Hugo_Symbol	Entrez_Gene_Id	Center	NCBI_Build	Chromosome	Start_position	End_position	Strand	Variant_Classification	Variant_Type	Reference_Allele	Tumor_Seq_Allele1	Tumor_Seq_Allele2	dbSNP_RS	dbSNP_Val_Status	Tumor_Sample_Barcode	Matched_Norm_Sample_Barcode	Match_Norm_Seq_Allele1	Match_Norm_Seq_Allele2	Tumor_Validation_Allele1	Tumor_Validation_Allele2	Match_Norm_Validation_Allele1	Match_Norm_Validation_Allele2	Verification_Status	Validation_Status	Mutation_Status	Sequencing_Phase	Sequence_Source	Validation_Method	Score	BAM_file	Sequencer	Tumor_Sample_UUID	Matched_Norm_Sample_UUID	Genome_Change	Annotation_Transcript	Transcript_Strand	Transcript_Exon	Transcript_Position	cDNA_Change	Codon_Change	Protein_Change	Other_Transcripts	Refseq_mRNA_Id	Refseq_prot_Id	SwissProt_acc_Id	SwissProt_entry_Id	Description	UniProt_AApos	UniProt_Region	UniProt_Site	UniProt_Natural_Variations	UniProt_Experimental_Info	GO_Biological_Process	GO_Cellular_Component	GO_Molecular_Function	COSMIC_overlapping_mutations	COSMIC_fusion_genes	COSMIC_tissue_types_affected	COSMIC_total_alterations_in_gene	Tumorscape_Amplification_Peaks	Tumorscape_Deletion_Peaks	TCGAscape_Amplification_Peaks	TCGAscape_Deletion_Peaks	DrugBank	ref_context	gc_content	CCLE_ONCOMAP_overlapping_mutations	CCLE_ONCOMAP_total_mutations_in_gene	CGC_Mutation_Type	CGC_Translocation_Partner	CGC_Tumor_Types_Somatic	CGC_Tumor_Types_Germline	CGC_Other_Diseases	DNARepairGenes_Role	FamilialCancerDatabase_Syndromes	MUTSIG_Published_Results	OREGANNO_ID	OREGANNO_Values	t_alt_count	t_ref_count	validation_status	validation_method	validation_tumor_sample	validation_alt_allele	pox	qox	pox_cutoff	isArtifactMode	oxoGCut
MEGF6	1953	broad.mit.edu	37	1	3413612	3413612	+	Missense_Mutation	SNP	G	C	C			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr1:3413612G>C	uc001akl.2	-	28	3780	c.3553C>G	c.(3553-3555)CAC>GAC	p.H1185D	MEGF6_uc001akk.2_Intron	NM_001409	NP_001400	O75095	MEGF6_HUMAN	EGF-like-domain, multiple 3 precursor	1185						extracellular region	calcium ion binding			large_intestine(1)	1	all_cancers(77;0.00681)|all_epithelial(69;0.00301)|Ovarian(185;0.0634)|Lung NSC(156;0.0969)|all_lung(157;0.105)	all_epithelial(116;7.41e-22)|all_lung(118;8.3e-09)|Lung NSC(185;3.55e-06)|Breast(487;0.000659)|Renal(390;0.00121)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Lung SC(97;0.0262)|Ovarian(437;0.0308)|Medulloblastoma(700;0.211)		Epithelial(90;3.78e-37)|OV - Ovarian serous cystadenocarcinoma(86;6.86e-22)|GBM - Glioblastoma multiforme(42;1.96e-12)|Colorectal(212;6.15e-05)|COAD - Colon adenocarcinoma(227;0.000241)|Kidney(185;0.000448)|BRCA - Breast invasive adenocarcinoma(365;0.000779)|KIRC - Kidney renal clear cell carcinoma(229;0.00645)|STAD - Stomach adenocarcinoma(132;0.00669)|Lung(427;0.213)		GTGGCAGGGTGGCAGGCCGGG	0.692000													3	18					0	0	0.004672	0	0
LOC645166	645166	broad.mit.edu	37	1	148933289	148933289	+	Splice_Site	SNP	A	G	G	rs9729175	by1000genomes	TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr1:148933289A>G	uc010pbc.1	+	3		c.236_splice	c.e3-2		LOC645166_uc010pbd.1_Intron|LOC645166_uc009wkw.1_Splice_Site	NR_027355				Homo sapiens cDNA, FLJ18771.												0						TGCTGCCCGCAGGATATTGTG	0.562000													9	67					0	0	0.008291	0	0
MYST4	23522	broad.mit.edu	37	10	76789141	76789141	+	Missense_Mutation	SNP	G	C	C			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr10:76789141G>C	uc001jwn.1	+	18	5052	c.4559G>C	c.(4558-4560)AGC>ACC	p.S1520T	MYST4_uc001jwo.1_Missense_Mutation_p.S1228T|MYST4_uc001jwp.1_Missense_Mutation_p.S1337T	NM_012330	NP_036462	Q8WYB5	MYST4_HUMAN	MYST histone acetyltransferase (monocytic	1520					histone H3 acetylation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription factor binding|zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|breast(2)|skin(1)|prostate(1)	16	all_cancers(46;0.0347)|all_epithelial(25;0.00236)|Prostate(51;0.0112)|Ovarian(15;0.0964)					CAAAAGAACAGCAAGGAAGTC	0.552000			T	CREBBP	AML								12	268					0	0	0.010729	0	0
FAM55B	120406	broad.mit.edu	37	11	114568942	114568942	+	Missense_Mutation	SNP	T	C	C	rs11215158	by1000genomes	TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr11:114568942T>C	uc009yyy.2	+	3	406	c.308T>C	c.(307-309)GTG>GCG	p.V103A		NM_182495	NP_872301	Q96DL1	FA55B_HUMAN	hypothetical protein LOC120406	103						integral to membrane				ovary(1)	1						TTCACCCATGTGAATACCACC	0.512000													10	223					0	0	0.006214	0	0
Unknown	0	broad.mit.edu	37	12	92040	92040	+	Nonsense_Mutation	SNP	G	T	T			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr12:92040G>T	uc010sdi.1	-	2	298	c.270C>A	c.(268-270)TGC>TGA	p.C90*	uc010sdj.1_RNA					SubName: Full=DEAD/H box polypeptide 11 like 11;																		CACCTTTGTAGCAGGATCCCT	0.587000													12	51					0.000978159	0.0011179	0.010729	1	0
UPF3A	65110	broad.mit.edu	37	13	115047559	115047559	+	Silent	SNP	C	T	T			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr13:115047559C>T	uc001vup.2	+	2	308	c.271C>T	c.(271-273)CTG>TTG	p.L91L	UPF3A_uc010tkn.1_Silent_p.L91L|UPF3A_uc001vuq.2_Silent_p.L91L|UPF3A_uc001vus.2_RNA|UPF3A_uc001vur.2_RNA	NM_023011	NP_075387	Q9H1J1	REN3A_HUMAN	UPF3 regulator of nonsense transcripts homolog A	91	Required for interaction with UPF2.				mRNA transport|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|positive regulation of translation	cytoplasm|nucleus|plasma membrane	nucleocytoplasmic transporter activity|nucleotide binding|protein binding|RNA binding			skin(1)	1	Lung NSC(43;0.00299)|all_neural(89;0.0337)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0191)|all_epithelial(44;0.00716)|all_lung(25;0.0173)|Lung NSC(25;0.0634)|Breast(118;0.238)	BRCA - Breast invasive adenocarcinoma(86;0.0886)	OV - Ovarian serous cystadenocarcinoma(48;0.195)|Epithelial(10;0.2)		GCTGCGCCCGCTGCCAGCACA	0.731000													3	33					0	0	0.004672	0	0
Unknown	0	broad.mit.edu	37	16	70268158	70268158	+	RNA	SNP	A	C	C			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr16:70268158A>C	uc010cfp.1	-	3		c.257T>G								Homo sapiens cDNA, FLJ98908.																		TTCTTCATTAAAACAGCTACT	0.333000													3	34					0	0	0.004672	0	0
FCGBP	8857	broad.mit.edu	37	19	40396062	40396062	+	Silent	SNP	G	A	A			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr19:40396062G>A	uc002omp.3	-	15	7343	c.7335C>T	c.(7333-7335)TGC>TGT	p.C2445C		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	2445						extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			CCACGGCCACGCAGCCCAAGC	0.677000													6	76					0	0	0.013537	0	0
ZNF320	162967	broad.mit.edu	37	19	53367338	53367338	+	RNA	SNP	G	A	A	rs4803014	by1000genomes	TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr19:53367338G>A	uc010eqh.1	-	3		c.339C>T			ZNF320_uc010eqi.1_RNA			A2RRD8	ZN320_HUMAN	Homo sapiens full length insert cDNA clone ZD42C02.						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.0534)		TGTATAAAGCGTTCTGTGCAG	0.448000													10	173					0	0	0.008291	0	0
ANKRD36B	57730	broad.mit.edu	37	2	98201826	98201826	+	Missense_Mutation	SNP	G	A	A			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr2:98201826G>A	uc010yvc.1	-	2	477	c.197C>T	c.(196-198)CCG>CTG	p.P66L	ANKRD36B_uc010yve.1_RNA|ANKRD36B_uc010fif.2_RNA	NM_025190	NP_079466	Q8N2N9	AN36B_HUMAN	ankyrin repeat domain 36B	66	ANK 2.										0						TACCATTTCCGGTTGGCCAGT	0.453000													4	38					0	0	0.003080	0	0
POM121L9P	29774	broad.mit.edu	37	22	24659675	24659675	+	RNA	SNP	G	A	A			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr22:24659675G>A	uc002zzs.3	+	7		c.3407G>A			uc011ajp.1_5'Flank	NR_003714				Homo sapiens mRNA; cDNA DKFZp434P211 (from clone DKFZp434P211).												0						ATGCCTCGGCGCTCGATCTCC	0.622000													7	48					0	0	0.010729	0	0
MUC4	4585	broad.mit.edu	37	3	195505836	195505836	+	Missense_Mutation	SNP	G	C	C			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr3:195505836G>C	uc011bto.1	-	3	12691	c.12231C>G	c.(12229-12231)CAC>CAG	p.H4077Q	MUC4_uc003fva.2_5'Flank|MUC4_uc003fvb.2_5'Flank|MUC4_uc003fvc.2_5'Flank|MUC4_uc003fvd.2_5'Flank|MUC4_uc003fve.2_5'Flank|MUC4_uc010hzr.2_5'Flank|MUC4_uc011btf.1_Intron|MUC4_uc011btg.1_Intron|MUC4_uc011bth.1_Intron|MUC4_uc011bti.1_Intron|MUC4_uc011btj.1_Intron|MUC4_uc011btk.1_Intron|MUC4_uc011btl.1_Intron|MUC4_uc011btm.1_Intron|MUC4_uc011btn.1_Intron|MUC4_uc003fvo.2_Intron|MUC4_uc003fvp.2_Intron|MUC4_uc010hzu.1_Intron	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		GAGGGGTGGCGTGACCTGTGG	0.597000													4	14					0	0	0.009096	0	0
Unknown	0	broad.mit.edu	37	9	68414289	68414289	+	RNA	SNP	C	T	T			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr9:68414289C>T	uc004aex.2	+	1		c.844C>T								Homo sapiens mRNA; cDNA DKFZp564N0763 (from clone DKFZp564N0763).																		ggaagacttgcaagtctctca	0.149000													3	10					0	0	0.001168	0	0
MAGEA12	4111	broad.mit.edu	37	X	151896231	151896231	+	RNA	SNP	A	G	G			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chrX:151896231A>G	uc004fgb.2	-	4		c.536T>C						P43365	MAGAC_HUMAN	Homo sapiens melanoma antigen family A, 12, mRNA (cDNA clone MGC:4914 IMAGE:3450217), complete cds.											skin(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)					GAGTGGCTGGATAGTGTTGGC	0.517000													7	72					0	0	0.010771	0	0
JAK1	3716	broad.mit.edu	37	1	65306996	65306997	+	Frame_Shift_Ins	INS	-	T	T			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr1:65306996_65306997insT	uc001dbu.1	-	19	2829_2830	c.2580_2581insA	c.(2578-2583)AAACCAfs	p.K860fs	JAK1_uc009wam.1_Frame_Shift_Ins_p.K848fs|JAK1_uc009wal.1_Frame_Shift_Ins_p.K37fs	NM_002227	NP_002218	P23458	JAK1_HUMAN	janus kinase 1	860_861					interferon-gamma-mediated signaling pathway|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|response to antibiotic|type I interferon-mediated signaling pathway	cytoskeleton|cytosol|endomembrane system|membrane|nucleus	ATP binding|growth hormone receptor binding|non-membrane spanning protein tyrosine kinase activity			haematopoietic_and_lymphoid_tissue(34)|prostate(7)|soft_tissue(6)|lung(4)|breast(3)|central_nervous_system(2)|liver(2)|large_intestine(1)|stomach(1)|ovary(1)	61				BRCA - Breast invasive adenocarcinoma(111;0.0485)		TCAGTTGCTGGTTTTTTTTCTG	0.470			Mis		ALL								7	393	---	---	---	---					
SV2A	9900	broad.mit.edu	37	1	149885223	149885225	+	In_Frame_Del	DEL	TCA	-	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr1:149885223_149885225delTCA	uc001etg.2	-	2	659_661	c.168_170delTGA	c.(166-171)GATGAC>GAC	p.56_57DD>D	SV2A_uc001eth.2_In_Frame_Del_p.56_57DD>D	NM_014849	NP_055664	Q7L0J3	SV2A_HUMAN	synaptic vesicle glycoprotein 2	56_57	Cytoplasmic (Potential).|Interaction with SYT1 (By similarity).				neurotransmitter transport	cell junction|endoplasmic reticulum|integral to membrane|synaptic vesicle membrane	transmembrane transporter activity			ovary(6)|pancreas(1)	7	Breast(34;0.00769)|all_hematologic(923;0.127)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.221)|STAD - Stomach adenocarcinoma(528;0.247)		Levetiracetam(DB01202)	AGCAGGGAAGTCATCATCATCAT	0.542													7	373	---	---	---	---					
ZMIZ1	57178	broad.mit.edu	37	10	81072446	81072446	+	Frame_Shift_Del	DEL	C	-	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr10:81072446delC	uc001kaf.2	+	25	3716	c.3144delC	c.(3142-3144)GACfs	p.D1048fs	ZMIZ1_uc001kag.2_Frame_Shift_Del_p.D924fs|ZMIZ1_uc010qlq.1_Frame_Shift_Del_p.D114fs	NM_020338	NP_065071	Q9ULJ6	ZMIZ1_HUMAN	retinoic acid induced 17	1048					transcription, DNA-dependent	cytoplasm|nuclear speck	zinc ion binding			ovary(2)|breast(1)|skin(1)	4	all_cancers(46;0.0292)|Breast(12;8.52e-05)|all_epithelial(25;0.000854)|Prostate(51;0.00985)		Epithelial(14;0.00256)|all cancers(16;0.00726)|Colorectal(32;0.229)			CTTATCTGGACCCCCCCGACC	0.557													7	901	---	---	---	---					
SLK	9748	broad.mit.edu	37	10	105727547	105727549	+	In_Frame_Del	DEL	AGA	-	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr10:105727547_105727549delAGA	uc001kxo.1	+	1	78_80	c.44_46delAGA	c.(43-48)GAGAAG>GAG	p.K19del	SLK_uc001kxp.1_In_Frame_Del_p.K19del	NM_014720	NP_055535	Q9H2G2	SLK_HUMAN	serine/threonine kinase 2	19	Poly-Lys.				apoptosis|nucleotide-excision repair	cytoplasm|plasma membrane	ATP binding|DNA binding|nuclease activity|protein serine/threonine kinase activity			ovary(2)|stomach(2)|skin(2)|lung(1)|kidney(1)	8		Colorectal(252;0.178)		Epithelial(162;5.81e-10)|all cancers(201;2.35e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0165)		TTGGGGAGCGAGAAGAAGAAGAA	0.448													8	405	---	---	---	---					
ROBO3	64221	broad.mit.edu	37	11	124750448	124750453	+	In_Frame_Del	DEL	CGGAGT	-	-	rs71859853		TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr11:124750448_124750453delCGGAGT	uc001qbc.2	+	27	4285_4290	c.4093_4098delCGGAGT	c.(4093-4098)CGGAGTdel	p.RS1367del	ROBO3_uc001qbd.2_In_Frame_Del_p.RS292del|ROBO3_uc010sar.1_In_Frame_Del_p.RS416del|ROBO3_uc001qbe.2_In_Frame_Del_p.RS292del|ROBO3_uc001qbf.1_In_Frame_Del_p.RS251del	NM_022370	NP_071765	Q96MS0	ROBO3_HUMAN	roundabout, axon guidance receptor, homolog 3	1367_1368	Cytoplasmic (Potential).				axon midline choice point recognition	integral to membrane	receptor activity			breast(1)|central_nervous_system(1)	2	all_hematologic(175;0.215)	Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|Breast(109;0.0481)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0296)		TGgccggagccggagtcggagtcaga	0.519													11	15	---	---	---	---					
MYO1A	4640	broad.mit.edu	37	12	57422572	57422573	+	Frame_Shift_Ins	INS	-	T	T			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr12:57422572_57422573insT	uc001smw.3	-	28	3341_3342	c.3098_3099insA	c.(3097-3099)AAGfs	p.K1033fs	MYO1A_uc010sqz.1_Frame_Shift_Ins_p.K871fs|MYO1A_uc009zpd.2_Frame_Shift_Ins_p.K1033fs	NM_005379	NP_005370	Q9UBC5	MYO1A_HUMAN	myosin IA	1033					sensory perception of sound|vesicle localization	brush border|cortical actin cytoskeleton|filamentous actin|lateral plasma membrane|microvillus|myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|urinary_tract(1)	7						AATGACTCCCCTTTTTTTTGTA	0.559													12	362	---	---	---	---					
ACIN1	22985	broad.mit.edu	37	14	23528502	23528503	+	Frame_Shift_Del	DEL	TC	-	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr14:23528502_23528503delTC	uc001wit.3	-	19	4208_4209	c.3880_3881delGA	c.(3880-3882)GAAfs	p.E1294fs	CDH24_uc001wil.2_5'Flank|CDH24_uc010akf.2_5'Flank|CDH24_uc001win.3_5'Flank|ACIN1_uc001wio.3_RNA|ACIN1_uc001wip.3_Frame_Shift_Del_p.E536fs|ACIN1_uc001wiq.3_Frame_Shift_Del_p.E536fs|ACIN1_uc001wir.3_Frame_Shift_Del_p.E567fs|ACIN1_uc001wis.3_Frame_Shift_Del_p.E975fs|ACIN1_uc010akg.2_Frame_Shift_Del_p.E1281fs	NM_014977	NP_055792	Q9UKV3	ACINU_HUMAN	apoptotic chromatin condensation inducer 1	1294	Arg/Asp/Glu/Lys-rich.				apoptotic chromosome condensation|erythrocyte differentiation|positive regulation of monocyte differentiation	cytosol	ATPase activity|enzyme binding|nucleic acid binding|nucleotide binding			ovary(2)|large_intestine(1)|skin(1)	4	all_cancers(95;1.36e-05)			GBM - Glioblastoma multiforme(265;0.00816)		ccgctccctttctctctctctc	0.436											OREG0022595	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	172	---	---	---	---					
TCF12	6938	broad.mit.edu	37	15	57489984	57489984	+	Frame_Shift_Del	DEL	A	-	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr15:57489984delA	uc002aec.2	+	8	824	c.540delA	c.(538-540)GCAfs	p.A180fs	TCF12_uc010ugm.1_Frame_Shift_Del_p.A232fs|TCF12_uc010ugn.1_Frame_Shift_Del_p.A176fs|TCF12_uc002aea.2_Frame_Shift_Del_p.A180fs|TCF12_uc010bfs.2_Intron|TCF12_uc002aeb.2_Frame_Shift_Del_p.A180fs|TCF12_uc002aed.2_Frame_Shift_Del_p.A180fs	NM_207038	NP_996921	Q99081	HTF4_HUMAN	transcription factor 12 isoform b	180					immune response|muscle organ development|regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(5)|ovary(2)|lung(1)	8		Colorectal(260;0.0907)		all cancers(107;0.000313)|GBM - Glioblastoma multiforme(80;0.00878)|STAD - Stomach adenocarcinoma(283;0.239)		CCTTGCAAGCAAAAAAAGTCA	0.343			T	TEC	extraskeletal myxoid chondrosarcoma								8	338	---	---	---	---					
KDM6B	23135	broad.mit.edu	37	17	7750177	7750178	+	In_Frame_Ins	INS	-	ACCACC	ACCACC			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr17:7750177_7750178insACCACC	uc002giw.1	+	9	1128_1129	c.752_753insACCACC	c.(751-753)TTA>TTACCACCA	p.263_264insPP	KDM6B_uc002gix.2_5'Flank	NM_001080424	NP_001073893	O15054	KDM6B_HUMAN	lysine (K)-specific demethylase 6B	263_264	Pro-rich.				inflammatory response	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			central_nervous_system(1)|pancreas(1)	2						ccaccaccattaccaccaccac	0.426													7	61	---	---	---	---					
HAMP	57817	broad.mit.edu	37	19	35773520	35773522	+	In_Frame_Del	DEL	CTC	-	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr19:35773520_35773522delCTC	uc002nyw.2	+	1	111_113	c.40_42delCTC	c.(40-42)CTCdel	p.L18del		NM_021175	NP_066998	P81172	HEPC_HUMAN	hepcidin antimicrobial peptide preproprotein	18					defense response to bacterium|defense response to fungus|immune response|killing of cells of other organism	extracellular region	hormone activity			central_nervous_system(1)	1	all_lung(56;2.37e-08)|Lung NSC(56;3.66e-08)|Esophageal squamous(110;0.162)		Epithelial(14;7.4e-20)|OV - Ovarian serous cystadenocarcinoma(14;6.47e-19)|all cancers(14;4.17e-17)|LUSC - Lung squamous cell carcinoma(66;0.0417)			TTGCCTCCTGCTCCTCCTCCTCC	0.640													10	630	---	---	---	---					
FUZ	80199	broad.mit.edu	37	19	50310483	50310485	+	In_Frame_Del	DEL	CAG	-	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr19:50310483_50310485delCAG	uc002ppq.1	-	11	1285_1287	c.1180_1182delCTG	c.(1180-1182)CTGdel	p.L394del	FUZ_uc002ppr.1_In_Frame_Del_p.L294del|FUZ_uc002pps.1_RNA|FUZ_uc002ppt.1_RNA|FUZ_uc002ppu.1_In_Frame_Del_p.L358del|FUZ_uc002ppv.1_In_Frame_Del_p.L344del	NM_025129	NP_079405	Q9BT04	FUZZY_HUMAN	fuzzy homolog	394	Leu-rich.				cilium assembly|embryonic body morphogenesis|embryonic skeletal system morphogenesis|establishment of planar polarity|hair follicle development|neural tube closure|protein transport|regulation of smoothened signaling pathway	cytoplasm|cytoskeleton					0		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.107)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00793)|GBM - Glioblastoma multiforme(134;0.0116)		TCTGGGGAGACAGCAGCAGCAGC	0.635													8	167	---	---	---	---					
ATP6V1C2	245973	broad.mit.edu	37	2	10917819	10917820	+	Frame_Shift_Del	DEL	AG	-	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr2:10917819_10917820delAG	uc002ras.2	+	11	1043_1044	c.934_935delAG	c.(934-936)AGAfs	p.R312fs	ATP6V1C2_uc002rat.2_Intron	NM_001039362	NP_001034451	Q8NEY4	VATC2_HUMAN	vacuolar H+ ATPase C2 isoform a	312					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytosol|proton-transporting V-type ATPase, V1 domain				ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			Epithelial(75;0.15)|OV - Ovarian serous cystadenocarcinoma(76;0.152)		GCAGACCGACAGAGAGAGAGAG	0.604													8	324	---	---	---	---					
VRK2	7444	broad.mit.edu	37	2	58373509	58373509	+	Frame_Shift_Del	DEL	A	-	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr2:58373509delA	uc002rzo.2	+	15	1827	c.1082delA	c.(1081-1083)GAAfs	p.E361fs	VRK2_uc010fcb.2_Frame_Shift_Del_p.E361fs|VRK2_uc002rzs.2_Frame_Shift_Del_p.E361fs|VRK2_uc002rzr.2_Frame_Shift_Del_p.E361fs|VRK2_uc010fcc.2_Frame_Shift_Del_p.E243fs|VRK2_uc002rzv.2_Frame_Shift_Del_p.E361fs|VRK2_uc010fcd.2_Frame_Shift_Del_p.E338fs|VRK2_uc002rzp.2_Frame_Shift_Del_p.E361fs|VRK2_uc010ypg.1_Frame_Shift_Del_p.E361fs|VRK2_uc002rzq.2_Frame_Shift_Del_p.E361fs|VRK2_uc002rzu.2_Frame_Shift_Del_p.E361fs|VRK2_uc002rzt.2_Frame_Shift_Del_p.E243fs	NM_001130482	NP_001123954	Q86Y07	VRK2_HUMAN	vaccinia related kinase 2 isoform 2	361						integral to membrane	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(1)	1						AGGTTAATCGAAAAAAAAGTC	0.383													7	231	---	---	---	---					
BCL11A	53335	broad.mit.edu	37	2	60689253	60689254	+	Frame_Shift_Ins	INS	-	G	G			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr2:60689253_60689254insG	uc002sae.1	-	4	1021_1022	c.793_794insC	c.(793-795)CTGfs	p.L265fs	BCL11A_uc002sab.2_Frame_Shift_Ins_p.L265fs|BCL11A_uc002sac.2_Intron|BCL11A_uc010ypi.1_Intron|BCL11A_uc010ypj.1_Frame_Shift_Ins_p.L231fs|BCL11A_uc002sad.1_Frame_Shift_Ins_p.L113fs|BCL11A_uc002saf.1_Frame_Shift_Ins_p.L231fs	NM_022893	NP_075044	Q9H165	BC11A_HUMAN	B-cell CLL/lymphoma 11A isoform 1	265	Pro-rich.				negative regulation of axon extension|negative regulation of collateral sprouting|negative regulation of dendrite development|positive regulation of collateral sprouting|positive regulation of neuron projection development|positive regulation of transcription from RNA polymerase II promoter|protein sumoylation|regulation of dendrite development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|cytoplasm|nucleus|nucleus	nucleic acid binding|protein heterodimerization activity|protein homodimerization activity|zinc ion binding			central_nervous_system(6)|breast(3)|ovary(2)|skin(2)	13			LUSC - Lung squamous cell carcinoma(5;9.29e-08)|Lung(5;1.34e-06)|Epithelial(17;0.0562)|all cancers(80;0.199)			TGGACTAAACAGGGGGGGAGTG	0.584			T	IGH@	B-CLL								7	185	---	---	---	---					
FMNL2	114793	broad.mit.edu	37	2	153504389	153504390	+	Frame_Shift_Del	DEL	TT	-	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr2:153504389_153504390delTT	uc002tye.2	+	26	3616_3617	c.3249_3250delTT	c.(3247-3252)CGTTCTfs	p.R1083fs	FMNL2_uc010fob.2_3'UTR|FMNL2_uc002tyf.2_3'UTR	NM_052905	NP_443137	Q96PY5	FMNL2_HUMAN	formin-like 2	Error:Variant_position_missing_in_Q96PY5_after_alignment					actin cytoskeleton organization	cytoplasm	actin binding|Rho GTPase binding			central_nervous_system(2)|ovary(1)	3						AGAACTTGCGTTCTGTTAATGG	0.495													10	637	---	---	---	---					
DOCK10	55619	broad.mit.edu	37	2	225729790	225729790	+	Frame_Shift_Del	DEL	A	-	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr2:225729790delA	uc010fwz.1	-	12	1511	c.1272delT	c.(1270-1272)TTTfs	p.F424fs	DOCK10_uc002vob.2_Frame_Shift_Del_p.F418fs|DOCK10_uc002vod.1_Frame_Shift_Del_p.F424fs	NM_014689	NP_055504	Q96BY6	DOC10_HUMAN	dedicator of cytokinesis 10	424							GTP binding			ovary(2)	2		Renal(207;0.0113)|all_lung(227;0.0486)|Lung NSC(271;0.0653)|all_hematologic(139;0.14)		Epithelial(121;2.37e-10)|all cancers(144;2.26e-07)|Lung(261;0.0143)|LUSC - Lung squamous cell carcinoma(224;0.0178)		CCACACTCACAAAAAAAGGCT	0.398													7	371	---	---	---	---					
DSTN	11034	broad.mit.edu	37	20	17581679	17581680	+	Frame_Shift_Ins	INS	-	T	T			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr20:17581679_17581680insT	uc002wpr.2	+	2	555_556	c.300_301insT	c.(298-303)ATGTTTfs	p.M100fs	DSTN_uc002wpq.2_Frame_Shift_Ins_p.M83fs|DSTN_uc010gck.2_Frame_Shift_Ins_p.M83fs	NM_006870	NP_006861	P60981	DEST_HUMAN	destrin isoform a	100_101	ADF-H.				actin filament severing|actin polymerization or depolymerization		actin binding			large_intestine(1)|skin(1)	2						AAGAGTTGATGTTTTTTTTGTG	0.356													8	279	---	---	---	---					
C21orf99	149992	broad.mit.edu	37	21	14439225	14439226	+	RNA	INS	-	A	A			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr21:14439225_14439226insA	uc002yja.3	+	10		c.2743_2744insA				NR_026916				Homo sapiens C21orf99 protein (C21orf99) mRNA, complete cds.												0						TATATTAAATGAAAAATTAGGG	0.287													7	57	---	---	---	---					
ARFGAP3	26286	broad.mit.edu	37	22	43218401	43218401	+	Frame_Shift_Del	DEL	T	-	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr22:43218401delT	uc003bdd.2	-	9	907	c.687delA	c.(685-687)AAAfs	p.K229fs	ARFGAP3_uc010gzf.2_Frame_Shift_Del_p.K185fs|ARFGAP3_uc011apu.1_Frame_Shift_Del_p.K157fs	NM_014570	NP_055385	Q9NP61	ARFG3_HUMAN	ADP-ribosylation factor GTPase activating	229					intracellular protein transport|protein secretion|regulation of ARF GTPase activity|vesicle-mediated transport	cytosol|Golgi membrane	ARF GTPase activator activity|protein transporter activity|zinc ion binding			breast(1)	1						CCAAACTTCCTTTTTTGGCCC	0.353													7	511	---	---	---	---					
MYLK	4638	broad.mit.edu	37	3	123368043	123368044	+	Splice_Site	INS	-	G	G	rs41431347		TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr3:123368043_123368044insG	uc003ego.2	-	25	4571	c.4289_splice	c.e25-1	p.E1430_splice	MYLK_uc010hrr.2_Splice_Site|MYLK_uc011bjv.1_Splice_Site_p.E230_splice|MYLK_uc011bjw.1_Splice_Site_p.E1430_splice|MYLK_uc003egp.2_Splice_Site_p.E1361_splice|MYLK_uc003egq.2_Splice_Site_p.E1430_splice|MYLK_uc003egr.2_Splice_Site_p.E1361_splice|MYLK_uc003egs.2_Splice_Site_p.E1254_splice	NM_053025	NP_444253	Q15746	MYLK_HUMAN	myosin light chain kinase isoform 1						aorta smooth muscle tissue morphogenesis|muscle contraction	cytosol	actin binding|ATP binding|calmodulin binding|metal ion binding|myosin light chain kinase activity			ovary(6)|skin(2)|stomach(1)	9		Lung NSC(201;0.0496)		GBM - Glioblastoma multiforme(114;0.0736)		CCTTCGGCTCTGGGGGGGGCAC	0.624													8	354	---	---	---	---					
PCDHB14	56122	broad.mit.edu	37	5	140605423	140605423	+	Frame_Shift_Del	DEL	T	-	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr5:140605423delT	uc003ljb.2	+	1	2346	c.2346delT	c.(2344-2346)AATfs	p.N782fs	PCDHB14_uc011dal.1_Frame_Shift_Del_p.N629fs	NM_018934	NP_061757	Q9Y5E9	PCDBE_HUMAN	protocadherin beta 14 precursor	782	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CTGGTAGGAATATGGGGGAAA	0.368													9	328	---	---	---	---					
KIAA1009	22832	broad.mit.edu	37	6	84896233	84896233	+	Frame_Shift_Del	DEL	A	-	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr6:84896233delA	uc010kbp.2	-	12	1315	c.1218delT	c.(1216-1218)TTTfs	p.F406fs	KIAA1009_uc003pkj.3_Frame_Shift_Del_p.F330fs|KIAA1009_uc003pkk.2_Frame_Shift_Del_p.F406fs|KIAA1009_uc003pki.3_5'UTR	NM_014895	NP_055710	Q5TB80	QN1_HUMAN	KIAA1009 protein	406					cell division|mitosis	centrosome|nucleus|plasma membrane|spindle	protein binding			ovary(1)	1		all_cancers(76;1.5e-06)|Acute lymphoblastic leukemia(125;2.69e-07)|all_hematologic(105;0.000151)|all_epithelial(107;0.00258)		BRCA - Breast invasive adenocarcinoma(397;0.089)		CATTTTTGTCAAAAAAAAGGT	0.358													8	481	---	---	---	---					
PEX1	5189	broad.mit.edu	37	7	92146721	92146721	+	Frame_Shift_Del	DEL	T	-	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr7:92146721delT	uc003uly.2	-	5	1204	c.1108delA	c.(1108-1110)ATTfs	p.I370fs	PEX1_uc011khr.1_Frame_Shift_Del_p.I162fs|PEX1_uc010ley.2_Frame_Shift_Del_p.I370fs|PEX1_uc011khs.1_Intron|PEX1_uc011kht.1_RNA	NM_000466	NP_000457	O43933	PEX1_HUMAN	peroxin1	370					microtubule-based peroxisome localization|protein import into peroxisome matrix	cytosol|nucleus|peroxisomal membrane	ATP binding|ATPase activity, coupled|protein C-terminus binding|protein complex binding			ovary(1)|central_nervous_system(1)	2	all_cancers(62;9.35e-11)|all_epithelial(64;4.59e-10)|Breast(17;0.00201)|all_lung(186;0.0438)|Lung NSC(181;0.0592)	Breast(660;0.000932)|all_neural(109;0.00391)|Myeloproliferative disorder(862;0.0122)|Ovarian(593;0.023)|Medulloblastoma(109;0.123)	GBM - Glioblastoma multiforme(5;4.06e-06)|STAD - Stomach adenocarcinoma(4;4.51e-05)|all cancers(6;5.32e-05)|LUSC - Lung squamous cell carcinoma(200;0.225)|Lung(22;0.23)			TCTGACCTAATTTTTTTTTGA	0.353													7	482	---	---	---	---					
SFRP1	6422	broad.mit.edu	37	8	41166638	41166640	+	In_Frame_Del	DEL	GCT	-	-	rs3055861		TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr8:41166638_41166640delGCT	uc003xnt.2	-	1	341_343	c.39_41delAGC	c.(37-42)GCAGCC>GCC	p.13_14AA>A		NM_003012	NP_003003	Q8N474	SFRP1_HUMAN	secreted frizzled-related protein 1 precursor	13_14				Missing (in Ref. 1 and 3).	brain development|canonical Wnt receptor signaling pathway|cellular response to BMP stimulus|cellular response to estradiol stimulus|cellular response to fibroblast growth factor stimulus|cellular response to heparin|cellular response to hypoxia|cellular response to interleukin-1|cellular response to prostaglandin E stimulus|cellular response to starvation|cellular response to transforming growth factor beta stimulus|cellular response to tumor necrosis factor|cellular response to vitamin D|DNA fragmentation involved in apoptotic nuclear change|dorsal/ventral axis specification|hemopoietic progenitor cell differentiation|hemopoietic stem cell differentiation|menstrual cycle phase|negative regulation of androgen receptor signaling pathway|negative regulation of B cell differentiation|negative regulation of bone remodeling|negative regulation of canonical Wnt receptor signaling pathway involved in controlling type B pancreatic cell proliferation|negative regulation of cell growth|negative regulation of cell migration|negative regulation of cysteine-type endopeptidase activity|negative regulation of epithelial cell proliferation|negative regulation of epithelial to mesenchymal transition|negative regulation of fibroblast apoptosis|negative regulation of fibroblast proliferation|negative regulation of insulin secretion|negative regulation of ossification|negative regulation of osteoblast proliferation|negative regulation of peptidyl-tyrosine phosphorylation|negative regulation of transcription, DNA-dependent|negative regulation of Wnt receptor signaling pathway involved in dorsal/ventral axis specification|osteoblast differentiation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell growth|positive regulation of epithelial cell proliferation|positive regulation of fat cell differentiation|positive regulation of fibroblast apoptosis|positive regulation of focal adhesion assembly|positive regulation of non-canonical Wnt receptor signaling pathway|positive regulation of Rac GTPase activity|positive regulation of smoothened signaling pathway|positive regulation of stress fiber assembly|positive regulation of transcription, DNA-dependent|regulation of angiogenesis|regulation of cell cycle process|response to drug|response to organic cyclic compound|vasculature development	cell surface|cytosol|extracellular space|plasma membrane|proteinaceous extracellular matrix	cysteine-type endopeptidase activity|drug binding|frizzled binding|heparin binding|identical protein binding|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			central_nervous_system(1)	1	Breast(1;9.19e-13)|Ovarian(28;0.00769)|Colorectal(14;0.0305)|Lung SC(25;0.211)	all_lung(54;0.0034)|Lung NSC(58;0.0134)|Hepatocellular(245;0.023)|Esophageal squamous(32;0.0559)	BRCA - Breast invasive adenocarcinoma(1;1.11e-10)|LUSC - Lung squamous cell carcinoma(45;0.00894)|COAD - Colon adenocarcinoma(11;0.0174)			CACGCCCAGGGCTGCCCCGCGGC	0.764													5	10	---	---	---	---					
C8orf59	401466	broad.mit.edu	37	8	86129664	86129664	+	Frame_Shift_Del	DEL	T	-	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr8:86129664delT	uc010mac.1	-	3	305	c.65delA	c.(64-66)AACfs	p.N22fs	C8orf59_uc003ydd.2_Frame_Shift_Del_p.N22fs|C8orf59_uc010mad.1_Frame_Shift_Del_p.N22fs|C8orf59_uc003yde.2_Frame_Shift_Del_p.N22fs|C8orf59_uc011lfu.1_RNA	NM_001099670	NP_001093140	Q8N0T1	CH059_HUMAN	hypothetical protein LOC401466	22											0						AGCCTTAAAGTTTTTTTGGCT	0.343													7	488	---	---	---	---					
PKHD1L1	93035	broad.mit.edu	37	8	110455173	110455174	+	Splice_Site	INS	-	G	G			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr8:110455173_110455174insG	uc003yne.2	+	36	4498	c.4394_splice	c.e36-1	p.G1465_splice		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor						immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			ATTTTATGGCAGGTTCATTTTC	0.322										HNSCC(38;0.096)			17	296	---	---	---	---					
ROR2	4920	broad.mit.edu	37	9	94486026	94486028	+	In_Frame_Del	DEL	TCC	-	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr9:94486026_94486028delTCC	uc004arj.1	-	9	2947_2949	c.2748_2750delGGA	c.(2746-2751)GAGGAA>GAA	p.916_917EE>E	ROR2_uc004ari.1_Intron	NM_004560	NP_004551	Q01974	ROR2_HUMAN	receptor tyrosine kinase-like orphan receptor 2	916_917	Cytoplasmic (Potential).				negative regulation of cell proliferation|positive regulation of cell migration|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity|Wnt-protein binding			lung(8)|central_nervous_system(5)|ovary(3)|large_intestine(2)|stomach(1)|breast(1)	20						GACAGAGCCTTCCTCCTCCTCCT	0.645													8	370	---	---	---	---					
PASD1	139135	broad.mit.edu	37	X	150817142	150817144	+	In_Frame_Del	DEL	GCT	-	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chrX:150817142_150817144delGCT	uc004fev.3	+	9	1017_1019	c.685_687delGCT	c.(685-687)GCTdel	p.A236del		NM_173493	NP_775764	Q8IV76	PASD1_HUMAN	PAS domain containing 1	236	Poly-Ala.					nucleus	signal transducer activity			ovary(3)	3	Acute lymphoblastic leukemia(192;6.56e-05)					CGTTGAACCCgctgctgctgctg	0.355													9	285	---	---	---	---					
