - Colon adenocarcinoma(37;0.0432)|Colorectal(14;0.0766)		aaagaaaagtaatctgttcca	0.000													---	---	---							
Unknown	0	broad.mit.edu	37	5	176227620	176227621	+	IGR	DEL	GT	-	-			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr5:176227620_176227621delGT								TSPAN17 (141562 upstream) : UNC5A (9939 downstream)																							tgggtgtagggtgtgtgtgtat	0.035													---	---	---							
SLC22A16	85413	broad.mit.edu	37	6	110763501	110763509	+	In_Frame_Del	DEL	AAAACGAGT	-	-	rs149948718	by1000genomes	TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr6:110763501_110763509delAAAACGAGT	uc003puf.2	-	4	1188_1196	c.1121_1129delACTCGTTTT	c.(1120-1131)TACTCGTTTTCC>TCC	p.YSF374del	SLC22A16_uc003pue.2_In_Frame_Del_p.YSF355del	NM_033125	NP_149116	Q86VW1	S22AG_HUMAN	solute carrier family 22, member 16	374_376	Helical; (Potential).				acid secretion|cell differentiation|multicellular organismal development|single fertilization|sperm motility|spermatogenesis	integral to membrane	carnitine transporter activity			ovary(1)	1		all_cancers(87;0.00221)|Acute lymphoblastic leukemia(125;2.27e-07)|all_hematologic(75;1.38e-05)|all_epithelial(87;0.0485)|Colorectal(196;0.101)		OV - Ovarian serous cystadenocarcinoma(136;0.0513)|Epithelial(106;0.0921)|all cancers(137;0.115)		GAATTCAAGGAAAACGAGTAGAATCCCAA	0.378													---	---	---							
Unknown	0	broad.mit.edu	37	6	112277775	112277776	+	IGR	INS	-	GT	GT	rs144749595	by1000genomes	TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr6:112277775_112277776insGT								FYN (83148 upstream) : WISP3 (97502 downstream)																							gtcaccaaagagtgtgtgtgtg	0.000													---	---	---							
Unknown	0	broad.mit.edu	37	6	168792629	168792630	+	IGR	INS	-	C	C			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr6:168792629_168792630insC								DACT2 (72227 upstream) : SMOC2 (49401 downstream)																							ACCTGTCATGTCCTCATCCCCC	0.629													---	---	---							
Unknown	0	broad.mit.edu	37	7	1682878	1682879	+	IGR	INS	-	TTCC	TTCC			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr7:1682878_1682879insTTCC								TFAMP1 (26551 upstream) : ELFN1 (65919 downstream)																							tccttccttcattccttccttc	0.129													---	---	---							
Unknown	0	broad.mit.edu	37	7	34917961	34917961	+	IGR	DEL	T	-	-	rs113680136		TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr7:34917961delT								NPSR1 (17 upstream) : DPY19L1 (43120 downstream)																							tttttctttcttttttttttt	0.025													---	---	---							
Unknown	0	broad.mit.edu	37	7	100614717	100614717	+	IGR	DEL	T	-	-	rs66725827		TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr7:100614717delT								ACHE (120178 upstream) : MUC12 (33358 downstream)																							GGTGGGGGTCTCTGGAGCCCT	0.662													---	---	---							
Unknown	0	broad.mit.edu	37	7	145021353	145021354	+	IGR	INS	-	CA	CA			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr7:145021353_145021354insCA								TPK1 (488207 upstream) : CNTNAP2 (792099 downstream)																							acatgcgcatgcacacacacat	0.000													---	---	---							
Unknown	0	broad.mit.edu	37	8	41036613	41036622	+	IGR	DEL	GTGTGTGTGT	-	-			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr8:41036613_41036622delGTGTGTGTGT								ZMAT4 (281270 upstream) : SFRP1 (82857 downstream)																							CATCATAGGAgtgtgtgtgtgtgtgtgtgt	0.252													---	---	---							
Unknown	0	broad.mit.edu	37	8	123374387	123374388	+	IGR	INS	-	AC	AC	rs140185047	by1000genomes	TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr8:123374387_123374388insAC								HAS2AS (717454 upstream) : ZHX2 (419513 downstream)																							GGTGCCCAAATacacacacaca	0.218													---	---	---							
Unknown	0	broad.mit.edu	37	8	135234457	135234458	+	IGR	INS	-	AC	AC			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr8:135234457_135234458insAC								ST3GAL1 (650274 upstream) : ZFAT (255575 downstream)																							ataaagatcatacacacacaca	0.000													---	---	---							
Unknown	0	broad.mit.edu	37	9	68429586	68429587	+	IGR	INS	-	A	A	rs147846105		TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chr9:68429586_68429587insA								FAM27B (635397 upstream) : MIR1299 (572652 downstream)																							tcttgggggagaaaaaaaaaaG	0.178													---	---	---							
Unknown	0	broad.mit.edu	37	X	685933	685934	+	IGR	INS	-	C	C			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chrX:685933_685934insC								SHOX (65788 upstream) : CRLF2 (628953 downstream)																							GCAGGGACCCTCCCCACCTGAG	0.599													---	---	---							
Unknown	0	broad.mit.edu	37	X	40790341	40790342	+	IGR	INS	-	CA	CA			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chrX:40790341_40790342insCA								LOC100132831 (97892 upstream) : USP9X (154546 downstream)																							gcacgcgcgcgcacacacacac	0.000													---	---	---							
CXorf66	347487	broad.mit.edu	37	X	139047824	139047824	+	5'Flank	DEL	T	-	-			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chrX:139047824delT	uc004fbb.2	-							NM_001013403	NP_001013421	Q5JRM2	CX066_HUMAN	hypothetical protein LOC347487 precursor							integral to membrane					0						ACCAAATGACttttttttttt	0.174													---	---	---							
Unknown	0	broad.mit.edu	37	Y	13445914	13445915	+	IGR	INS	-	A	A			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chrY:13445914_13445915insA								None (None upstream) : None (None downstream)																							CTTCTCAGGACAAAAACAACaa	0.203													---	---	---							
Unknown	0	broad.mit.edu	37	Y	58974072	58974081	+	IGR	DEL	ATTCCATTCT	-	-			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chrY:58974072_58974081delATTCCATTCT								None (None upstream) : None (None downstream)																							aatccattccattccattctattccattcc	0.000													---	---	---							
Unknown	0	broad.mit.edu	37	Y	59013019	59013019	+	IGR	DEL	A	-	-	rs148494923		TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chrY:59013019delA								None (None upstream) : None (None downstream)																							gtctcaaaagaaaaaaaaaaT	0.189													---	---	---							
Unknown	0	broad.mit.edu	37	Y	59020028	59020028	+	IGR	DEL	T	-	-			TCGA-CV-5443-01A-01D-1512-08	TCGA-CV-5443-11A-01D-1512-08									Somatic	Phase_I	Capture				Illumina GAIIx	9d279797-4464-4ef5-8858-640978ccc258	a5384389-3040-4d43-be4e-4794a870ce18	g.chrY:59020028delT								None (None upstream) : None (None downstream)																							CTACATCGCATTTTTTTCCCC	0.428													---	---	---							
