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_alt_allele	validation_method	validation_status	validation_tumor_sample	pox	qox	pox_cutoff	isArtifactMode	oxoGCut
ZNF733P	0	broad.mit.edu	37	7	62752443	62752443	+	RNA	SNP	G	G	C			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr7:62752443G>C	ENST00000331425.6	-	0	992					NR_003952.1																						CTTATGTCTAGTAAGGTTTGA	0.438000													6	80					0	0	0.335167	0	0
MUC4	4585	broad.mit.edu	37	3	195505836	195505836	+	Missense_Mutation	SNP	G	G	C			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr3:195505836G>C	ENST00000463781.3	-	2	13074	c.12615C>G	c.(12613-12615)caC>caG	p.H4205Q	MUC4_ENST00000346145.4_Intron|MUC4_ENST00000349607.4_Intron|MUC4_ENST00000475231.1_Missense_Mutation_p.H4205Q	NM_018406.6	NP_060876.5	Q99102	MUC4_HUMAN	mucin 4, cell surface associated	968					cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity	p.H4205Q(10)		NS(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(3)|kidney(1)|large_intestine(5)|lung(23)|ovary(3)|prostate(8)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	51	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													5	20					0	0	0.184627	0	0
NPIPB11	728888	broad.mit.edu	37	16	29415043	29415043	+	Silent	SNP	G	G	A			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr16:29415043G>A	ENST00000524087.1	-	2	155	c.81C>T	c.(79-81)caC>caT	p.H27H	SNX29P2_ENST00000398878.3_lincRNA					nuclear pore complex interacting protein family, member B11									p.H27H(24)									CTGACTTTACGTGCTGCTGCA	0.577000													5	69					0	0	0.248553	0	0
RP11-417J8.6	0	broad.mit.edu	37	1	142713407	142713407	+	RNA	SNP	C	C	T	rs142431664	by1000genomes	TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr1:142713407C>T	ENST00000369381.2	-	0	1198																											CAGTAAGAAACTCATTCTTAT	0.318000													14	168					0	0	0.189662	0	0
RP11-423O2.5	0	broad.mit.edu	37	1	142803612	142803612	+	RNA	SNP	G	G	T			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr1:142803612G>T	ENST00000423385.1	-	0	1353																											AAATATAGATGGAAGAaacta	0.303000													17	271					1.10513e-12	1.20746e-12	0.249174	1	0
TRBV5-4	0	broad.mit.edu	37	7	142168890	142168890	+	RNA	SNP	C	C	T	rs143671051	by1000genomes	TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr7:142168890C>T	ENST00000454561.2	-	0	155																											GGGCTTGGTCCTCCTGGGGAA	0.592000													11	114					0	0	0.189662	0	0
TBP	6908	broad.mit.edu	37	6	170871076	170871076	+	Silent	SNP	G	G	A			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr6:170871076G>A	ENST00000392092.2	+	3	531	c.252G>A	c.(250-252)caG>caA	p.Q84Q	TBP_ENST00000540980.1_Silent_p.Q64Q|TBP_ENST00000230354.6_Silent_p.Q84Q	NM_003194.4	NP_003185.1	P20226	TBP_HUMAN	TATA box binding protein	84	Poly-Gln.				cell death|interspecies interaction between organisms|transcription elongation from RNA polymerase II promoter|transcription from RNA polymerase III promoter|viral reproduction	transcription factor TFIIA complex|transcription factor TFIID complex	repressing transcription factor binding|transcription regulatory region DNA binding	p.Q84Q(2)		breast(2)|central_nervous_system(1)|endometrium(5)|kidney(1)|large_intestine(2)|lung(9)|ovary(1)|prostate(4)|urinary_tract(1)	26		Breast(66;5.08e-05)|Ovarian(120;0.125)|Esophageal squamous(34;0.246)		OV - Ovarian serous cystadenocarcinoma(33;1.07e-22)|BRCA - Breast invasive adenocarcinoma(81;5.01e-06)|GBM - Glioblastoma multiforme(31;0.00591)		agcagcagcagcagcagcagc	0.602000													11	267					0	0	0.160694	0	0
TBC1D3P2	0	broad.mit.edu	37	17	60342186	60342186	+	RNA	SNP	T	T	C	rs79096325		TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr17:60342186T>C	ENST00000581291.1	-	0	1967																				breast(2)|kidney(1)|lung(2)	5						GCTGGGGGTGTTGGGAGGGGC	0.498000													6	89					0	0	0.278610	0	0
CHEK2	11200	broad.mit.edu	37	22	29091841	29091841	+	Silent	SNP	G	G	A	rs146546850	byFrequency	TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr22:29091841G>A	ENST00000544772.1	-	12	1889	c.453C>T	c.(451-453)tcC>tcT	p.S151S	CHEK2_ENST00000402731.1_Silent_p.S343S|CHEK2_ENST00000403642.1_Silent_p.S281S|CHEK2_ENST00000382580.2_Silent_p.S415S|CHEK2_ENST00000382566.1_3'UTR|CHEK2_ENST00000382565.1_Intron|CHEK2_ENST00000328354.6_Silent_p.S372S|CHEK2_ENST00000405598.1_Silent_p.S372S|CHEK2_ENST00000382578.1_Silent_p.S281S|CHEK2_ENST00000404276.1_Silent_p.S372S|CHEK2_ENST00000348295.3_Silent_p.S343S	NM_001257387.1	NP_001244316.1	O96017	CHK2_HUMAN	checkpoint kinase 2	372	FHA.				cell cycle|DNA damage checkpoint|DNA damage response, signal transduction resulting in induction of apoptosis|replicative senescence	PML body	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity	p.S372S(8)		central_nervous_system(17)|endometrium(2)|kidney(11)|large_intestine(2)|lung(11)|ovary(1)|prostate(4)|stomach(2)	50						CCAAAATCTTGGAGTGCCCAA	0.413000			F			breast		Direct reversal of damage;Other conserved DNA damage response genes					16	403					0	0	0.153744	0	0
TBC1D3P2	0	broad.mit.edu	37	17	60342197	60342197	+	RNA	SNP	T	T	C	rs76635225		TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr17:60342197T>C	ENST00000581291.1	-	0	1956																				breast(2)|kidney(1)|lung(2)	5						TGGGAGGGGCTGGGCATGGTT	0.488000													6	116					0	0	0.278610	0	0
SLC6A10P	0	broad.mit.edu	37	16	32890622	32890622	+	RNA	SNP	T	T	G			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr16:32890622T>G	ENST00000330048.5	-	0	3176					NR_003083.2																						CGTTGGTGTTTTTGTAGACCA	0.617000													5	115					0	0	0.248553	0	0
TNXB	7148	broad.mit.edu	37	6	32013122	32013122	+	Translation_Start_Site	SNP	G	G	T			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr6:32013122G>T	ENST00000451343.1	-	0	783				TNXB_ENST00000375244.3_Intron|TNXB_ENST00000375247.2_Intron	NM_032470.3	NP_115859.2	P22105	TENX_HUMAN	tenascin XB						actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding			endometrium(1)|kidney(1)|large_intestine(1)|lung(4)|prostate(1)	8						GAGAAGCCCAGGGGAGAATCT	0.617000													6	22					2.17888e-05	2.25533e-05	0.335167	1	0
CCDC88B	283234	broad.mit.edu	37	11	64124622	64124622	+	Missense_Mutation	SNP	G	G	A	rs61886888	by1000genomes	TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr11:64124622G>A	ENST00000359902.2	+	14	1951	c.1801G>A	c.(1801-1803)Gga>Aga	p.G601R	CCDC88B_ENST00000301897.4_3'UTR|CCDC88B_ENST00000463837.1_3'UTR|CCDC88B_ENST00000356786.5_3'UTR			A6NC98	CC88B_HUMAN	coiled-coil domain containing 88B	1424					microtubule cytoskeleton organization	cytoplasm	microtubule binding			endometrium(1)|kidney(2)|large_intestine(1)|lung(12)|ovary(3)|prostate(3)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	27						GAGTGTCAGCGGAGGCCCCAG	0.667000													11	207					0	0	0.069234	0	0
MEGF6	1953	broad.mit.edu	37	1	3413612	3413612	+	Missense_Mutation	SNP	G	G	C			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr1:3413612G>C	ENST00000356575.4	-	28	3779	c.3553C>G	c.(3553-3555)Cac>Gac	p.H1185D	MEGF6_ENST00000294599.4_Intron	NM_001409.3	NP_001400.3	O75095	MEGF6_HUMAN	multiple EGF-like-domains 6	1185						extracellular region	calcium ion binding			cervix(2)|endometrium(3)|large_intestine(3)|lung(8)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	19	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	26					0	0	0.115264	0	0
RP11-14N7.2	0	broad.mit.edu	37	1	148933289	148933289	+	RNA	SNP	A	A	G	rs9729175	by1000genomes	TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr1:148933289A>G	ENST00000539543.1	+	0	176					NR_027355.1																						TGCTGCCCGCAGGATATTGTG	0.562000													14	91					0	0	0.132662	0	0
TRBV5-4	0	broad.mit.edu	37	7	142168862	142168862	+	RNA	SNP	A	A	G	rs140095394	by1000genomes	TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr7:142168862A>G	ENST00000454561.2	-	0	183																											TGGGCCAGGCAGCACTGCACC	0.597000													11	132					0	0	0.175082	0	0
KAT6B	23522	broad.mit.edu	37	10	76789141	76789141	+	Missense_Mutation	SNP	G	G	C			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr10:76789141G>C	ENST00000287239.4	+	18	5048	c.4559G>C	c.(4558-4560)aGc>aCc	p.S1520T	KAT6B_ENST00000372724.1_Missense_Mutation_p.S1228T|KAT6B_ENST00000372714.1_Missense_Mutation_p.S1228T|KAT6B_ENST00000372725.1_Missense_Mutation_p.S1228T|KAT6B_ENST00000372711.1_Missense_Mutation_p.S1337T	NM_001256468.1|NM_012330.3	NP_001243397.1|NP_036462.2	Q8WYB5	MYST4_HUMAN	K(lysine) acetyltransferase 6B	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										CAAAAGAACAGCAAGGAAGTC	0.552000													14	408					0	0	0.105934	0	0
ZNF320	162967	broad.mit.edu	37	19	53367338	53367338	+	Missense_Mutation	SNP	G	G	A	rs4803014	by1000genomes	TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr19:53367338G>A	ENST00000597909.1	-	6	534	c.298C>T	c.(298-300)Cgc>Tgc	p.R100C				A2RRD8	ZN320_HUMAN	zinc finger protein 320	0					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			NS(1)|endometrium(2)|kidney(4)|large_intestine(5)|liver(1)|lung(10)|urinary_tract(1)	24				GBM - Glioblastoma multiforme(134;0.0534)		TGTATAAAGCGTTCTGTGCAG	0.448000													10	276					0	0	0.069234	0	0
RP11-798G7.5	0	broad.mit.edu	37	17	43587569	43587569	+	RNA	SNP	G	G	C	rs149697015	by1000genomes	TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr17:43587569G>C	ENST00000253803.2	+	0	267				LRRC37A4P_ENST00000579913.1_RNA																							aactccgtctgaaaagaaaag	0.443000													7	187					0	0	0.248553	0	0
PLEKHG5	57449	broad.mit.edu	37	1	6536011	6536013	+	In_Frame_Del	DEL	CTC	CTC	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr1:6536011_6536013delCTC	ENST00000377748.1	-	4	855_857	c.358_360delGAG	c.(358-360)del	p.E120del	PLEKHG5_ENST00000400913.1_In_Frame_Del_p.E43del|PLEKHG5_ENST00000377728.3_In_Frame_Del_p.E43del|PLEKHG5_ENST00000544978.1_In_Frame_Del_p.E43del|PLEKHG5_ENST00000537245.1_In_Frame_Del_p.E122del|PLEKHG5_ENST00000377725.1_In_Frame_Del_p.E43del|PLEKHG5_ENST00000377732.1_In_Frame_Del_p.E80del|PLEKHG5_ENST00000340850.5_In_Frame_Del_p.E43del|PLEKHG5_ENST00000535355.1_In_Frame_Del_p.E112del|PLEKHG5_ENST00000377740.3_In_Frame_Del_p.E120del|PLEKHG5_ENST00000400915.3_In_Frame_Del_p.E99del|PLEKHG5_ENST00000377737.2_In_Frame_Del_p.E43del	NM_198681.3	NP_941374.2	O94827	PKHG5_HUMAN	pleckstrin homology domain containing, family G (with RhoGef domain) member 5	99					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|perinuclear region of cytoplasm	Rho guanyl-nucleotide exchange factor activity|signal transducer activity			liver(1)	1	Ovarian(185;0.02)|all_lung(157;0.154)	all_cancers(23;1.7e-35)|all_epithelial(116;2.78e-22)|all_lung(118;7.57e-07)|Lung NSC(185;4.26e-06)|Colorectal(325;4.47e-05)|all_hematologic(16;0.00014)|Breast(487;0.000688)|Renal(390;0.0007)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0448)		Epithelial(90;5.51e-35)|GBM - Glioblastoma multiforme(13;3.57e-27)|Colorectal(212;6.23e-08)|COAD - Colon adenocarcinoma(227;1.33e-05)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000894)|BRCA - Breast invasive adenocarcinoma(365;0.00107)|STAD - Stomach adenocarcinoma(132;0.00159)|READ - Rectum adenocarcinoma(331;0.0419)		CCACAGAGCTCTCCTCCTCCTCC	0.631											OREG0013041	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	482	---	---	---	---					
MST1L	0	broad.mit.edu	37	1	17084730	17084730	+	RNA	DEL	G	G	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr1:17084730delG	ENST00000455405.2	-	0	286																		p.R494fs*37(1)									AAGCACTGCCGGGCAGTCAGT	0.582													8	49	---	---	---	---					
JAK1	3716	broad.mit.edu	37	1	65306996	65306997	+	Frame_Shift_Ins	INS	-	-	T			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr1:65306996_65306997insT	ENST00000342505.4	-	19	2828_2829	c.2580_2581insA	c.(2578-2583)aacagcfs	p.NS860fs		NM_002227.2	NP_002218.2	P23458	JAK1_HUMAN	Janus kinase 1	860					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			breast(5)|central_nervous_system(2)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(48)|kidney(3)|large_intestine(8)|liver(2)|lung(19)|ovary(1)|prostate(12)|skin(1)|soft_tissue(6)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	120				BRCA - Breast invasive adenocarcinoma(111;0.0485)		TCAGTTGCTGGTTTTTTTTCTG	0.470			Mis		ALL								10	631	---	---	---	---					
LPAR3	23566	broad.mit.edu	37	1	85331664	85331665	+	Frame_Shift_Ins	INS	-	-	A	rs76299065		TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr1:85331664_85331665insA	ENST00000440886.1	-	1	177_178	c.139_140insT	c.(139-141)taafs	p.*47fs	LPAR3_ENST00000370611.3_Frame_Shift_Ins_p.*47fs|LPAR3_ENST00000491034.1_5'UTR			Q9UBY5	LPAR3_HUMAN	lysophosphatidic acid receptor 3	47					G-protein signaling, coupled to cyclic nucleotide second messenger|synaptic transmission	integral to plasma membrane|intracellular membrane-bounded organelle				central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(6)|lung(11)|ovary(2)|urinary_tract(1)	24						CAGAGAATTAGAAAAAAAAATA	0.401													10	696	---	---	---	---					
RBMXL1	494115	broad.mit.edu	37	1	89448500	89448501	+	In_Frame_Ins	INS	-	-	CAT			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr1:89448500_89448501insCAT	ENST00000399794.2	-	3	1724_1725	c.1009_1010insATG	c.(1009-1011)ttg>ATGttg	p.336_337insM	CCBL2_ENST00000370491.3_Intron|CCBL2_ENST00000370485.2_Intron|CCBL2_ENST00000446900.2_Intron|CCBL2_ENST00000260508.4_Intron|RBMXL1_ENST00000321792.5_In_Frame_Ins_p.336_337insM	NM_001162536.2	NP_001156008.1	Q96E39	RBMXL_HUMAN	RNA binding motif protein, X-linked-like 1	336	Ser-rich.						nucleotide binding|RNA binding										CCTGTCACAACTTGAGTAGAGA	0.500													12	1515	---	---	---	---					
BRDT	676	broad.mit.edu	37	1	92447228	92447230	+	In_Frame_Del	DEL	AGC	AGC	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr1:92447228_92447230delAGC	ENST00000370389.2	+	12	2623_2625	c.1699_1701delAGC	c.(1699-1701)del	p.S575del	BRDT_ENST00000394530.3_In_Frame_Del_p.S602del|BRDT_ENST00000362005.3_In_Frame_Del_p.S648del|BRDT_ENST00000399546.2_In_Frame_Del_p.S648del|BRDT_ENST00000402388.1_In_Frame_Del_p.S648del	NM_001242810.1	NP_001229739.1	Q58F21	BRDT_HUMAN	bromodomain, testis-specific	648					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein serine/threonine kinase activity|transcription coactivator activity			breast(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(11)|lung(24)|ovary(1)|prostate(4)|skin(2)|stomach(2)|urinary_tract(2)	56		all_lung(203;0.00531)|Lung NSC(277;0.0194)		all cancers(265;0.0228)|Epithelial(280;0.133)		ACTGAGTGAGagcagcagcagca	0.419													7	523	---	---	---	---					
CLCC1	23155	broad.mit.edu	37	1	109477407	109477407	+	Frame_Shift_Del	DEL	T	T	-	rs150759040	by1000genomes	TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr1:109477407delT	ENST00000369971.2	-	11	1670	c.1541delA	c.(1540-1542)agfs	p.K514fs	CLCC1_ENST00000482889.1_Intron|CLCC1_ENST00000356970.2_Frame_Shift_Del_p.K514fs|CLCC1_ENST00000415331.1_Frame_Shift_Del_p.K464fs|CLCC1_ENST00000302500.4_Frame_Shift_Del_p.K393fs|AKNAD1_ENST00000357393.4_Intron|CLCC1_ENST00000369969.2_Frame_Shift_Del_p.K393fs|CLCC1_ENST00000348264.2_Frame_Shift_Del_p.K329fs|CLCC1_ENST00000369968.2_Frame_Shift_Del_p.K329fs|CLCC1_ENST00000369970.3_Frame_Shift_Del_p.K464fs|CLCC1_ENST00000369976.1_Intron	NM_001048210.1	NP_001041675.1	Q96S66	CLCC1_HUMAN	chloride channel CLIC-like 1	514						endoplasmic reticulum|Golgi apparatus|integral to membrane|nucleus				autonomic_ganglia(1)|cervix(1)|endometrium(1)|kidney(2)|large_intestine(7)|liver(1)|skin(1)	14		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)		Colorectal(144;0.0314)|Lung(183;0.0924)|COAD - Colon adenocarcinoma(174;0.119)|Epithelial(280;0.231)		GAGCTGGGCCTTTTCCGCTGC	0.597													7	788	---	---	---	---					
ADAM30	11085	broad.mit.edu	37	1	120436591	120436591	+	Frame_Shift_Del	DEL	T	T	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr1:120436591delT	ENST00000369400.1	-	1	2527	c.2369delA	c.(2368-2370)agfs	p.K790fs		NM_021794.3	NP_068566.2	Q9UKF2	ADA30_HUMAN	ADAM metallopeptidase domain 30	790					proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			NS(1)|autonomic_ganglia(1)|breast(1)|cervix(1)|endometrium(2)|kidney(1)|large_intestine(11)|lung(16)|ovary(2)|skin(2)	38	all_cancers(5;7.07e-10)|all_epithelial(5;1.62e-10)|all_neural(166;0.153)|Breast(55;0.234)	all_lung(203;1.55e-06)|Lung NSC(69;1.04e-05)|all_epithelial(167;0.00138)		Lung(183;0.0204)|LUSC - Lung squamous cell carcinoma(189;0.117)		GCCCGGTTACTTTTTTTGTTT	0.358													9	1307	---	---	---	---					
SV2A	0	broad.mit.edu	37	1	149885223	149885225	+	In_Frame_Del	DEL	TCA	TCA	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr1:149885223_149885225delTCA	ENST00000369146.3	-	2	658_660	c.168_170delTGA	c.(166-171)gac>ga	p.DD56del	SV2A_ENST00000369145.1_In_Frame_Del_p.DD56del	NM_014849.3	NP_055664.3	Q7L0J3	SV2A_HUMAN	synaptic vesicle glycoprotein 2A	56	Interaction with SYT1 (By similarity).				neurotransmitter transport	cell junction|endoplasmic reticulum|integral to membrane|synaptic vesicle membrane	transmembrane transporter activity			breast(2)|cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(3)|kidney(1)|large_intestine(8)|lung(16)|ovary(6)|pancreas(1)|prostate(8)|skin(2)|urinary_tract(2)	55	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	624	---	---	---	---					
ADAMTSL4	54507	broad.mit.edu	37	1	150530506	150530506	+	Frame_Shift_Del	DEL	G	G	-	rs149280379		TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr1:150530506delG	ENST00000271643.4	+	14	2499	c.2263delG	c.(2263-2265)ggfs	p.G758fs	ADAMTSL4_ENST00000369039.5_Frame_Shift_Del_p.G781fs|ADAMTSL4_ENST00000369041.5_Frame_Shift_Del_p.G758fs|ADAMTSL4_ENST00000369038.2_Frame_Shift_Del_p.G758fs	NM_019032.4	NP_061905.2	Q6UY14	ATL4_HUMAN	ADAMTS-like 4	758	TSP type-1 2.				apoptosis|positive regulation of apoptosis		metalloendopeptidase activity|protease binding			breast(1)|cervix(1)|endometrium(6)|large_intestine(3)|lung(13)|ovary(2)|prostate(3)|skin(3)	32	all_cancers(9;3.13e-53)|all_epithelial(9;3.74e-43)|all_lung(15;2.43e-34)|Lung NSC(24;8.86e-31)|Breast(34;0.000326)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0241)|Epithelial(6;3.18e-23)|all cancers(9;1.79e-22)|OV - Ovarian serous cystadenocarcinoma(6;1.13e-14)|BRCA - Breast invasive adenocarcinoma(12;0.000503)|LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.206)			GCAGGAATTTGGGGGGGGTGG	0.692													10	663	---	---	---	---					
FLG2	388698	broad.mit.edu	37	1	152324558	152324559	+	Frame_Shift_Del	DEL	TG	TG	-	rs140875805	byFrequency	TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr1:152324558_152324559delTG	ENST00000388718.5	-	3	5775_5776	c.5703_5704delCA	c.(5701-5706)cagcfs	p.HS1901fs	FLG-AS1_ENST00000392688.2_RNA|FLG-AS1_ENST00000445097.1_RNA	NM_001014342.2	NP_001014364.1	Q5D862	FILA2_HUMAN	filaggrin family member 2	1901							calcium ion binding|structural molecule activity	p.H1901fs*30(1)		NS(2)|breast(7)|cervix(3)|endometrium(11)|kidney(9)|large_intestine(24)|liver(1)|lung(85)|ovary(12)|pancreas(1)|prostate(6)|skin(17)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(5)	188	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CTGGCTTGGCTGTGTGTGTGTC	0.515													9	1593	---	---	---	---					
ISG20L2	81875	broad.mit.edu	37	1	156694023	156694023	+	Frame_Shift_Del	DEL	G	G	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr1:156694023delG	ENST00000313146.6	-	2	1647	c.865delC	c.(865-867)tcfs	p.L289fs	ISG20L2_ENST00000472824.1_5'UTR|ISG20L2_ENST00000368219.1_Frame_Shift_Del_p.L289fs	NM_030980.1	NP_112242.1	Q9H9L3	I20L2_HUMAN	interferon stimulated exonuclease gene 20kDa-like 2	289	Exonuclease.				ribosome biogenesis	nucleolus	exonuclease activity|nucleic acid binding|protein binding			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(1)|kidney(2)|large_intestine(2)|lung(6)|ovary(1)|skin(1)	16	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					TTCCGGTTGAGGGGGGGGATA	0.557													12	570	---	---	---	---					
INTS7	25896	broad.mit.edu	37	1	212115191	212115193	+	In_Frame_Del	DEL	TGC	TGC	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr1:212115191_212115193delTGC	ENST00000366994.3	-	20	2966_2968	c.2862_2864delGCA	c.(2860-2865)caa>ca	p.QQ954del	INTS7_ENST00000440600.2_In_Frame_Del_p.QQ905del|INTS7_ENST00000366993.3_In_Frame_Del_p.QQ940del|INTS7_ENST00000366992.3_In_Frame_Del_p.QQ934del|INTS7_ENST00000469606.1_5'UTR	NM_001199811.1|NM_001199812.1|NM_015434.3	NP_001186740.1|NP_001186741.1|NP_056249.1	Q9NVH2	INT7_HUMAN	integrator complex subunit 7	954	Gln-rich.				snRNA processing	integrator complex	protein binding			NS(1)|breast(1)|kidney(1)|large_intestine(8)|lung(6)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	20				OV - Ovarian serous cystadenocarcinoma(81;0.00584)|all cancers(67;0.0318)|Epithelial(68;0.0852)		GGCATTGCGTTGCTGCTGCTGCT	0.443													8	852	---	---	---	---					
TGFB2	7042	broad.mit.edu	37	1	218609370	218609371	+	Frame_Shift_Ins	INS	-	-	A			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr1:218609370_218609371insA	ENST00000366929.4	+	6	1364_1365	c.897_898insA	c.(895-900)agaaaafs	p.RK299fs	TGFB2_ENST00000479322.1_3'UTR|TGFB2_ENST00000366930.4_Frame_Shift_Ins_p.RK271fs	NM_001135599.2	NP_001129071.1	P61812	TGFB2_HUMAN	transforming growth factor, beta 2	271					activation of protein kinase activity|angiogenesis|cardiac epithelial to mesenchymal transition|cardiac muscle cell proliferation|cardioblast differentiation|catagen|cell cycle arrest|cell death|cell growth|cell-cell junction organization|cell-cell signaling|collagen fibril organization|dopamine biosynthetic process|embryonic digestive tract development|eye development|glial cell migration|hair follicle morphogenesis|hemopoiesis|menstrual cycle phase|negative regulation of alkaline phosphatase activity|negative regulation of cell growth|negative regulation of epithelial cell proliferation|negative regulation of immune response|negative regulation of macrophage cytokine production|neuron development|neutrophil chemotaxis|odontogenesis|pathway-restricted SMAD protein phosphorylation|platelet activation|platelet degranulation|positive regulation of cardioblast differentiation|positive regulation of catagen|positive regulation of cell adhesion mediated by integrin|positive regulation of cell cycle|positive regulation of cell division|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of epithelial cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of heart contraction|positive regulation of immune response|positive regulation of integrin biosynthetic process|positive regulation of neuron apoptosis|positive regulation of ossification|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein secretion|positive regulation of stress-activated MAPK cascade|regulation of transforming growth factor-beta2 production|response to hypoxia|response to progesterone stimulus|salivary gland morphogenesis|SMAD protein import into nucleus|somatic stem cell division|transforming growth factor beta receptor signaling pathway	axon|extracellular matrix|extracellular space|neuronal cell body|platelet alpha granule lumen	beta-amyloid binding|cytokine activity|growth factor activity|protein heterodimerization activity|protein homodimerization activity|receptor signaling protein serine/threonine kinase activity|type II transforming growth factor beta receptor binding			breast(1)|endometrium(1)|large_intestine(11)|lung(15)|upper_aerodigestive_tract(2)|urinary_tract(1)	31				all cancers(67;0.0459)|OV - Ovarian serous cystadenocarcinoma(81;0.049)|GBM - Glioblastoma multiforme(131;0.0776)		AGTCCACTAGGAAAAAAAACAG	0.431													7	466	---	---	---	---					
OR2T2	401992	broad.mit.edu	37	1	248616705	248616711	+	Frame_Shift_Del	DEL	TGCTGCG	TGCTGCG	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr1:248616705_248616711delTGCTGCG	ENST00000342927.3	+	1	629_635	c.607_613delTGCTGCG	c.(607-615)tgfs	p.CCV203fs		NM_001004136.1	NP_001004136.1	Q6IF00	OR2T2_HUMAN	olfactory receptor, family 2, subfamily T, member 2	203					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			cervix(1)|endometrium(5)|kidney(1)|large_intestine(2)|lung(21)|ovary(1)|skin(5)|upper_aerodigestive_tract(1)	37	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			GATGTATGCCTGCTGCGTGCTGATGCT	0.527													7	563	---	---	---	---					
ATP6V1C2	245973	broad.mit.edu	37	2	10917819	10917820	+	Frame_Shift_Del	DEL	AG	AG	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr2:10917819_10917820delAG	ENST00000272238.4	+	11	1043_1044	c.934_935delAG	c.(934-936)afs	p.R312fs	ATP6V1C2_ENST00000381661.3_Intron	NM_001039362.1	NP_001034451.1	Q8NEY4	VATC2_HUMAN	ATPase, H+ transporting, lysosomal 42kDa, V1 subunit C2	312					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytosol|proton-transporting V-type ATPase, V1 domain				endometrium(2)|kidney(1)|large_intestine(3)|lung(8)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	19	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													13	526	---	---	---	---					
C2orf71	388939	broad.mit.edu	37	2	29295647	29295649	+	In_Frame_Del	DEL	TCC	TCC	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr2:29295647_29295649delTCC	ENST00000331664.5	-	1	1478_1480	c.1479_1481delGGA	c.(1477-1482)gaa>ga	p.EE493del		NM_001029883.2	NP_001025054.1	A6NGG8	CB071_HUMAN	chromosome 2 open reading frame 71	493					response to stimulus|visual perception	photoreceptor outer segment				NS(2)|breast(5)|central_nervous_system(3)|endometrium(4)|kidney(3)|large_intestine(11)|lung(20)|ovary(2)|prostate(6)|skin(3)|stomach(1)	60						CATTTTGTCTTCCTCCTCCTCCT	0.542													7	888	---	---	---	---					
AC016995.3	0	broad.mit.edu	37	2	38710012	38710013	+	RNA	INS	-	-	A	rs71402229		TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr2:38710012_38710013insA	ENST00000417039.1	-	0	696																											CTTACTTCTTtaaaaaataaat	0.252													8	47	---	---	---	---					
VRK2	7444	broad.mit.edu	37	2	58373509	58373509	+	Frame_Shift_Del	DEL	A	A	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr2:58373509delA	ENST00000435505.2	+	15	1827	c.1082delA	c.(1081-1083)gafs	p.E361fs	VRK2_ENST00000440705.2_Frame_Shift_Del_p.E338fs|VRK2_ENST00000417641.2_Frame_Shift_Del_p.E361fs|VRK2_ENST00000340157.4_Frame_Shift_Del_p.E361fs|VRK2_ENST00000412104.2_Frame_Shift_Del_p.E361fs			Q86Y07	VRK2_HUMAN	vaccinia related kinase 2	361						integral to membrane	ATP binding|protein binding|protein serine/threonine kinase activity			endometrium(4)|kidney(2)|large_intestine(5)|lung(12)|ovary(1)	24						AGGTTAATCGAAAAAAAAGTC	0.383													8	357	---	---	---	---					
BCL11A	53335	broad.mit.edu	37	2	60689253	60689254	+	Frame_Shift_Ins	INS	-	-	G			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr2:60689253_60689254insG	ENST00000335712.6	-	4	1020_1021	c.793_794insC	c.(793-795)gttfs	p.V265fs	BCL11A_ENST00000477659.1_5'UTR|BCL11A_ENST00000537768.1_Intron|BCL11A_ENST00000359629.5_Intron|BCL11A_ENST00000356842.4_Frame_Shift_Ins_p.V265fs|BCL11A_ENST00000358510.4_Frame_Shift_Ins_p.V231fs|BCL11A_ENST00000538214.1_Frame_Shift_Ins_p.V231fs	NM_022893.3	NP_075044.2	Q9H165	BC11A_HUMAN	B-cell CLL/lymphoma 11A (zinc finger protein)	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|nucleus	nucleic acid binding|protein heterodimerization activity|protein homodimerization activity|zinc ion binding			NS(1)|breast(6)|central_nervous_system(6)|endometrium(4)|kidney(1)|large_intestine(8)|lung(25)|ovary(2)|pancreas(1)|prostate(2)|skin(3)	59			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								8	328	---	---	---	---					
WBP1	23559	broad.mit.edu	37	2	74687550	74687550	+	Frame_Shift_Del	DEL	T	T	-	rs8469	byFrequency	TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr2:74687550delT	ENST00000393972.3	+	5	857	c.654delT	c.(652-654)ccfs	p.P218fs	WBP1_ENST00000409737.1_Frame_Shift_Del_p.P181fs|WBP1_ENST00000233615.2_Frame_Shift_Del_p.P184fs|WBP1_ENST00000494741.1_3'UTR			Q96G27	WBP1_HUMAN	WW domain binding protein 1	184							WW domain binding			endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|lung(1)|ovary(1)|urinary_tract(1)	8						GTGCCCCCCCTCATCAGGAGG	0.612													10	767	---	---	---	---					
LIPT1	51601	broad.mit.edu	37	2	99778781	99778781	+	Frame_Shift_Del	DEL	A	A	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr2:99778781delA	ENST00000393477.3	+	4	713	c.361delA	c.(361-363)aafs	p.K123fs	LIPT1_ENST00000340066.1_Frame_Shift_Del_p.K123fs|LIPT1_ENST00000393474.3_Frame_Shift_Del_p.K123fs|LIPT1_ENST00000393471.2_Frame_Shift_Del_p.K123fs|LIPT1_ENST00000393473.2_Frame_Shift_Del_p.K123fs|MRPL30_ENST00000410042.1_Intron	NM_145197.2	NP_660198.1	Q9Y234	LIPT_HUMAN	lipoyltransferase 1	123					lipid metabolic process|protein lipoylation	mitochondrion	acyltransferase activity			large_intestine(6)|lung(1)	7					Lipoic Acid(DB00166)	CTTTACAACCAAAAAAAAGTA	0.388													9	394	---	---	---	---					
ERCC3	2071	broad.mit.edu	37	2	128046944	128046946	+	In_Frame_Del	DEL	TCT	TCT	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr2:128046944_128046946delTCT	ENST00000493187.2	-	6	1060_1062	c.597_599delAGA	c.(595-600)gag>ga	p.EE199del	ERCC3_ENST00000285398.2_In_Frame_Del_p.EE263del			P19447	ERCC3_HUMAN	excision repair cross-complementing rodent repair deficiency, complementation group 3	263					cell cycle checkpoint|DNA topological change|hair cell differentiation|induction of apoptosis|interspecies interaction between organisms|mRNA capping|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA duplex unwinding|nucleotide-excision repair, DNA incision|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|protein localization|response to oxidative stress|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	holo TFIIH complex	3'-5' DNA helicase activity|ATP binding|damaged DNA binding|protein C-terminus binding|protein N-terminus binding|transcription factor binding			breast(2)|central_nervous_system(1)|endometrium(2)|kidney(2)|large_intestine(6)|lung(12)|ovary(2)|pancreas(1)|prostate(1)|skin(1)|urinary_tract(1)	31	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.073)		TGTCTGTGTCTCTTCTTCTTCTT	0.473			"""Mis, S"""			"""skin basal cell, skin squamous cell, melanoma"""		Nucleotide excision repair (NER)	Xeroderma Pigmentosum				7	304	---	---	---	---					
FMNL2	114793	broad.mit.edu	37	2	153504389	153504390	+	Frame_Shift_Del	DEL	TT	TT	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr2:153504389_153504390delTT	ENST00000288670.9	+	26	3616_3617	c.3249_3250delTT	c.(3247-3252)cgctfs	p.RS1083fs	FMNL2_ENST00000475377.2_3'UTR	NM_052905.3	NP_443137.2	Q96PY5	FMNL2_HUMAN	formin-like 2	0					actin cytoskeleton organization	cytoplasm	actin binding|Rho GTPase binding			central_nervous_system(2)|endometrium(3)|large_intestine(5)|liver(2)|lung(3)|ovary(3)|prostate(2)|skin(1)|upper_aerodigestive_tract(2)	23						AGAACTTGCGTTCTGTTAATGG	0.495													10	1053	---	---	---	---					
PPIG	9360	broad.mit.edu	37	2	170493804	170493804	+	Frame_Shift_Del	DEL	A	A	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr2:170493804delA	ENST00000260970.3	+	14	2256	c.2036delA	c.(2035-2037)gafs	p.E679fs	PPIG_ENST00000409714.3_Frame_Shift_Del_p.E664fs|PPIG_ENST00000448752.2_Frame_Shift_Del_p.E679fs	NM_004792.2	NP_004783.2	Q13427	PPIG_HUMAN	peptidylprolyl isomerase G (cyclophilin G)	679					protein folding|RNA splicing	nuclear matrix|nuclear speck	cyclosporin A binding|peptidyl-prolyl cis-trans isomerase activity			NS(2)|breast(2)|central_nervous_system(2)|cervix(1)|endometrium(4)|kidney(2)|large_intestine(8)|liver(1)|lung(17)|ovary(2)|stomach(1)|urinary_tract(1)	43					L-Proline(DB00172)	AACAGCAGGGAAAAAAAGGCT	0.358													7	442	---	---	---	---					
RBM45	129831	broad.mit.edu	37	2	178977303	178977304	+	Frame_Shift_Ins	INS	-	-	G	rs146365140	by1000genomes	TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr2:178977303_178977304insG	ENST00000286070.5	+	1	122_123	c.30_31insG	c.(28-33)ggggggfs	p.GG10fs		NM_152945.2	NP_694453.2	Q8IUH3	RBM45_HUMAN	RNA binding motif protein 45	10					cell differentiation|nervous system development	cytoplasm|nucleus	nucleotide binding|RNA binding			endometrium(3)|kidney(2)|large_intestine(8)|lung(10)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	27			OV - Ovarian serous cystadenocarcinoma(117;0.00854)|Epithelial(96;0.00957)|all cancers(119;0.037)			CTGCGAGCGGCGGGGGCTTCCG	0.644											OREG0015102	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	290	---	---	---	---					
KANSL1L	151050	broad.mit.edu	37	2	210887680	210887680	+	Frame_Shift_Del	DEL	T	T	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr2:210887680delT	ENST00000281772.9	-	15	3220	c.2957delA	c.(2956-2958)atfs	p.N986fs	KANSL1L_ENST00000418791.1_Frame_Shift_Del_p.N944fs	NM_152519.2	NP_689732.2	A0AUZ9	CB067_HUMAN	KAT8 regulatory NSL complex subunit 1-like	986																	CTGTCACCTATTTTTTTTAAC	0.418													7	262	---	---	---	---					
DOCK10	55619	broad.mit.edu	37	2	225729790	225729790	+	Frame_Shift_Del	DEL	A	A	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr2:225729790delA	ENST00000409592.3	-	12	1367	c.1254delT	c.(1252-1254)ttfs	p.F418fs	DOCK10_ENST00000258390.7_Frame_Shift_Del_p.F424fs			Q96BY6	DOC10_HUMAN	dedicator of cytokinesis 10	424							GTP binding			NS(1)|breast(3)|cervix(1)|endometrium(6)|kidney(10)|large_intestine(16)|lung(40)|ovary(2)|pancreas(1)|prostate(2)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	87		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													8	624	---	---	---	---					
IRS1	3667	broad.mit.edu	37	2	227660808	227660810	+	In_Frame_Del	DEL	GCT	GCT	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr2:227660808_227660810delGCT	ENST00000305123.4	-	1	3665_3667	c.2645_2647delAGC	c.(2644-2649)ccc>c	p.QP882del		NM_005544.2	NP_005535.1	P35568	IRS1_HUMAN	insulin receptor substrate 1	882	Poly-Gln.				fibroblast growth factor receptor signaling pathway|glucose homeostasis|insulin receptor signaling pathway|negative regulation of insulin receptor signaling pathway|negative regulation of insulin secretion|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of insulin receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity	caveola|cytosol|insulin receptor complex|microsome|nucleus	insulin receptor binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase binding|protein kinase C binding|SH2 domain binding|transmembrane receptor protein tyrosine kinase adaptor activity			autonomic_ganglia(1)|breast(2)|central_nervous_system(4)|endometrium(5)|kidney(4)|large_intestine(10)|lung(33)|ovary(6)|pancreas(1)|prostate(1)|urinary_tract(2)	69		Renal(207;0.023)|all_lung(227;0.0994)|all_hematologic(139;0.118)|Esophageal squamous(248;0.23)		Epithelial(121;3.03e-11)|all cancers(144;2.42e-08)|Lung(261;0.00712)|LUSC - Lung squamous cell carcinoma(224;0.0137)		TGCAGCAAGGgctgctgctgctg	0.626													8	418	---	---	---	---					
COL4A4	1286	broad.mit.edu	37	2	227896886	227896886	+	Frame_Shift_Del	DEL	C	C	-	rs2229812	by1000genomes	TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr2:227896886delC	ENST00000396625.3	-	39	3891	c.3684delG	c.(3682-3684)aafs	p.K1229fs	COL4A4_ENST00000329662.7_Frame_Shift_Del_p.K1229fs	NM_000092.4	NP_000083.3	P53420	CO4A4_HUMAN	collagen, type IV, alpha 4	1229	Triple-helical region.				axon guidance|glomerular basement membrane development	basal lamina|collagen type IV	extracellular matrix structural constituent|protein binding			breast(2)|central_nervous_system(3)|endometrium(8)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(15)|lung(35)|ovary(5)|pancreas(3)|prostate(2)|skin(12)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(3)	98		Renal(207;0.00844)|all_lung(227;0.0187)|Lung NSC(271;0.0879)|all_hematologic(139;0.21)|Esophageal squamous(248;0.242)		Epithelial(121;6.7e-11)|all cancers(144;5.39e-08)|Lung(261;0.0132)|LUSC - Lung squamous cell carcinoma(224;0.0181)		GGGGACCTTTCTTTCCACGAG	0.522													7	587	---	---	---	---					
DLEC1	9940	broad.mit.edu	37	3	38162039	38162040	+	Frame_Shift_Del	DEL	GA	GA	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr3:38162039_38162040delGA	ENST00000308059.6	+	34	4826_4827	c.4805_4806delGA	c.(4804-4806)gfs	p.G1602fs	DLEC1_ENST00000346219.3_Frame_Shift_Del_p.G1602fs|DLEC1_ENST00000452631.2_Frame_Shift_Del_p.G1605fs			Q9Y238	DLEC1_HUMAN	deleted in lung and esophageal cancer 1	1602					negative regulation of cell proliferation	cytoplasm				NS(1)|breast(3)|central_nervous_system(3)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(9)|lung(14)|ovary(3)|pancreas(3)|prostate(1)|skin(5)|upper_aerodigestive_tract(2)	51				KIRC - Kidney renal clear cell carcinoma(284;0.0664)|Kidney(284;0.0827)		AGTGCGAGTGGAGAGAGAGAGA	0.579													10	369	---	---	---	---					
ROBO2	6092	broad.mit.edu	37	3	77657037	77657038	+	Frame_Shift_Ins	INS	-	-	C			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr3:77657037_77657038insC	ENST00000461745.1	+	21	4125_4126	c.3225_3226insC	c.(3223-3228)ccccccfs	p.PP1075fs	ROBO2_ENST00000332191.8_Frame_Shift_Ins_p.PP1075fs|ROBO2_ENST00000469233.1_3'UTR|ROBO2_ENST00000487694.3_Frame_Shift_Ins_p.PP1091fs	NM_002942.4	NP_002933.1	Q9HCK4	ROBO2_HUMAN	roundabout, axon guidance receptor, homolog 2 (Drosophila)	1075					apoptosis involved in luteolysis|axon midline choice point recognition|cellular response to hormone stimulus|homophilic cell adhesion|metanephros development|negative regulation of negative chemotaxis|negative regulation of synaptogenesis|olfactory bulb interneuron development|positive regulation of axonogenesis|retinal ganglion cell axon guidance|ureteric bud development	axolemma|cell surface|integral to membrane	axon guidance receptor activity|identical protein binding	p.V1079fs*22(1)|p.V1095fs*22(1)		NS(1)|biliary_tract(5)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(3)|kidney(3)|large_intestine(23)|liver(1)|lung(52)|ovary(2)|pancreas(2)|prostate(5)|skin(8)|upper_aerodigestive_tract(1)	117				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)		TCCCTCTACCTCCCCCCCCAGT	0.431													7	321	---	---	---	---					
RP11-325B23.2	0	broad.mit.edu	37	3	98031434	98031434	+	RNA	DEL	A	A	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr3:98031434delA	ENST00000508616.1	+	0	149				OR5H8P_ENST00000394191.2_RNA																							TTACAATCTTAAAAAAAAAAG	0.333													7	159	---	---	---	---					
MYLK	4638	broad.mit.edu	37	3	123368043	123368044	+	Splice_Site	INS	-	-	G	rs138786404		TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr3:123368043_123368044insG	ENST00000360772.3	-	26	4667		c.e26-2		MYLK_ENST00000475616.1_Splice_Site|MYLK_ENST00000360304.3_Splice_Site|MYLK_ENST00000359169.1_Splice_Site|MYLK_ENST00000354792.5_Splice_Site|MYLK_ENST00000346322.5_Splice_Site			Q15746	MYLK_HUMAN	myosin light chain kinase						aorta smooth muscle tissue morphogenesis|muscle contraction	cytosol	actin binding|ATP binding|calmodulin binding|metal ion binding|myosin light chain kinase activity			NS(2)|breast(4)|central_nervous_system(1)|endometrium(24)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(17)|lung(37)|ovary(7)|prostate(3)|skin(5)|stomach(1)|upper_aerodigestive_tract(5)|urinary_tract(2)	113		Lung NSC(201;0.0496)		GBM - Glioblastoma multiforme(114;0.0736)		CCTTCGGCTCTGGGGGGGGCAC	0.624													9	536	---	---	---	---					
FIP1L1	81608	broad.mit.edu	37	4	54319248	54319249	+	Frame_Shift_Del	DEL	AG	AG	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr4:54319248_54319249delAG	ENST00000337488.6	+	16	1641_1642	c.1447_1448delAG	c.(1447-1449)afs	p.R483fs	FIP1L1_ENST00000358575.5_Frame_Shift_Del_p.R477fs|FIP1L1_ENST00000507166.1_Intron|FIP1L1_ENST00000306932.6_Frame_Shift_Del_p.R409fs	NM_030917.3	NP_112179.2	Q6UN15	FIP1_HUMAN	factor interacting with PAPOLA and CPSF1	483	Arg-rich.|Glu-rich.|Sufficient for interaction with CPSF1 and CSTF3.				mRNA processing	nucleus	RNA binding	p.R487fs*3(2)		large_intestine(3)|liver(1)|ovary(1)|skin(1)	6			GBM - Glioblastoma multiforme(3;3.31e-36)|LUSC - Lung squamous cell carcinoma(32;0.0134)			agaACGCACCAGAGAGAGAGAG	0.470			T	PDGFRA	idiopathic hypereosinophilic syndrome								11	346	---	---	---	---					
NAP1L5	266812	broad.mit.edu	37	4	89618431	89618433	+	In_Frame_Del	DEL	CCT	CCT	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr4:89618431_89618433delCCT	ENST00000323061.5	-	1	953_955	c.473_475delAGG	c.(472-477)gct>g	p.EA158del	HERC3_ENST00000543130.1_Intron|HERC3_ENST00000402738.1_Intron|HERC3_ENST00000264345.3_Intron	NM_153757.2	NP_715638.1	Q96NT1	NP1L5_HUMAN	nucleosome assembly protein 1-like 5	158	Glu-rich.				nucleosome assembly	nucleus	protein binding			endometrium(2)|lung(3)|skin(1)|upper_aerodigestive_tract(1)	7				OV - Ovarian serous cystadenocarcinoma(123;0.000181)		TCTGCCGCAGcctcctcctcctc	0.626													7	705	---	---	---	---					
RP11-455G16.1	0	broad.mit.edu	37	4	120116877	120116877	+	Frame_Shift_Del	DEL	A	A	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr4:120116877delA	ENST00000326780.3	-	2	290	c.236delT	c.(235-237)tcfs	p.F79fs	RP11-455G16.1_ENST00000515843.1_Intron																							AAGTGGTATGAAAAAAAAATG	0.368													7	149	---	---	---	---					
MAML3	55534	broad.mit.edu	37	4	140810639	140810641	+	In_Frame_Del	DEL	GCT	GCT	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr4:140810639_140810641delGCT	ENST00000509479.2	-	2	2805_2807	c.1949_1951delAGC	c.(1948-1953)ccg>c	p.QP650del	MAML3_ENST00000398940.1_In_Frame_Del_p.QP178del|MAML3_ENST00000327122.5_In_Frame_Del_p.QP494del	NM_018717.4	NP_061187.2	Q96JK9	MAML3_HUMAN	mastermind-like 3 (Drosophila)	646	Gln-rich.				Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	transcription coactivator activity			breast(1)|endometrium(7)|kidney(2)|large_intestine(1)|lung(9)|ovary(1)|prostate(2)|urinary_tract(2)	25	all_hematologic(180;0.162)					GGAGGTGGCGgctgctgctgctg	0.586													9	342	---	---	---	---					
PCDHB14	0	broad.mit.edu	37	5	140605423	140605423	+	Frame_Shift_Del	DEL	T	T	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr5:140605423delT	ENST00000239449.4	+	1	2346	c.2346delT	c.(2344-2346)aafs	p.N782fs	PCDHB14_ENST00000515856.2_Frame_Shift_Del_p.N629fs	NM_018934.2	NP_061757.1	Q9Y5E9	PCDBE_HUMAN		782					calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			NS(1)|breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(10)|lung(21)|ovary(2)|prostate(3)|skin(6)|urinary_tract(1)	49			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CTGGTAGGAATATGGGGGAAA	0.368													9	554	---	---	---	---					
BNIP1	662	broad.mit.edu	37	5	172578611	172578611	+	Frame_Shift_Del	DEL	T	T	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr5:172578611delT	ENST00000231668.9	+	3	324	c.220delT	c.(220-222)ttfs	p.F76fs	BNIP1_ENST00000352523.6_Frame_Shift_Del_p.F76fs|BNIP1_ENST00000351486.5_Intron|BNIP1_ENST00000393770.4_Intron	NM_013979.2	NP_053582.2	Q12981	SEC20_HUMAN	BCL2/adenovirus E1B 19kDa interacting protein 1	59					anti-apoptosis|apoptosis|endoplasmic reticulum membrane fusion|endoplasmic reticulum organization|induction of apoptosis|vesicle-mediated transport	integral to endoplasmic reticulum membrane|nuclear envelope|SNARE complex	protein binding			breast(1)|kidney(2)|large_intestine(2)|lung(3)|ovary(1)|pancreas(1)|skin(1)	11	Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			TGCTTCCACATTTTTTTTTAA	0.348													11	437	---	---	---	---					
SYNGAP1	8831	broad.mit.edu	37	6	33411201	33411203	+	In_Frame_Del	DEL	CAC	CAC	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr6:33411201_33411203delCAC	ENST00000418600.2	+	15	2973_2975	c.2872_2874delCAC	c.(2872-2874)del	p.H966del	SYNGAP1_ENST00000496374.1_3'UTR|SYNGAP1_ENST00000293748.5_In_Frame_Del_p.H966del|SYNGAP1_ENST00000428982.2_In_Frame_Del_p.H907del	NM_006772.2	NP_006763.2	Q96PV0	SYGP1_HUMAN	synaptic Ras GTPase activating protein 1	966					negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity|SH3 domain binding			breast(2)|central_nervous_system(1)|cervix(1)|endometrium(3)|kidney(2)|large_intestine(9)|lung(15)|ovary(7)|pancreas(1)|stomach(1)|urinary_tract(1)	43						TTCCTCccatcaccaccaccacc	0.645													8	904	---	---	---	---					
HSP90AB1	3326	broad.mit.edu	37	6	44221052	44221052	+	Frame_Shift_Del	DEL	T	T	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr6:44221052delT	ENST00000371554.1	+	11	2216	c.2002delT	c.(2002-2004)ttfs	p.F668fs	HSP90AB1_ENST00000353801.3_Frame_Shift_Del_p.F668fs|HSP90AB1_ENST00000371646.5_Frame_Shift_Del_p.F668fs			P08238	HS90B_HUMAN	heat shock protein 90kDa alpha (cytosolic), class B member 1	668					axon guidance|negative regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of nitric oxide biosynthetic process|protein folding|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|response to unfolded protein	cytosol|melanosome	ATP binding|nitric-oxide synthase regulator activity|TPR domain binding|unfolded protein binding			NS(1)|breast(1)|endometrium(6)|kidney(2)|large_intestine(5)|lung(12)|prostate(2)|skin(2)|urinary_tract(2)	33	all_cancers(18;1.7e-05)|all_lung(25;0.00747)|Hepatocellular(11;0.00908)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			ATCTTCTGGCTTTTCCCTTGA	0.527													8	2344	---	---	---	---					
MYO6	4646	broad.mit.edu	37	6	76599857	76599858	+	Frame_Shift_Ins	INS	-	-	A			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr6:76599857_76599858insA	ENST00000369981.3	+	26	3021_3022	c.2742_2743insA	c.(2740-2745)caaaaafs	p.QK914fs	MYO6_ENST00000369975.1_Frame_Shift_Ins_p.QK914fs|MYO6_ENST00000369985.4_Frame_Shift_Ins_p.QK914fs|MYO6_ENST00000369977.3_Frame_Shift_Ins_p.QK914fs			Q9UM54	MYO6_HUMAN	myosin VI	914					actin filament-based movement|DNA damage response, signal transduction by p53 class mediator|endocytosis|intracellular protein transport|positive regulation of transcription from RNA polymerase II promoter|regulation of secretion|sensory perception of sound|synaptic transmission	cell cortex|clathrin coated vesicle membrane|coated pit|cytosol|DNA-directed RNA polymerase II, holoenzyme|filamentous actin|Golgi apparatus|nuclear membrane|perinuclear region of cytoplasm|ruffle membrane|unconventional myosin complex	actin filament binding|ADP binding|ATP binding|calmodulin binding|minus-end directed microfilament motor activity|protein binding	p.K917fs*10(1)		breast(2)|central_nervous_system(1)|endometrium(7)|kidney(5)|large_intestine(16)|lung(19)|ovary(1)|pancreas(1)|prostate(3)|upper_aerodigestive_tract(1)|urinary_tract(2)	58		all_hematologic(105;0.189)		BRCA - Breast invasive adenocarcinoma(397;0.223)		GTGCATTACAGAAAAAAAAACA	0.381													14	412	---	---	---	---					
KIAA1009	22832	broad.mit.edu	37	6	84896233	84896233	+	Frame_Shift_Del	DEL	A	A	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr6:84896233delA	ENST00000403245.3	-	12	1332	c.1218delT	c.(1216-1218)ttfs	p.F406fs	KIAA1009_ENST00000461137.1_5'UTR|KIAA1009_ENST00000257766.4_Frame_Shift_Del_p.F330fs	NM_014895.2	NP_055710.2	Q5TB80	QN1_HUMAN	KIAA1009	406					cell division|mitosis	centrosome|nucleus|plasma membrane|spindle	protein binding			breast(2)|central_nervous_system(1)|endometrium(6)|kidney(3)|large_intestine(10)|lung(17)|ovary(1)|prostate(1)|stomach(1)|upper_aerodigestive_tract(1)	43		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													13	722	---	---	---	---					
ARHGAP18	93663	broad.mit.edu	37	6	129959602	129959603	+	Frame_Shift_Ins	INS	-	-	T			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr6:129959602_129959603insT	ENST00000368149.2	-	3	576_577	c.488_489insA	c.(487-489)aaafs	p.K163fs		NM_033515.2	NP_277050.2	Q8N392	RHG18_HUMAN	Rho GTPase activating protein 18	163					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding			NS(2)|endometrium(1)|large_intestine(4)|lung(4)|ovary(2)|prostate(2)|skin(3)	18				OV - Ovarian serous cystadenocarcinoma(136;0.0621)|GBM - Glioblastoma multiforme(226;0.0638)|all cancers(137;0.074)		GGTACTGTTTGTTTTTTTTCCT	0.421													9	1169	---	---	---	---					
MED23	9439	broad.mit.edu	37	6	131919846	131919846	+	Frame_Shift_Del	DEL	T	T	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr6:131919846delT	ENST00000403834.3	-	19	2467	c.2294delA	c.(2293-2295)atfs	p.N765fs	MED23_ENST00000545957.1_Frame_Shift_Del_p.N400fs|MED23_ENST00000354577.4_Frame_Shift_Del_p.N765fs|MED23_ENST00000368058.1_Frame_Shift_Del_p.N765fs|MED23_ENST00000540546.1_Frame_Shift_Del_p.N765fs|MED23_ENST00000368053.4_Frame_Shift_Del_p.N765fs|MED23_ENST00000368060.3_Frame_Shift_Del_p.N759fs|MED23_ENST00000368068.3_Frame_Shift_Del_p.N759fs			Q9ULK4	MED23_HUMAN	mediator complex subunit 23	759					regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	transcription factor complex	protein binding|transcription coactivator activity	p.N759fs*7(1)|p.N765fs*7(1)		NS(1)|breast(3)|central_nervous_system(1)|endometrium(1)|kidney(4)|large_intestine(12)|lung(15)|ovary(1)|pancreas(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(2)	44	Breast(56;0.0753)			GBM - Glioblastoma multiforme(226;0.0115)|OV - Ovarian serous cystadenocarcinoma(155;0.0608)		CTCCTCCACATTTTTTTTCAG	0.378													9	513	---	---	---	---					
PMS2CL	0	broad.mit.edu	37	7	6775132	6775133	+	RNA	INS	-	-	TT	rs72390141		TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr7:6775132_6775133insTT	ENST00000486256.1	+	0	833					NR_002217.1																						GGTCATGTAAGTTTTTTTTTTT	0.401													9	26	---	---	---	---					
NEUROD6	63974	broad.mit.edu	37	7	31378634	31378635	+	Frame_Shift_Ins	INS	-	-	T			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr7:31378634_31378635insT	ENST00000297142.3	-	2	570_571	c.248_249insA	c.(247-249)aacfs	p.N83fs		NM_022728.2	NP_073565.2	Q96NK8	NDF6_HUMAN	neuronal differentiation 6	83					cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			breast(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(4)|lung(18)|ovary(2)|prostate(2)|upper_aerodigestive_tract(1)	32						GCTTTGTTGTCTTTTTTTTCCT	0.520													11	1250	---	---	---	---					
TRGC2	0	broad.mit.edu	37	7	38284886	38284887	+	RNA	DEL	GT	GT	-	rs73692143		TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr7:38284886_38284887delGT	ENST00000436911.2	-	0	330																											ATTTGTCAAGgtgtgtgtgtgt	0.391													10	398	---	---	---	---					
TRGC1	0	broad.mit.edu	37	7	38301855	38301856	+	RNA	DEL	GT	GT	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr7:38301855_38301856delGT	ENST00000443402.2	-	0	330					NM_001003799.1|NM_001003806.1	NP_001003799.1|NP_001003806.1																					TCAATTGTTCGTGTGTGTGTGT	0.356													15	640	---	---	---	---					
OGDH	4967	broad.mit.edu	37	7	44684936	44684936	+	Frame_Shift_Del	DEL	T	T	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr7:44684936delT	ENST00000222673.5	+	3	275	c.233delT	c.(232-234)atfs	p.I78fs	OGDH_ENST00000443864.2_Frame_Shift_Del_p.I78fs|OGDH_ENST00000449767.1_Frame_Shift_Del_p.I78fs|OGDH_ENST00000447398.1_Frame_Shift_Del_p.I78fs|OGDH_ENST00000444676.1_Frame_Shift_Del_p.I78fs|OGDH_ENST00000439616.2_Intron|OGDH_ENST00000543843.1_Frame_Shift_Del_p.I18fs	NM_002541.3	NP_002532.2	Q02218	ODO1_HUMAN	oxoglutarate (alpha-ketoglutarate) dehydrogenase (lipoamide)	78					glycolysis|lysine catabolic process|tricarboxylic acid cycle	mitochondrial matrix|mitochondrial membrane	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding	p.R81fs*19(1)		breast(2)|endometrium(5)|kidney(2)|large_intestine(6)|lung(13)|ovary(1)|prostate(1)|upper_aerodigestive_tract(2)|urinary_tract(4)	36					NADH(DB00157)	TCATGGGACATTTTTTTTCGC	0.577													10	884	---	---	---	---					
INTS4L2	0	broad.mit.edu	37	7	65150816	65150817	+	RNA	INS	-	-	C			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr7:65150816_65150817insC	ENST00000430126.2	+	0	757																											TTCATCCCTCACCCCCCCCCCC	0.465													9	30	---	---	---	---					
AKAP9	10142	broad.mit.edu	37	7	91671392	91671393	+	Frame_Shift_Del	DEL	AG	AG	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr7:91671392_91671393delAG	ENST00000359028.2	+	20	5211_5212	c.4986_4987delAG	c.(4984-4989)tcagfs	p.SE1662fs	AKAP9_ENST00000356239.3_Frame_Shift_Del_p.SE1650fs|AKAP9_ENST00000358100.2_Frame_Shift_Del_p.SE1662fs			Q99996	AKAP9_HUMAN	A kinase (PRKA) anchor protein 9	1662					G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			NS(1)|autonomic_ganglia(2)|breast(14)|central_nervous_system(3)|cervix(1)|endometrium(13)|kidney(12)|large_intestine(35)|lung(49)|ovary(8)|prostate(6)|skin(8)|stomach(1)|urinary_tract(2)	155	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			ACCTGGTTTCAGAGAGAGAGAG	0.411			T	BRAF	papillary thyroid								10	304	---	---	---	---					
PEX1	5189	broad.mit.edu	37	7	92146721	92146721	+	Frame_Shift_Del	DEL	T	T	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr7:92146721delT	ENST00000248633.4	-	5	1203	c.1108delA	c.(1108-1110)ttfs	p.I370fs	PEX1_ENST00000541751.1_5'UTR|PEX1_ENST00000438045.1_Intron|PEX1_ENST00000428214.1_Frame_Shift_Del_p.I370fs	NM_000466.2	NP_000457.1	O43933	PEX1_HUMAN	peroxisomal biogenesis factor 1	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			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(5)|kidney(3)|large_intestine(6)|lung(17)|ovary(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	41	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													9	732	---	---	---	---					
FOXP2	93986	broad.mit.edu	37	7	114269971	114269973	+	In_Frame_Del	DEL	CAA	CAA	-	rs149757187		TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr7:114269971_114269973delCAA	ENST00000393500.3	+	11	1103_1105	c.283_285delCAA	c.(283-285)del	p.Q116del	FOXP2_ENST00000393491.3_In_Frame_Del_p.Q99del|FOXP2_ENST00000350908.4_In_Frame_Del_p.Q191del|FOXP2_ENST00000408937.3_In_Frame_Del_p.Q216del|AC020606.1_ENST00000580664.1_RNA|FOXP2_ENST00000393498.2_In_Frame_Del_p.Q171del|FOXP2_ENST00000360232.4_In_Frame_Del_p.Q191del|FOXP2_ENST00000393489.3_In_Frame_Del_p.Q99del|FOXP2_ENST00000390668.3_In_Frame_Del_p.Q215del|FOXP2_ENST00000378237.3_In_Frame_Del_p.Q191del|FOXP2_ENST00000393494.2_In_Frame_Del_p.Q191del|FOXP2_ENST00000403559.4_In_Frame_Del_p.Q208del			O15409	FOXP2_HUMAN	forkhead box P2	191	Gln-rich.				camera-type eye development|caudate nucleus development|cerebellum development|cerebral cortex development|embryo development|growth|lung alveolus development|negative regulation of transcription, DNA-dependent|pattern specification process|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of mesenchymal cell proliferation|post-embryonic development|putamen development|regulation of sequence-specific DNA binding transcription factor activity|righting reflex|skeletal muscle tissue development|smooth muscle tissue development|vocal learning	cytoplasm|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|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 activator activity|transcription factor binding|zinc ion binding	p.Q195Q(1)		breast(3)|endometrium(7)|kidney(4)|large_intestine(7)|lung(22)|ovary(4)|pancreas(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	52						acagcagcagcaacaacaacaac	0.502													12	253	---	---	---	---					
FAM66D	0	broad.mit.edu	37	8	11994626	11994627	+	RNA	DEL	GT	GT	-	rs138516564	by1000genomes	TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr8:11994626_11994627delGT	ENST00000434078.2	+	0	608					NR_027425.1																						gtatttgtgcgtgtgtgtgtgt	0.510													12	119	---	---	---	---					
DLC1	10395	broad.mit.edu	37	8	12957611	12957613	+	In_Frame_Del	DEL	GCT	GCT	-	rs137989738		TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr8:12957611_12957613delGCT	ENST00000276297.4	-	9	2642_2644	c.2233_2235delAGC	c.(2233-2235)del	p.S745del	DLC1_ENST00000520226.1_In_Frame_Del_p.S234del|DLC1_ENST00000358919.2_In_Frame_Del_p.S308del|DLC1_ENST00000512044.2_In_Frame_Del_p.S342del	NM_182643.2	NP_872584.2	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1	745	Poly-Ser.				actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			NS(2)|breast(2)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(2)|kidney(5)|large_intestine(39)|lung(32)|ovary(4)|pancreas(2)|prostate(4)|skin(2)|stomach(2)|upper_aerodigestive_tract(5)|urinary_tract(1)	110						TCTCCGACTGGCTGCTGCTGCTG	0.621													8	346	---	---	---	---					
SFRP1	6422	broad.mit.edu	37	8	41166638	41166640	+	In_Frame_Del	DEL	GCT	GCT	-	rs3055861		TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr8:41166638_41166640delGCT	ENST00000220772.3	-	1	376_378	c.39_41delAGC	c.(37-42)gcc>gc	p.AA13del		NM_003012.4	NP_003003.3	Q8N474	SFRP1_HUMAN	secreted frizzled-related protein 1	13					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			breast(1)|central_nervous_system(1)|large_intestine(2)|liver(1)|lung(1)|skin(1)	7	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													12	18	---	---	---	---					
TOX	9760	broad.mit.edu	37	8	59750796	59750798	+	In_Frame_Del	DEL	CTT	CTT	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr8:59750796_59750798delCTT	ENST00000361421.1	-	5	986_988	c.766_768delAAG	c.(766-768)del	p.K256del		NM_014729.2	NP_055544.1	O94900	TOX_HUMAN	thymocyte selection-associated high mobility group box	256						nucleus	DNA binding			endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(11)|lung(13)|prostate(1)|skin(2)|stomach(1)	33		all_cancers(86;0.165)|Myeloproliferative disorder(644;0.00452)|all_lung(136;0.036)|Lung NSC(129;0.0464)|all_epithelial(80;0.0607)				CATTGGGATCCTTCTTCTTCTTC	0.453													7	862	---	---	---	---					
C8orf59	401466	broad.mit.edu	37	8	86129664	86129664	+	Frame_Shift_Del	DEL	T	T	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr8:86129664delT	ENST00000417663.2	-	2	136	c.65delA	c.(64-66)acfs	p.N22fs	C8orf59_ENST00000421308.2_Frame_Shift_Del_p.N22fs|C8orf59_ENST00000524353.1_Frame_Shift_Del_p.N22fs|C8orf59_ENST00000321777.5_Frame_Shift_Del_p.N22fs|C8orf59_ENST00000545322.1_Frame_Shift_Del_p.N22fs|C8orf59_ENST00000458398.2_Frame_Shift_Del_p.N22fs|C8orf59_ENST00000518091.1_Frame_Shift_Del_p.N22fs|C8orf59_ENST00000431163.2_Frame_Shift_Del_p.N22fs|C8orf59_ENST00000518562.1_Frame_Shift_Del_p.N22fs	NM_001099670.1|NM_001099671.1|NM_001099672.1|NM_001099673.1	NP_001093140.1|NP_001093141.1|NP_001093142.1|NP_001093143.1	Q8N0T1	CH059_HUMAN	chromosome 8 open reading frame 59	22																	AGCCTTAAAGTTTTTTTGGCT	0.343													7	736	---	---	---	---					
RGS22	26166	broad.mit.edu	37	8	100990177	100990178	+	Frame_Shift_Ins	INS	-	-	T	rs7841915	by1000genomes	TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr8:100990177_100990178insT	ENST00000360863.6	-	23	3680_3681	c.3486_3487insA	c.(3484-3489)aatggcfs	p.NG1162fs	RGS22_ENST00000523437.1_Frame_Shift_Ins_p.NG1150fs|RGS22_ENST00000523287.1_Frame_Shift_Ins_p.NG981fs	NM_015668.3	NP_056483.3	Q8NE09	RGS22_HUMAN	regulator of G-protein signaling 22	1162					negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity		RGS22/SYCP1(2)	breast(3)|central_nervous_system(1)|cervix(1)|endometrium(4)|kidney(3)|large_intestine(9)|lung(33)|ovary(3)|prostate(2)|skin(5)|upper_aerodigestive_tract(3)|urinary_tract(1)	68			Epithelial(11;6.71e-08)|all cancers(13;4.19e-06)|OV - Ovarian serous cystadenocarcinoma(57;0.000469)|STAD - Stomach adenocarcinoma(118;0.169)			AGGACTGCCAATTTTTTTTTCT	0.312													8	344	---	---	---	---					
PKHD1L1	93035	broad.mit.edu	37	8	110455173	110455174	+	Splice_Site	INS	-	-	G			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr8:110455173_110455174insG	ENST00000378402.5	+	36	4497		c.e36-1			NM_177531.4	NP_803875.2	Q86WI1	PKHL1_HUMAN	polycystic kidney and hepatic disease 1 (autosomal recessive)-like 1						immune response	cytosol|extracellular space|integral to membrane	receptor activity			NS(4)|breast(13)|central_nervous_system(6)|cervix(1)|endometrium(19)|kidney(17)|large_intestine(34)|lung(122)|ovary(11)|pancreas(3)|prostate(9)|skin(3)|stomach(4)|upper_aerodigestive_tract(13)|urinary_tract(4)	263			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			ATTTTATGGCAGGTTCATTTTC	0.322										HNSCC(38;0.096)			20	498	---	---	---	---					
COL22A1	169044	broad.mit.edu	37	8	139809072	139809072	+	Frame_Shift_Del	DEL	T	T	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr8:139809072delT	ENST00000303045.6	-	12	2032	c.1586delA	c.(1585-1587)agfs	p.K529fs	COL22A1_ENST00000435777.1_Frame_Shift_Del_p.K529fs	NM_152888.1	NP_690848.1	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	529	Collagen-like 2.|Gly-rich.|Pro-rich.				cell adhesion	collagen|cytoplasm	structural molecule activity			breast(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(2)|kidney(14)|large_intestine(29)|lung(107)|ovary(13)|pancreas(1)|prostate(3)|skin(12)|upper_aerodigestive_tract(15)|urinary_tract(4)	211	all_epithelial(106;1.55e-12)|Lung NSC(106;1.67e-05)|all_lung(105;3.39e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0517)			CTTTTCACCCTTTTCCCCTTG	0.463										HNSCC(7;0.00092)			8	1643	---	---	---	---					
HRCT1	646962	broad.mit.edu	37	9	35906348	35906350	+	In_Frame_Del	DEL	CTG	CTG	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr9:35906348_35906350delCTG	ENST00000354323.2	+	1	160_162	c.64_66delCTG	c.(64-66)del	p.L28del		NM_001039792.1	NP_001034881.1	Q6UXD1	HRCT1_HUMAN	histidine rich carboxyl terminus 1	28						integral to membrane				NS(1)|haematopoietic_and_lymphoid_tissue(1)|lung(1)|prostate(1)	4						TGTGGCGGTCctgctgctgctgc	0.670													8	135	---	---	---	---					
ROR2	4920	broad.mit.edu	37	9	94486026	94486028	+	In_Frame_Del	DEL	TCC	TCC	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr9:94486026_94486028delTCC	ENST00000375708.3	-	9	2946_2948	c.2748_2750delGGA	c.(2746-2751)gaa>ga	p.EE916del	ROR2_ENST00000375715.1_Intron|ROR2_ENST00000550066.1_5'UTR	NM_004560.3	NP_004551.2	Q01974	ROR2_HUMAN	receptor tyrosine kinase-like orphan receptor 2	916					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			autonomic_ganglia(1)|breast(1)|central_nervous_system(5)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(12)|lung(31)|ovary(3)|prostate(6)|skin(4)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	71						GACAGAGCCTTCCTCCTCCTCCT	0.645													9	623	---	---	---	---					
ANKRD19P	0	broad.mit.edu	37	9	95599088	95599089	+	RNA	DEL	CA	CA	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr9:95599088_95599089delCA	ENST00000473204.1	+	0	1169_1170																											TTCACGGGCGCACACACACACA	0.421													7	293	---	---	---	---					
RP11-569G13.2	0	broad.mit.edu	37	9	98857829	98857831	+	RNA	DEL	CCT	CCT	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr9:98857829_98857831delCCT	ENST00000432783.1	+	0	102																											ccttccttcccctcctcctcctc	0.507													3	6	---	---	---	---					
ASTN2	23245	broad.mit.edu	37	9	119976989	119976991	+	In_Frame_Del	DEL	CAG	CAG	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr9:119976989_119976991delCAG	ENST00000313400.4	-	3	761_763	c.661_663delCTG	c.(661-663)del	p.L221del	ASTN2_ENST00000361209.2_In_Frame_Del_p.L221del|ASTN2_ENST00000373996.3_In_Frame_Del_p.L221del|ASTN2_ENST00000361477.3_5'UTR			O75129	ASTN2_HUMAN	astrotactin 2	221						integral to membrane				breast(3)|endometrium(7)|haematopoietic_and_lymphoid_tissue(2)|kidney(5)|large_intestine(21)|lung(45)|ovary(4)|pancreas(2)|prostate(2)|skin(9)|stomach(1)|urinary_tract(1)	102						CGGTGAACACCAGCAGCAGCAGC	0.601													7	288	---	---	---	---					
TPRN	286262	broad.mit.edu	37	9	140087025	140087027	+	In_Frame_Del	DEL	TCC	TCC	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr9:140087025_140087027delTCC	ENST00000409012.4	-	2	1928_1930	c.1842_1844delGGA	c.(1840-1845)gaa>ga	p.EE620del	TPRN_ENST00000321773.2_In_Frame_Del_p.EE559del	NM_001128228.2	NP_001121700.2	Q4KMQ1	TPRN_HUMAN	taperin	620	Glu-rich.				sensory perception of sound	stereocilium		p.E315delE(1)		breast(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(2)|prostate(2)	8						ctcttcctcttcctcctcctcct	0.596													7	129	---	---	---	---					
RP11-445N18.7	0	broad.mit.edu	37	10	45652094	45652111	+	RNA	DEL	AAAAACGCGAGAAAAGAG	AAAAACGCGAGAAAAGAG	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr10:45652094_45652111delAAAAACGCGAGAAAAGAG	ENST00000427229.2	+	0	1739																											tctaaaaaaaaaaaaCGCGAGAAAAGAGAACTTTggta	0.413													6	7	---	---	---	---					
SYT15	83849	broad.mit.edu	37	10	46969401	46969403	+	In_Frame_Del	DEL	CAG	CAG	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr10:46969401_46969403delCAG	ENST00000374325.3	-	2	210_212	c.58_60delCTG	c.(58-60)del	p.L21del	SYT15_ENST00000374323.3_Intron|SYT15_ENST00000503753.1_In_Frame_Del_p.L21del|SYT15_ENST00000374321.4_In_Frame_Del_p.L21del	NM_181519.2	NP_852660.1	Q9BQS2	SYT15_HUMAN	synaptotagmin XV	21						integral to membrane|plasma membrane				cervix(1)|endometrium(5)|kidney(2)|lung(5)	13						CCCCGATCAACAGCAGCAGCAGC	0.631													7	315	---	---	---	---					
FRMPD2	143162	broad.mit.edu	37	10	49409420	49409420	+	Frame_Shift_Del	DEL	T	T	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr10:49409420delT	ENST00000374201.3	-	15	2107	c.1805delA	c.(1804-1806)agfs	p.K602fs	FRMPD2_ENST00000407470.4_Frame_Shift_Del_p.K570fs|FRMPD2_ENST00000305531.3_Frame_Shift_Del_p.K577fs	NM_001018071.3	NP_001018081.3	Q68DX3	FRPD2_HUMAN	FERM and PDZ domain containing 2	602	FERM.				tight junction assembly	basolateral plasma membrane|cytoplasm|cytoskeleton|tight junction	1-phosphatidylinositol binding|protein binding			NS(2)|autonomic_ganglia(2)|breast(5)|cervix(1)|endometrium(3)|kidney(7)|large_intestine(15)|lung(24)|ovary(2)|prostate(1)|skin(3)|urinary_tract(1)	66				Kidney(211;0.201)		GATGGTGAACTTTTTTTGCTG	0.463													7	860	---	---	---	---					
PLAU	5328	broad.mit.edu	37	10	75673298	75673298	+	Splice_Site	DEL	A	A	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr10:75673298delA	ENST00000446342.1	+	6	893	c.409_splice	c.e6-1	p.G137_splice	PLAU_ENST00000372762.4_Splice_Site_p.G118_splice|C10orf55_ENST00000409178.1_Intron|PLAU_ENST00000372764.3_Splice_Site_p.G154_splice|C10orf55_ENST00000412307.2_Intron|PLAU_ENST00000494287.1_3'UTR	NM_001145031.1	NP_001138503.1	P00749	UROK_HUMAN	plasminogen activator, urokinase	154	Kringle.				blood coagulation|chemotaxis|fibrinolysis|proteolysis|regulation of cell adhesion mediated by integrin|regulation of receptor activity|regulation of smooth muscle cell migration|regulation of smooth muscle cell-matrix adhesion|signal transduction	cell surface|extracellular space|plasma membrane	serine-type endopeptidase activity			cervix(1)|endometrium(2)|kidney(4)|large_intestine(4)|lung(3)|ovary(2)	16	Prostate(51;0.0112)				Amiloride(DB00594)|Urokinase(DB00013)	GTCCTCCAGGAAAAAAGCCCT	0.517													7	2045	---	---	---	---					
ZMIZ1	57178	broad.mit.edu	37	10	81072446	81072446	+	Frame_Shift_Del	DEL	C	C	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr10:81072446delC	ENST00000334512.5	+	25	3716	c.3144delC	c.(3142-3144)gafs	p.D1048fs	ZMIZ1_ENST00000446377.2_Frame_Shift_Del_p.D114fs	NM_020338.3	NP_065071.1	Q9ULJ6	ZMIZ1_HUMAN	zinc finger, MIZ-type containing 1	1048					transcription, DNA-dependent	cytoplasm|nuclear speck	zinc ion binding			breast(1)|central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(5)|lung(14)|ovary(2)|prostate(3)|skin(1)	30	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	1401	---	---	---	---					
SLK	9748	broad.mit.edu	37	10	105727547	105727549	+	In_Frame_Del	DEL	AGA	AGA	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr10:105727547_105727549delAGA	ENST00000369755.3	+	1	589_591	c.44_46delAGA	c.(43-48)gag>g	p.EK15del	SLK_ENST00000335753.4_In_Frame_Del_p.EK15del	NM_014720.2	NP_055535.2	Q9H2G2	SLK_HUMAN	STE20-like kinase	15					apoptosis|nucleotide-excision repair	cytoplasm|plasma membrane	ATP binding|DNA binding|nuclease activity|protein serine/threonine kinase activity			kidney(1)|lung(1)|ovary(2)|skin(2)|stomach(2)	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	654	---	---	---	---					
OR8I2	120586	broad.mit.edu	37	11	55861308	55861308	+	Frame_Shift_Del	DEL	T	T	-	rs112181516		TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr11:55861308delT	ENST00000302124.2	+	1	556	c.525delT	c.(523-525)cafs	p.H175fs	OR8I2_ENST00000560768.1_Frame_Shift_Del_p.H175fs			Q8N0Y5	OR8I2_HUMAN	olfactory receptor, family 8, subfamily I, member 2	175					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity	p.C178fs*2(1)		NS(1)|breast(2)|endometrium(16)|haematopoietic_and_lymphoid_tissue(2)|large_intestine(4)|lung(24)|ovary(1)|skin(2)|upper_aerodigestive_tract(1)	53	Esophageal squamous(21;0.00693)					GCATCAATCATTTTTTTTGTG	0.443													8	831	---	---	---	---					
DDX10	1662	broad.mit.edu	37	11	108788635	108788637	+	In_Frame_Del	DEL	TGA	TGA	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr11:108788635_108788637delTGA	ENST00000526794.1	+	17	2372_2374	c.2340_2342delTGA	c.(2338-2343)agt>ag	p.SD780del	DDX10_ENST00000322536.3_In_Frame_Del_p.SD780del			Q13206	DDX10_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 10	780							ATP binding|ATP-dependent helicase activity|RNA binding|RNA helicase activity			breast(2)|endometrium(5)|kidney(2)|large_intestine(4)|lung(11)|pancreas(1)|prostate(2)	27		all_cancers(61;1.29e-11)|all_epithelial(67;2.96e-07)|Melanoma(852;1.54e-05)|Acute lymphoblastic leukemia(157;4.24e-05)|all_hematologic(158;0.000141)|Breast(348;0.026)|all_neural(223;0.0729)		BRCA - Breast invasive adenocarcinoma(274;2.48e-05)|Epithelial(105;4.35e-05)|all cancers(92;0.000609)|OV - Ovarian serous cystadenocarcinoma(223;0.133)		TGGATTGGAGtgatgatgatgat	0.355			T	NUP98	AML*								7	401	---	---	---	---					
ROBO3	64221	broad.mit.edu	37	11	124750448	124750453	+	In_Frame_Del	DEL	CGGAGT	CGGAGT	-	rs55725290		TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr11:124750448_124750453delCGGAGT	ENST00000397801.1	+	27	4285_4290	c.4093_4098delCGGAGT	c.(4093-4098)del	p.RS1367del	ROBO3_ENST00000543966.1_In_Frame_Del_p.RS130del|ROBO3_ENST00000538940.1_In_Frame_Del_p.RS1345del|ROBO3_ENST00000525482.1_3'UTR	NM_022370.3	NP_071765.2	Q96MS0	ROBO3_HUMAN	roundabout, axon guidance receptor, homolog 3 (Drosophila)	1367					axon midline choice point recognition	integral to membrane	receptor activity			breast(2)|central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(5)|lung(17)|ovary(1)|prostate(3)|upper_aerodigestive_tract(1)	35	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	0.660													17	22	---	---	---	---					
FAR2	55711	broad.mit.edu	37	12	29450110	29450110	+	Frame_Shift_Del	DEL	A	A	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr12:29450110delA	ENST00000182377.4	+	4	790	c.522delA	c.(520-522)ccfs	p.P174fs	FAR2_ENST00000547116.1_Frame_Shift_Del_p.P77fs|RP11-996F15.2_ENST00000553105.1_RNA|FAR2_ENST00000536681.2_Frame_Shift_Del_p.P174fs	NM_018099.3	NP_060569.3	Q96K12	FACR2_HUMAN	fatty acyl CoA reductase 2	174					ether lipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane|peroxisomal matrix|peroxisomal membrane	binding|oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor			central_nervous_system(1)|endometrium(3)|large_intestine(6)|liver(2)|lung(15)|prostate(1)|stomach(1)	29						CTGTGGAGCCAAAAAAAATCA	0.388													13	794	---	---	---	---					
OR6C75	390323	broad.mit.edu	37	12	55759192	55759192	+	Frame_Shift_Del	DEL	T	T	-	rs75456529		TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr12:55759192delT	ENST00000343399.3	+	1	298	c.298delT	c.(298-300)ttfs	p.F102fs		NM_001005497.1	NP_001005497.1	A6NL08	O6C75_HUMAN	olfactory receptor, family 6, subfamily C, member 75	102					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			endometrium(2)|large_intestine(5)|lung(11)|ovary(3)|skin(2)|upper_aerodigestive_tract(2)	25						GGCTCAGCTATTTTTTTTCAT	0.438													10	805	---	---	---	---					
MYO1A	4640	broad.mit.edu	37	12	57422572	57422573	+	Frame_Shift_Ins	INS	-	-	T			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr12:57422572_57422573insT	ENST00000442789.2	-	29	3385_3386	c.3098_3099insA	c.(3097-3099)aggfs	p.R1033fs	MYO1A_ENST00000544473.1_Frame_Shift_Ins_p.R871fs|MYO1A_ENST00000300119.3_Frame_Shift_Ins_p.R1033fs|TAC3_ENST00000415231.1_5'UTR	NM_001256041.1	NP_001242970.1	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	p.?(1)		breast(1)|cervix(1)|endometrium(5)|kidney(2)|large_intestine(12)|lung(17)|ovary(2)|skin(7)|urinary_tract(3)	50						AATGACTCCCCTTTTTTTTGTA	0.559													11	589	---	---	---	---					
TMEM19	55266	broad.mit.edu	37	12	72094757	72094757	+	Frame_Shift_Del	DEL	T	T	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr12:72094757delT	ENST00000266673.5	+	6	1587	c.993delT	c.(991-993)ggfs	p.G331fs		NM_018279.3	NP_060749.2	Q96HH6	TMM19_HUMAN	transmembrane protein 19	331						integral to membrane				large_intestine(1)|lung(8)	9		Breast(359;0.0889)		GBM - Glioblastoma multiforme(134;0.044)		CTGCTTGGGGTTTTTGGCCCA	0.433													9	1020	---	---	---	---					
TMTC3	160418	broad.mit.edu	37	12	88566417	88566417	+	Frame_Shift_Del	DEL	T	T	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr12:88566417delT	ENST00000266712.6	+	8	1314	c.1094delT	c.(1093-1095)ctfs	p.L365fs		NM_181783.3	NP_861448.2	Q6ZXV5	TMTC3_HUMAN	transmembrane and tetratricopeptide repeat containing 3	365						integral to membrane	binding			NS(1)|breast(2)|endometrium(1)|kidney(4)|large_intestine(5)|liver(1)|lung(12)|prostate(4)|skin(1)	31						GCATCGAACCTTTTTTTTCCA	0.313													13	709	---	---	---	---					
FBXO21	23014	broad.mit.edu	37	12	117624320	117624320	+	Frame_Shift_Del	DEL	A	A	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr12:117624320delA	ENST00000427718.2	-	3	506	c.432delT	c.(430-432)ttfs	p.F144fs	FBXO21_ENST00000330622.5_Frame_Shift_Del_p.F144fs|FBXO21_ENST00000549689.1_5'UTR	NM_015002.2|NM_033624.2	NP_055817.1|NP_296373.1	O94952	FBX21_HUMAN	F-box protein 21	144					ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	ubiquitin-protein ligase activity	p.F144fs*9(1)		breast(4)|endometrium(3)|kidney(2)|large_intestine(6)|lung(8)|pancreas(1)|upper_aerodigestive_tract(2)|urinary_tract(3)	29	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0291)		GTTCATCCTCAAAAAAAATCT	0.373													8	484	---	---	---	---					
SBNO1	55206	broad.mit.edu	37	12	123794283	123794283	+	Frame_Shift_Del	DEL	T	T	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr12:123794283delT	ENST00000420886.2	-	25	3415	c.3416delA	c.(3415-3417)atfs	p.N1139fs	SBNO1_ENST00000267176.4_Frame_Shift_Del_p.N1138fs|SBNO1_ENST00000602398.1_Frame_Shift_Del_p.N1139fs|SBNO1_ENST00000602750.1_Frame_Shift_Del_p.N1138fs	NM_001167856.1	NP_001161328.1	A3KN83	SBNO1_HUMAN	strawberry notch homolog 1 (Drosophila)	1139							ATP binding|DNA binding|hydrolase activity	p.N1138fs*9(1)		NS(2)|breast(6)|cervix(2)|endometrium(8)|kidney(3)|large_intestine(11)|lung(18)|ovary(2)|pancreas(1)|prostate(3)|skin(4)|stomach(2)	62	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000701)|Epithelial(86;0.00197)		ATATCTTCCATTTTTTTTGGC	0.388													13	703	---	---	---	---					
EEF1DP3	0	broad.mit.edu	37	13	32527507	32527508	+	RNA	DEL	GT	GT	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr13:32527507_32527508delGT	ENST00000428783.1	+	0	1207_1208																											TCTGGCCTGAGTGTGTGTGTGT	0.460													9	306	---	---	---	---					
LRP10	26020	broad.mit.edu	37	14	23341527	23341529	+	In_Frame_Del	DEL	CCT	CCT	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr14:23341527_23341529delCCT	ENST00000359591.4	+	1	706_708	c.15_17delCCT	c.(13-18)acc>ac	p.TL5del	LRP10_ENST00000546834.1_In_Frame_Del_p.TL5del	NM_014045.3	NP_054764.2	Q7Z4F1	LRP10_HUMAN	low density lipoprotein receptor-related protein 10	5					endocytosis	coated pit|integral to membrane				central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(6)|liver(2)|lung(7)|ovary(2)|prostate(2)|skin(5)|stomach(1)|urinary_tract(2)	32	all_cancers(95;4.69e-05)			GBM - Glioblastoma multiforme(265;0.00549)		TGTTGGCCACCCTCCTCCTCCTC	0.670													8	558	---	---	---	---					
ACIN1	22985	broad.mit.edu	37	14	23528502	23528503	+	Frame_Shift_Del	DEL	TC	TC	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr14:23528502_23528503delTC	ENST00000262710.1	-	19	4207_4208	c.3880_3881delGA	c.(3880-3882)afs	p.E1294fs	ACIN1_ENST00000605057.1_Frame_Shift_Del_p.E1236fs|ACIN1_ENST00000555053.1_Frame_Shift_Del_p.E1281fs|ACIN1_ENST00000557515.1_Frame_Shift_Del_p.E535fs|ACIN1_ENST00000457657.1_Frame_Shift_Del_p.E1254fs|ACIN1_ENST00000397341.3_Frame_Shift_Del_p.E536fs|ACIN1_ENST00000357481.2_Frame_Shift_Del_p.E536fs|ACIN1_ENST00000338631.6_Frame_Shift_Del_p.E567fs	NM_001164814.1|NM_014977.3	NP_001158286.1|NP_055792.1	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			breast(1)|endometrium(6)|kidney(4)|large_intestine(9)|lung(10)|ovary(2)|prostate(3)|skin(1)|upper_aerodigestive_tract(1)	37	all_cancers(95;1.36e-05)			GBM - Glioblastoma multiforme(265;0.00816)		ccgctccctttctctctctctc	0.629											OREG0022595	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	287	---	---	---	---					
HOMEZ	57594	broad.mit.edu	37	14	23745310	23745310	+	Frame_Shift_Del	DEL	A	A	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr14:23745310delA	ENST00000357460.5	-	2	1291	c.1127delT	c.(1126-1128)tafs	p.L376fs	HOMEZ_ENST00000561013.1_Frame_Shift_Del_p.L378fs|HOMEZ_ENST00000431326.2_Frame_Shift_Del_p.L378fs	NM_020834.2	NP_065885.2	Q8IX15	HOMEZ_HUMAN	homeobox and leucine zipper encoding	376						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity	p.L376fs*14(1)		endometrium(5)|lung(7)	12	all_cancers(95;5.54e-06)			GBM - Glioblastoma multiforme(265;0.00643)		CTGGCACTGTAAAAAAAAGGA	0.488													7	321	---	---	---	---					
FBXO33	254170	broad.mit.edu	37	14	39871612	39871612	+	Frame_Shift_Del	DEL	T	T	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr14:39871612delT	ENST00000298097.7	-	2	1040	c.703delA	c.(703-705)ttfs	p.I235fs	FBXO33_ENST00000554190.1_Intron	NM_203301.3	NP_976046.1	Q7Z6M2	FBX33_HUMAN	F-box protein 33	235										endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(1)|lung(4)|urinary_tract(1)	9	Hepatocellular(127;0.213)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00121)|Epithelial(34;0.169)	GBM - Glioblastoma multiforme(112;0.0425)		TACTGTTTAATTTTTTTGCCA	0.323													7	272	---	---	---	---					
SIPA1L1	26037	broad.mit.edu	37	14	72190482	72190484	+	In_Frame_Del	DEL	TCC	TCC	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr14:72190482_72190484delTCC	ENST00000555818.1	+	16	4738_4740	c.4390_4392delTCC	c.(4390-4392)del	p.S1468del	SIPA1L1_ENST00000537413.1_In_Frame_Del_p.S922del|SIPA1L1_ENST00000358550.2_In_Frame_Del_p.S1447del|SIPA1L1_ENST00000554874.1_3'UTR|SIPA1L1_ENST00000381232.3_In_Frame_Del_p.S1447del	NM_015556.1	NP_056371.1	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like 1	1468	Ser-rich.				actin cytoskeleton reorganization|activation of Rap GTPase activity|regulation of dendritic spine morphogenesis	cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane|synaptosome	GTPase activator activity			NS(1)|breast(4)|central_nervous_system(1)|cervix(1)|endometrium(11)|kidney(1)|large_intestine(22)|liver(2)|lung(25)|ovary(3)|prostate(3)|skin(3)|stomach(1)	78				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)		ctcctcctcttcctcctcctcct	0.552													8	801	---	---	---	---					
HERC2	8924	broad.mit.edu	37	15	28515875	28515876	+	Frame_Shift_Ins	INS	-	-	TC			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr15:28515875_28515876insTC	ENST00000261609.7	-	10	1330_1331	c.1222_1223insGA	c.(1222-1224)gccfs	p.A408fs		NM_004667.5	NP_004658.3	O95714	HERC2_HUMAN	HECT and RLD domain containing E3 ubiquitin protein ligase 2	408					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			NS(1)|autonomic_ganglia(1)|breast(3)|central_nervous_system(3)|cervix(3)|endometrium(20)|kidney(11)|large_intestine(33)|lung(95)|ovary(7)|prostate(8)|skin(7)|upper_aerodigestive_tract(8)|urinary_tract(4)	204		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		CAGCGGAGGCATACAGGGCGTA	0.515													9	385	---	---	---	---					
SPATA5L1	79029	broad.mit.edu	37	15	45710840	45710841	+	Frame_Shift_Ins	INS	-	-	T			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr15:45710840_45710841insT	ENST00000305560.6	+	7	2153_2154	c.2054_2055insT	c.(2053-2055)tttfs	p.F685fs	SPATA5L1_ENST00000533841.1_3'UTR	NM_024063.2	NP_076968.2	Q9BVQ7	SPA5L_HUMAN	spermatogenesis associated 5-like 1	685						cytoplasm	ATP binding|nucleoside-triphosphatase activity			kidney(2)|large_intestine(3)|lung(1)|ovary(3)|prostate(3)|skin(1)|upper_aerodigestive_tract(1)	14		Lung NSC(122;8.3e-05)|all_lung(180;0.000547)|Melanoma(134;0.0417)		all cancers(107;7.31e-17)|GBM - Glioblastoma multiforme(94;6.28e-07)		GCAGAAACCTGTTTTTTTTCTG	0.361													8	426	---	---	---	---					
TCF12	6938	broad.mit.edu	37	15	57489984	57489984	+	Frame_Shift_Del	DEL	A	A	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr15:57489984delA	ENST00000267811.5	+	8	844	c.540delA	c.(538-540)gcfs	p.A180fs	TCF12_ENST00000333725.5_Frame_Shift_Del_p.A180fs|TCF12_ENST00000557843.1_Frame_Shift_Del_p.A180fs|TCF12_ENST00000452095.2_Frame_Shift_Del_p.A176fs|TCF12_ENST00000438423.2_Frame_Shift_Del_p.A180fs	NM_003205.3|NM_207038.1	NP_003196.1|NP_996921.1	Q99081	HTF4_HUMAN	transcription factor 12	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		TCF12/NR4A3(2)	breast(2)|central_nervous_system(5)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(1)|lung(13)|ovary(2)|prostate(1)|skin(2)|urinary_tract(1)	36		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								10	541	---	---	---	---					
SLTM	79811	broad.mit.edu	37	15	59182525	59182526	+	Frame_Shift_Del	DEL	TC	TC	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr15:59182525_59182526delTC	ENST00000380516.2	-	15	2120_2121	c.2033_2034delGA	c.(2032-2034)afs	p.R678fs	SLTM_ENST00000536328.1_Frame_Shift_Del_p.R247fs|AC025918.2_ENST00000452467.1_RNA	NM_001013843.1|NM_024755.2	NP_001013865.1|NP_079031.2	Q9NWH9	SLTM_HUMAN	SAFB-like, transcription modulator	678	Arg/Glu-rich.				apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleotide binding|RNA binding			breast(1)|endometrium(3)|kidney(1)|large_intestine(9)|lung(10)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	28						CGCGTTCCATTCTCTCTCTCTC	0.431													12	925	---	---	---	---					
KIAA1024	23251	broad.mit.edu	37	15	79750586	79750586	+	Frame_Shift_Del	DEL	A	A	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr15:79750586delA	ENST00000305428.3	+	2	2172	c.2097delA	c.(2095-2097)ttfs	p.L699fs		NM_015206.2	NP_056021.1	Q9UPX6	K1024_HUMAN	KIAA1024	699						integral to membrane				central_nervous_system(2)|cervix(1)|endometrium(3)|kidney(2)|large_intestine(13)|lung(23)|ovary(2)|pancreas(2)|prostate(1)	49						TCAAGGCCTTAAAAAAAAGCC	0.542													8	773	---	---	---	---					
C15orf40	123207	broad.mit.edu	37	15	83674354	83674354	+	Frame_Shift_Del	DEL	T	T	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr15:83674354delT	ENST00000304177.5	-	4	490	c.376delA	c.(376-378)cafs	p.T126fs	C15orf40_ENST00000538348.2_Intron|RP11-382A20.5_ENST00000566841.1_RNA|C15orf40_ENST00000565712.1_Frame_Shift_Del_p.T68fs|C15orf40_ENST00000451195.3_Intron|C15orf40_ENST00000513601.2_Frame_Shift_Del_p.T153fs	NM_001160114.1|NM_144597.2	NP_001153586.1|NP_653198.2	Q8WUR7	CO040_HUMAN	chromosome 15 open reading frame 40	126										large_intestine(3)|lung(2)|skin(1)	6						TGCTTTTATGTTTTTTTGGCT	0.488													7	855	---	---	---	---					
RP11-420N3.2	0	broad.mit.edu	37	16	5313074	5313076	+	RNA	DEL	GGT	GGT	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr16:5313074_5313076delGGT	ENST00000569895.1	+	0	304																											GCAGggtgacggtggtggtggtg	0.483													7	234	---	---	---	---					
RP11-51O6.1	0	broad.mit.edu	37	16	61089303	61089303	+	RNA	DEL	T	T	-	rs80101907		TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr16:61089303delT	ENST00000591758.1	-	0	565																											Cttcttcttcttttttttttt	0.244													7	124	---	---	---	---					
SLC9A5	6553	broad.mit.edu	37	16	67300017	67300019	+	In_Frame_Del	DEL	GAG	GAG	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr16:67300017_67300019delGAG	ENST00000299798.11	+	15	2172_2174	c.2107_2109delGAG	c.(2107-2109)del	p.E708del		NM_004594.2	NP_004585.1	Q14940	SL9A5_HUMAN	solute carrier family 9, subfamily A (NHE5, cation proton antiporter 5), member 5	708					regulation of pH	integral to membrane|plasma membrane	sodium:hydrogen antiporter activity			breast(1)|cervix(1)|endometrium(5)|kidney(4)|large_intestine(3)|lung(9)|ovary(2)|pancreas(1)|prostate(1)	27		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00376)|Epithelial(162;0.0173)|all cancers(182;0.116)		CGTGGAGTCTGAGGAGGAGGAGG	0.571													14	333	---	---	---	---					
SLC7A6	9057	broad.mit.edu	37	16	68330539	68330539	+	Frame_Shift_Del	DEL	T	T	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr16:68330539delT	ENST00000566454.1	+	11	1548	c.1279delT	c.(1279-1281)ttfs	p.F428fs	SLC7A6_ENST00000219343.6_Frame_Shift_Del_p.F428fs	NM_001076785.2	NP_001070253.1	Q92536	YLAT2_HUMAN	solute carrier family 7 (amino acid transporter light chain, y+L system), member 6	428					blood coagulation|cellular amino acid metabolic process|ion transport|leukocyte migration|protein complex assembly	basolateral plasma membrane|integral to plasma membrane	amino acid transmembrane transporter activity|antiporter activity			breast(1)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(4)|prostate(1)|skin(1)	16		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.034)|Epithelial(162;0.0948)		GCTGAGCGTGTTTTTCCCCAT	0.522													7	1203	---	---	---	---					
AFG3L1P	0	broad.mit.edu	37	16	90053797	90053797	+	RNA	DEL	G	G	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr16:90053797delG	ENST00000437774.1	+	0	731					NR_003226.1																						aggtggaggaggtggaggagg	0.647													3	4	---	---	---	---					
KDM6B	23135	broad.mit.edu	37	17	7750177	7750178	+	In_Frame_Ins	INS	-	-	ACCACC	rs61462443		TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr17:7750177_7750178insACCACC	ENST00000254846.5	+	9	1141_1142	c.752_753insACCACC	c.(751-753)tcc>tACCACCcc	p.251_251S>YHP	KDM6B_ENST00000448097.2_In_Frame_Ins_p.251_251S>YHP	NM_001080424.1	NP_001073893.1	O15054	KDM6B_HUMAN	lysine (K)-specific demethylase 6B	251	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)|cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(3)|lung(18)|ovary(1)|pancreas(1)|skin(5)	37						ccaccaccattaccaccaccac	0.614													10	115	---	---	---	---					
MYH10	4628	broad.mit.edu	37	17	8397095	8397097	+	In_Frame_Del	DEL	CCT	CCT	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr17:8397095_8397097delCCT	ENST00000360416.3	-	32	4301_4303	c.4163_4165delAGG	c.(4162-4167)gcc>g	p.EA1388del	MYH10_ENST00000269243.4_In_Frame_Del_p.EA1357del|MYH10_ENST00000396239.1_In_Frame_Del_p.EA1378del|MYH10_ENST00000379980.4_In_Frame_Del_p.EA1373del	NM_001256012.1	NP_001242941.1	P35580	MYH10_HUMAN	myosin, heavy chain 10, non-muscle	1357					actin filament-based movement|axon guidance|cytokinesis after mitosis|regulation of cell shape	cell cortex|cleavage furrow|midbody|myosin complex|stress fiber	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity			breast(5)|endometrium(9)|kidney(2)|large_intestine(16)|lung(9)|ovary(3)|prostate(3)|skin(4)|stomach(1)	52						TTCTTCCTGGCCTCCTCCTCCTC	0.596													7	310	---	---	---	---					
PLCD3	113026	broad.mit.edu	37	17	43192760	43192762	+	In_Frame_Del	DEL	TCC	TCC	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr17:43192760_43192762delTCC	ENST00000322765.5	-	9	1622_1624	c.1509_1511delGGA	c.(1507-1512)gat>ga	p.ED503del	PLCD3_ENST00000540511.1_5'UTR	NM_133373.3	NP_588614.1	Q8N3E9	PLCD3_HUMAN	phospholipase C, delta 3	503					intracellular signal transduction|lipid catabolic process	cleavage furrow|cytoplasm|membrane	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity	p.E503D(2)		breast(2)|endometrium(2)|large_intestine(3)|lung(5)|prostate(1)|stomach(2)|urinary_tract(2)	17					Phosphatidylserine(DB00144)	ctcctcgtcatcctcctcctcct	0.670													8	85	---	---	---	---					
RP11-156P1.3	0	broad.mit.edu	37	17	45128638	45128638	+	RNA	DEL	G	G	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr17:45128638delG	ENST00000575173.1	-	0	418																											Gtttttttttgttttgttttt	0.323													16	498	---	---	---	---					
RP11-156P1.3	0	broad.mit.edu	37	17	45128639	45128639	+	RNA	DEL	T	T	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr17:45128639delT	ENST00000575173.1	-	0	418																											tttttttttgttttgtttttt	0.323													10	510	---	---	---	---					
SOGA2	23255	broad.mit.edu	37	18	8793004	8793004	+	Frame_Shift_Del	DEL	C	C	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr18:8793004delC	ENST00000359865.3	+	8	2038	c.1896delC	c.(1894-1896)ggfs	p.G632fs	SOGA2_ENST00000306285.7_5'UTR|SOGA2_ENST00000518815.1_Intron|SOGA2_ENST00000400050.3_Intron|SOGA2_ENST00000517570.1_Intron|SOGA2_ENST00000306329.11_Intron	NM_015210.3	NP_056025.2	Q9Y4B5	CC165_HUMAN	SOGA family member 2	980																	AGCTCAGGGGCCCCCCCGTTT	0.552													7	1095	---	---	---	---					
MBD3	53615	broad.mit.edu	37	19	1578372	1578374	+	In_Frame_Del	DEL	CTC	CTC	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr19:1578372_1578374delCTC	ENST00000590550.2	-	5	1046_1048	c.673_675delGAG	c.(673-675)del	p.E225del	MBD3_ENST00000592012.1_In_Frame_Del_p.E249del|MBD3_ENST00000434436.3_In_Frame_Del_p.E281del|MBD3_ENST00000156825.1_In_Frame_Del_p.E281del			O95983	MBD3_HUMAN	methyl-CpG binding domain protein 3	281					transcription, DNA-dependent	NuRD complex	DNA binding|protein binding			central_nervous_system(1)|large_intestine(1)|lung(2)|ovary(1)|pancreas(1)|skin(1)|upper_aerodigestive_tract(1)	8		Acute lymphoblastic leukemia(61;3.02e-13)|all_hematologic(61;4.32e-09)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|Lung(535;0.179)|STAD - Stomach adenocarcinoma(1328;0.18)		CCGGGTCGGGctcctcctcctcc	0.714													8	193	---	---	---	---					
TNFSF9	8744	broad.mit.edu	37	19	6531149	6531151	+	In_Frame_Del	DEL	GCT	GCT	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr19:6531149_6531151delGCT	ENST00000245817.3	+	1	140_142	c.102_104delGCT	c.(100-105)ggg>gg	p.GL34del		NM_003811.3	NP_003802.1	P41273	TNFL9_HUMAN	tumor necrosis factor (ligand) superfamily, member 9	34					apoptosis|cell proliferation|cell-cell signaling|immune response|signal transduction	extracellular space|integral to membrane	cytokine activity|tumor necrosis factor receptor binding			central_nervous_system(1)|lung(1)|ovary(1)|prostate(1)|skin(1)	5						TGGTCGCGGGgctgctgctgctg	0.768													9	289	---	---	---	---					
TSHZ3	57616	broad.mit.edu	37	19	31769141	31769142	+	Frame_Shift_Ins	INS	-	-	C			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr19:31769141_31769142insC	ENST00000240587.4	-	2	1884_1885	c.1557_1558insG	c.(1555-1560)ggttgafs	p.*520fs		NM_020856.2	NP_065907.2	Q63HK5	TSH3_HUMAN	teashirt zinc finger homeobox 3	520					negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			breast(4)|endometrium(15)|kidney(9)|large_intestine(20)|lung(60)|ovary(4)|pancreas(2)|prostate(4)|skin(5)	123	Esophageal squamous(110;0.226)					AGGATATCAAGCCCCCCCTTGG	0.500													8	1212	---	---	---	---					
HAMP	57817	broad.mit.edu	37	19	35773520	35773522	+	In_Frame_Del	DEL	CTC	CTC	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr19:35773520_35773522delCTC	ENST00000598398.1	+	2	336_338	c.40_42delCTC	c.(40-42)del	p.L18del	HAMP_ENST00000222304.3_In_Frame_Del_p.L18del	NM_021175.2	NP_066998.1	P81172	HEPC_HUMAN	hepcidin antimicrobial peptide	18					defense response to bacterium|defense response to fungus|immune response|killing of cells of other organism	extracellular region	hormone activity			breast(1)|central_nervous_system(1)|large_intestine(1)|lung(1)	4	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													13	964	---	---	---	---					
PRX	57716	broad.mit.edu	37	19	40900180	40900182	+	In_Frame_Del	DEL	TCC	TCC	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr19:40900180_40900182delTCC	ENST00000324001.7	-	7	4347_4349	c.4077_4079delGGA	c.(4075-4080)gaa>ga	p.EE1359del	PRX_ENST00000291825.7_3'UTR	NM_181882.2	NP_870998.2	Q9BXM0	PRAX_HUMAN	periaxin	1359	Poly-Glu.		Missing.		axon ensheathment	cytoplasm|nucleus|plasma membrane	protein binding			breast(1)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(7)|lung(12)|ovary(2)|prostate(3)|skin(1)|urinary_tract(9)	47			Lung(22;6.24e-05)|LUSC - Lung squamous cell carcinoma(20;0.000384)			ACTGCcctcttcctcctcctcct	0.695													8	143	---	---	---	---					
ERF	2077	broad.mit.edu	37	19	42753149	42753151	+	In_Frame_Del	DEL	GAA	GAA	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr19:42753149_42753151delGAA	ENST00000222329.4	-	4	1270_1272	c.1113_1115delTTC	c.(1111-1116)tcc>tc	p.SS371del	AC006486.9_ENST00000594664.1_Intron|ERF_ENST00000440177.2_In_Frame_Del_p.SS296del	NM_006494.2	NP_006485.2	P50548	ERF_HUMAN	Ets2 repressor factor	371	Poly-Ser.				cell proliferation|regulation of transcription from RNA polymerase II promoter	nucleus	ligand-regulated transcription factor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			central_nervous_system(1)|cervix(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(5)|lung(7)|skin(1)	17		Prostate(69;0.00682)				GAATGGGGAGGAAGAAGAAGAAG	0.680													7	600	---	---	---	---					
RSPH6A	81492	broad.mit.edu	37	19	46299165	46299167	+	In_Frame_Del	DEL	CCT	CCT	-	rs62639328	byFrequency	TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr19:46299165_46299167delCCT	ENST00000221538.3	-	6	2256_2258	c.2114_2116delAGG	c.(2113-2118)ggc>g	p.EG705del	RSPH6A_ENST00000597055.1_3'UTR|RSPH6A_ENST00000600188.1_In_Frame_Del_p.EG441del	NM_030785.3	NP_110412.1	Q9H0K4	RSH6A_HUMAN	radial spoke head 6 homolog A (Chlamydomonas)	705	Glu-rich.					intracellular				central_nervous_system(1)|cervix(1)|endometrium(2)|kidney(1)|large_intestine(6)|liver(1)|lung(14)|ovary(2)|prostate(1)|skin(1)|urinary_tract(2)	32						tcctcctcgccctcctcctcctc	0.586													14	974	---	---	---	---					
FLT3LG	0	broad.mit.edu	37	19	49978960	49978962	+	In_Frame_Del	DEL	CTG	CTG	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr19:49978960_49978962delCTG	ENST00000594009.1	+	2	125_127	c.46_48delCTG	c.(46-48)del	p.L20del	FLT3LG_ENST00000204637.2_5'UTR|FLT3LG_ENST00000344019.3_In_Frame_Del_p.L20del|FLT3LG_ENST00000596435.1_In_Frame_Del_p.L20del|FLT3LG_ENST00000595510.1_5'UTR|FLT3LG_ENST00000595815.1_3'UTR|CTD-3148I10.9_ENST00000599536.1_Intron|FLT3LG_ENST00000600429.1_In_Frame_Del_p.L20del|FLT3LG_ENST00000597551.1_In_Frame_Del_p.L20del	NM_001204503.1	NP_001191432.1	P49771	FLT3L_HUMAN	fms-related tyrosine kinase 3 ligand	20					positive regulation of cell proliferation|signal transduction	extracellular space|integral to membrane|plasma membrane|soluble fraction	cytokine activity			large_intestine(2)|lung(3)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)	10		all_lung(116;1.62e-07)|Lung NSC(112;8.47e-07)|all_neural(266;0.0381)|Ovarian(192;0.0392)		OV - Ovarian serous cystadenocarcinoma(262;0.00154)|GBM - Glioblastoma multiforme(486;0.0246)		CTATCTCCTCCTGCTGCTGCTGC	0.621													8	397	---	---	---	---					
FUZ	80199	broad.mit.edu	37	19	50310483	50310485	+	In_Frame_Del	DEL	CAG	CAG	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr19:50310483_50310485delCAG	ENST00000313777.4	-	11	1343_1345	c.1180_1182delCTG	c.(1180-1182)del	p.L394del	FUZ_ENST00000445575.2_Intron|FUZ_ENST00000528094.1_In_Frame_Del_p.L358del|FUZ_ENST00000533418.1_In_Frame_Del_p.L344del	NM_025129.4	NP_079405.2	Q9BT04	FUZZY_HUMAN	fuzzy planar cell polarity protein	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				endometrium(1)|lung(3)	4		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													11	293	---	---	---	---					
SLC23A2	9962	broad.mit.edu	37	20	4850569	4850569	+	Frame_Shift_Del	DEL	G	G	-	rs138961929		TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr20:4850569delG	ENST00000379333.1	-	12	1625	c.1233delC	c.(1231-1233)ccfs	p.P411fs	SLC23A2_ENST00000338244.1_Frame_Shift_Del_p.P411fs|SLC23A2_ENST00000424750.2_Frame_Shift_Del_p.P297fs|SLC23A2_ENST00000468355.1_5'UTR	NM_203327.1	NP_976072.1	Q9UGH3	S23A2_HUMAN	solute carrier family 23 (ascorbic acid transporter), member 2	411					L-ascorbic acid metabolic process|molecular hydrogen transport|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|transepithelial L-ascorbic acid transport	apical plasma membrane|integral to plasma membrane|membrane fraction	nucleobase transmembrane transporter activity|sodium-dependent L-ascorbate transmembrane transporter activity|sodium-dependent multivitamin transmembrane transporter activity	p.I412fs*4(1)		endometrium(1)|kidney(3)|large_intestine(9)|lung(7)|ovary(3)|prostate(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	27						TTGCGTGGATGGGGGGGGGTG	0.527													19	525	---	---	---	---					
DSTN	11034	broad.mit.edu	37	20	17581679	17581680	+	Frame_Shift_Ins	INS	-	-	T			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr20:17581679_17581680insT	ENST00000246069.6	+	2	646_647	c.300_301insT	c.(298-303)atttttfs	p.IF100fs	DSTN_ENST00000474024.1_3'UTR|DSTN_ENST00000543261.1_Frame_Shift_Ins_p.IF83fs	NM_006870.3	NP_006861.1	P60981	DEST_HUMAN	destrin (actin depolymerizing factor)	100	ADF-H.				actin filament severing|actin polymerization or depolymerization		actin binding			endometrium(1)|large_intestine(5)|lung(8)|skin(1)	15						AAGAGTTGATGTTTTTTTTGTG	0.356													8	428	---	---	---	---					
PLA2G3	50487	broad.mit.edu	37	22	31536134	31536135	+	Frame_Shift_Ins	INS	-	-	T			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr22:31536134_31536135insT	ENST00000215885.3	-	1	458_459	c.206_207insA	c.(205-207)ctcfs	p.L69fs		NM_015715.3	NP_056530.2	Q9NZ20	PA2G3_HUMAN	phospholipase A2, group III	69					cilium morphogenesis|lipid catabolic process|phospholipid metabolic process	centriole|extracellular space|plasma membrane	calcium ion binding|calcium-dependent phospholipase A2 activity			large_intestine(1)|lung(10)|ovary(1)|prostate(2)|skin(3)|urinary_tract(1)	18						AGCTACATGACTGCAGCCTCCT	0.649													7	565	---	---	---	---					
PICK1	9463	broad.mit.edu	37	22	38471034	38471036	+	In_Frame_Del	DEL	GGA	GGA	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr22:38471034_38471036delGGA	ENST00000404072.3	+	13	1490_1492	c.1143_1145delGGA	c.(1141-1146)ggg>gg	p.GE381del	PICK1_ENST00000356976.3_In_Frame_Del_p.GE381del	NM_001039583.1|NM_001039584.1	NP_001034672.1|NP_001034673.1	Q9NRD5	PICK1_HUMAN	protein interacting with PRKCA 1	381					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|DNA methylation involved in embryo development|DNA methylation involved in gamete generation|monoamine transport|neuronal ion channel clustering|protein phosphorylation|receptor clustering|retrograde vesicle-mediated transport, Golgi to ER|synaptic transmission	cell junction|endocytic vesicle membrane|Golgi apparatus|perinuclear region of cytoplasm|presynaptic membrane	ATPase activity|metal ion binding|protein C-terminus binding|protein kinase C binding|receptor binding			cervix(1)|endometrium(3)|large_intestine(1)|lung(6)|prostate(1)|upper_aerodigestive_tract(1)	13	Melanoma(58;0.045)					TCACAGATGGggaggaggaggag	0.635													7	147	---	---	---	---					
ARFGAP3	26286	broad.mit.edu	37	22	43218401	43218401	+	Frame_Shift_Del	DEL	T	T	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chr22:43218401delT	ENST00000263245.5	-	9	906	c.687delA	c.(685-687)aafs	p.K229fs	ARFGAP3_ENST00000429508.2_Frame_Shift_Del_p.K157fs|ARFGAP3_ENST00000437119.2_Frame_Shift_Del_p.K185fs	NM_001142293.1|NM_014570.4	NP_001135765.1|NP_055385.3	Q9NP61	ARFG3_HUMAN	ADP-ribosylation factor GTPase activating protein 3	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(3)|endometrium(1)|kidney(1)|large_intestine(3)|lung(2)|ovary(1)	11						CCAAACTTCCTTTTTTGGCCC	0.423													7	794	---	---	---	---					
ATRX	546	broad.mit.edu	37	X	76907782	76907784	+	In_Frame_Del	DEL	TCC	TCC	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chrX:76907782_76907784delTCC	ENST00000373344.5	-	15	4591_4593	c.4377_4379delGGA	c.(4375-4380)gaa>ga	p.EE1463del	ATRX_ENST00000480283.1_5'UTR|ATRX_ENST00000395603.3_In_Frame_Del_p.EE1425del	NM_000489.3	NP_000480.2	P46100	ATRX_HUMAN	alpha thalassemia/mental retardation syndrome X-linked	1463	Poly-Glu.				DNA methylation|DNA recombination|DNA repair|regulation of transcription, DNA-dependent	nuclear heterochromatin	ATP binding|chromo shadow domain binding|DNA binding|DNA helicase activity|zinc ion binding	p.?(1)		bone(1)|breast(6)|central_nervous_system(31)|cervix(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(15)|kidney(14)|large_intestine(1)|liver(1)|lung(40)|ovary(2)|pancreas(13)|prostate(5)|skin(2)|upper_aerodigestive_tract(3)|urinary_tract(2)	145					Phosphatidylserine(DB00144)	ctcctcctcttcctcctcctcct	0.389			"""Mis, F, N"""		"""Pancreatic neuroendocrine tumors, paediatric GBM"""		ATR-X (alpha thalassemia/mental retardation) syndrome						7	351	---	---	---	---					
MAMLD1	10046	broad.mit.edu	37	X	149639325	149639327	+	In_Frame_Del	DEL	CAG	CAG	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chrX:149639325_149639327delCAG	ENST00000370401.2	+	4	1790_1792	c.1480_1482delCAG	c.(1480-1482)del	p.Q502del	MAMLD1_ENST00000426613.2_In_Frame_Del_p.Q477del|MAMLD1_ENST00000432680.2_In_Frame_Del_p.Q477del|MAMLD1_ENST00000262858.5_In_Frame_Del_p.Q502del|MAMLD1_ENST00000455522.2_5'UTR			Q13495	MAMD1_HUMAN	mastermind-like domain containing 1	502	Poly-Gln.				male gonad development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus		p.Q469Q(1)|p.Q494Q(1)|p.Q421Q(1)		breast(1)|endometrium(4)|kidney(3)|large_intestine(12)|lung(14)|ovary(1)|prostate(2)	37	Acute lymphoblastic leukemia(192;6.56e-05)					AAGCcagcaacagcagcagcagc	0.532													9	231	---	---	---	---					
PASD1	139135	broad.mit.edu	37	X	150817142	150817144	+	In_Frame_Del	DEL	GCT	GCT	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chrX:150817142_150817144delGCT	ENST00000370357.4	+	9	930_932	c.685_687delGCT	c.(685-687)del	p.A236del		NM_173493.2	NP_775764.2	Q8IV76	PASD1_HUMAN	PAS domain containing 1	236	Poly-Ala.					nucleus	signal transducer activity	p.A229A(2)		breast(2)|cervix(1)|endometrium(5)|kidney(2)|large_intestine(3)|liver(1)|lung(25)|ovary(3)|pancreas(1)|prostate(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	48	Acute lymphoblastic leukemia(192;6.56e-05)					CGTTGAACCCgctgctgctgctg	0.433													13	446	---	---	---	---					
RPL10	6134	broad.mit.edu	37	X	153627860	153627860	+	Frame_Shift_Del	DEL	A	A	-			TCGA-F2-7273-01A-11D-2154-08	TCGA-F2-7273-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c3063058-e144-41a9-86f7-6e7a637bb797	fcff255b-3e83-4128-884c-2ec890589827	g.chrX:153627860delA	ENST00000424325.2	+	4	303	c.115delA	c.(115-117)aafs	p.K40fs	RPL10_ENST00000369817.2_Frame_Shift_Del_p.K40fs|RPL10_ENST00000406022.2_5'UTR	NM_001256577.1|NM_001256580.1|NM_006013.3	NP_001243506.1|NP_001243509.1|NP_006004.2	P27635	RL10_HUMAN	ribosomal protein L10	40					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit|endoplasmic reticulum	structural constituent of ribosome			large_intestine(1)|lung(4)|ovary(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	8	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					CCTGGGGCGGAAAAAGGCAAA	0.512											OREG0019957	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	644	---	---	---	---					
