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
CNTLN	54875	broad.mit.edu	37	9	17416086	17416086	+	Missense_Mutation	SNP	G	G	A			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr9:17416086G>A	ENST00000380647.3	+	18	3097	c.3013G>A	c.(3013-3015)Gca>Aca	p.A1005T	CNTLN_ENST00000262360.5_Missense_Mutation_p.A1005T|CNTLN_ENST00000425824.1_Missense_Mutation_p.A1005T			Q9NXG0	CNTLN_HUMAN	centlein, centrosomal protein	1005						centriole|membrane	two-component sensor activity			breast(6)|central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(5)|kidney(3)|large_intestine(10)|lung(17)|ovary(1)|pancreas(1)|prostate(3)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	53				GBM - Glioblastoma multiforme(50;6.14e-10)		CAAGAAAACAGCAGAATTGTC	0.348000													101	224					0	0	1	0	0
RP11-423O2.5	0	broad.mit.edu	37	1	142803586	142803586	+	RNA	SNP	A	A	T			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr1:142803586A>T	ENST00000423385.1	-	0	1379																											GATTTAAAAAATTATGTTAAC	0.274000													12	691					0	0	1	0	0
PTH2	113091	broad.mit.edu	37	19	49926533	49926533	+	Missense_Mutation	SNP	G	G	C			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr19:49926533G>C	ENST00000270631.1	-	1	165	c.64C>G	c.(64-66)Ctg>Gtg	p.L22V		NM_178449.3	NP_848544.1	Q96A98	TIP39_HUMAN	parathyroid hormone 2	22					neuropeptide signaling pathway	extracellular region		p.L22V(2)		endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|skin(1)	6				OV - Ovarian serous cystadenocarcinoma(262;0.0015)|GBM - Glioblastoma multiforme(486;0.044)|Lung(386;0.0785)|LUSC - Lung squamous cell carcinoma(496;0.0836)		GGCACCACcagcagcagcagc	0.692000													3	58					0	0	1	0	0
AGAP7	653268	broad.mit.edu	37	10	51465226	51465226	+	Silent	SNP	T	T	G	rs1047416		TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr10:51465226T>G	ENST00000374095.5	-	7	1355	c.1230A>C	c.(1228-1230)gcA>gcC	p.A410A		NM_001077685.1	NP_001071153.1	Q5VUJ5	AGAP7_HUMAN	ArfGAP with GTPase domain, ankyrin repeat and PH domain 7	410	PH.				regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding			kidney(1)|large_intestine(1)|lung(7)|ovary(1)|skin(1)	11						CTTGGACCCATGCATCCCGCT	0.542000													8	768					0	0	1	0	0
ZNF778	197320	broad.mit.edu	37	16	89294760	89294760	+	Silent	SNP	G	G	A			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr16:89294760G>A	ENST00000433976.2	+	6	2312	c.1980G>A	c.(1978-1980)ctG>ctA	p.L660L	ZNF778_ENST00000306502.6_Silent_p.L618L|RP11-46C24.6_ENST00000563182.1_RNA	NM_001201407.1|NM_182531.3	NP_001188336.1|NP_872337.2	Q96MU6	ZN778_HUMAN	zinc finger protein 778	660					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			endometrium(4)|kidney(1)|large_intestine(4)|lung(11)|prostate(2)|skin(2)	24				BRCA - Breast invasive adenocarcinoma(80;0.0269)		CCTCTCACCTGCATAAACATG	0.413000													4	130					0	0	1	0	0
MIR329-1	0	broad.mit.edu	37	14	101493161	101493161	+	RNA	SNP	A	A	T			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr14:101493161A>T	ENST00000385028.1	+	0	40					NR_029967.1																						TGTTTCTTTAATGAGGACGAA	0.468000													9	1085					0	0	1	0	0
FRG1	2483	broad.mit.edu	37	4	190874240	190874240	+	Missense_Mutation	SNP	C	C	G			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr4:190874240C>G	ENST00000226798.4	+	4	499	c.277C>G	c.(277-279)Cct>Gct	p.P93A	FRG1_ENST00000514482.1_3'UTR	NM_004477.2	NP_004468.1	Q14331	FRG1_HUMAN	FSHD region gene 1	93					rRNA processing	Cajal body|catalytic step 2 spliceosome|nuclear speck|nucleolus				NS(2)|breast(1)|central_nervous_system(1)|endometrium(2)|lung(11)|ovary(1)|pancreas(1)|prostate(5)|skin(7)|urinary_tract(1)	32		all_cancers(14;1.44e-58)|all_epithelial(14;6.32e-41)|all_lung(41;8.13e-17)|Lung NSC(41;2.13e-16)|Breast(6;2.54e-06)|Melanoma(20;0.000263)|Hepatocellular(41;0.00213)|Renal(120;0.0183)|all_hematologic(60;0.0358)|Prostate(90;0.0421)|all_neural(102;0.147)		all cancers(3;1.73e-30)|Epithelial(3;5.85e-30)|OV - Ovarian serous cystadenocarcinoma(60;5.56e-15)|BRCA - Breast invasive adenocarcinoma(30;9.14e-06)|Lung(3;3.54e-05)|STAD - Stomach adenocarcinoma(60;8.83e-05)|LUSC - Lung squamous cell carcinoma(40;0.000198)|GBM - Glioblastoma multiforme(59;0.00892)|READ - Rectum adenocarcinoma(43;0.161)		GGGCCCTAGTCCTCCAGAGCA	0.284000													5	195					0	0	1	0	0
BRWD1	54014	broad.mit.edu	37	21	40578075	40578075	+	Silent	SNP	C	C	T			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr21:40578075C>T	ENST00000342449.3	-	37	4401	c.4323G>A	c.(4321-4323)cgG>cgA	p.R1441R	BRWD1_ENST00000380800.3_Silent_p.R1441R|BRWD1_ENST00000333229.2_Silent_p.R1441R	NM_033656.3	NP_387505.1	Q9NSI6	BRWD1_HUMAN	bromodomain and WD repeat domain containing 1	1441					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				cervix(2)|endometrium(6)|kidney(8)|large_intestine(14)|liver(2)|lung(13)|ovary(1)|pancreas(1)|prostate(2)|skin(7)|urinary_tract(2)	58		Prostate(19;8.44e-08)|all_epithelial(19;0.223)				TACAATTTTGCCGTTGCTTGA	0.333000													7	830					0	0	1	0	0
ABHD6	57406	broad.mit.edu	37	3	58242348	58242348	+	Missense_Mutation	SNP	C	C	T			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr3:58242348C>T	ENST00000478253.1	+	3	536	c.35C>T	c.(34-36)gCg>gTg	p.A12V	ABHD6_ENST00000295962.4_Missense_Mutation_p.A12V			Q9BV23	ABHD6_HUMAN	abhydrolase domain containing 6	12						integral to membrane	acylglycerol lipase activity			NS(1)|endometrium(3)|kidney(1)|large_intestine(2)|lung(5)|ovary(2)|prostate(1)|skin(1)	16				BRCA - Breast invasive adenocarcinoma(55;0.000225)|KIRC - Kidney renal clear cell carcinoma(284;0.0471)|Kidney(284;0.0589)|OV - Ovarian serous cystadenocarcinoma(275;0.209)		TTTGTGATTGCGGGCGGCACG	0.463000													5	286					0	0	1	0	0
PPP1R13B	23368	broad.mit.edu	37	14	104205286	104205286	+	Silent	SNP	C	C	T			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr14:104205286C>T	ENST00000202556.9	-	13	2949	c.2667G>A	c.(2665-2667)ctG>ctA	p.L889L	PPP1R13B_ENST00000423488.2_Silent_p.L308L|PPP1R13B_ENST00000555391.1_5'UTR	NM_015316.2	NP_056131.2	Q96KQ4	ASPP1_HUMAN	protein phosphatase 1, regulatory subunit 13B	889					apoptosis|induction of apoptosis|negative regulation of cell cycle	cytoplasm|nucleus|plasma membrane	protein binding			endometrium(6)|kidney(2)|large_intestine(7)|lung(16)|ovary(1)|upper_aerodigestive_tract(1)	33		all_cancers(154;0.173)|all_epithelial(191;0.131)|Melanoma(154;0.155)				GGAGCAGTGCCAGGGGGTTAA	0.602000													9	565					0	0	1	0	0
MST1L	0	broad.mit.edu	37	1	17083652	17083652	+	RNA	SNP	C	C	T	rs113710576	by1000genomes	TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr1:17083652C>T	ENST00000455405.2	-	0	936																											aaatctcaaccttgagtacaa	0.388000													11	212					0	0	1	0	0
ANKRD20A8P	0	broad.mit.edu	37	2	95522815	95522815	+	RNA	SNP	A	A	G			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr2:95522815A>G	ENST00000432432.2	-	0	212					NR_040113.1																						ATCTTCTGCAATTCGGAGTCC	0.652000													8	282					0	0	1	0	0
ANKRD20A8P	0	broad.mit.edu	37	2	95522772	95522772	+	RNA	SNP	T	T	C			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr2:95522772T>C	ENST00000432432.2	-	0	255					NR_040113.1													p.E49G(1)									GCGCTCCACCTCCGCGGCGTC	0.682000													9	201					0	0	1	0	0
FRG1B	0	broad.mit.edu	37	20	29628243	29628243	+	Missense_Mutation	SNP	T	T	C			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr20:29628243T>C	ENST00000278882.3	+	6	625	c.245T>C	c.(244-246)tTg>tCg	p.L82S	FRG1B_ENST00000358464.4_Missense_Mutation_p.L82S|FRG1B_ENST00000439954.2_Missense_Mutation_p.L87S														p.L82S(2)		endometrium(10)|kidney(21)|lung(3)|pancreas(1)|prostate(9)|urinary_tract(9)	53						ATGGCTTTGTTGGCCTCAAAT	0.363000													11	654					0	0	1	0	0
ASTN1	460	broad.mit.edu	37	1	177133612	177133612	+	Silent	SNP	G	G	A			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr1:177133612G>A	ENST00000367654.2	-	1	214	c.201C>T	c.(199-201)ctC>ctT	p.L67L	ASTN1_ENST00000367657.3_Silent_p.L67L|ASTN1_ENST00000281881.3_5'UTR|ASTN1_ENST00000361833.2_Silent_p.L67L|ASTN1_ENST00000424564.2_Silent_p.L67L			O14525	ASTN1_HUMAN	astrotactin 1	67					cell migration|neuron cell-cell adhesion	integral to membrane				NS(4)|breast(5)|central_nervous_system(2)|cervix(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(23)|liver(1)|lung(81)|ovary(6)|prostate(5)|skin(10)|urinary_tract(3)	153						GCACCGAGAAGAGGAGCTTGG	0.627000													42	84					0	0	1	0	0
SIX2	10736	broad.mit.edu	37	2	45236176	45236176	+	Missense_Mutation	SNP	C	C	T			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr2:45236176C>T	ENST00000303077.6	-	1	393	c.74G>A	c.(73-75)gGc>gAc	p.G25D		NM_016932.4	NP_058628.3	Q9NPC8	SIX2_HUMAN	SIX homeobox 2	25						nucleus	sequence-specific DNA binding transcription factor activity	p.G25V(1)		endometrium(6)|large_intestine(3)|lung(8)|pancreas(1)|prostate(2)|upper_aerodigestive_tract(2)	22		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)				CTCGATGTTGCCGCCCTGCTG	0.682000													4	95					0	0	1	0	0
IMPACT	55364	broad.mit.edu	37	18	22008866	22008866	+	Missense_Mutation	SNP	C	C	T			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr18:22008866C>T	ENST00000284202.4	+	3	340	c.199C>T	c.(199-201)Cca>Tca	p.P67S		NM_018439.3	NP_060909.1	Q9P2X3	IMPCT_HUMAN	impact RWD domain protein	67	RWD.									endometrium(1)|large_intestine(3)|lung(9)|skin(1)|upper_aerodigestive_tract(2)	16	all_cancers(21;0.00018)|all_epithelial(16;1.5e-06)|Lung NSC(20;0.0027)|all_lung(20;0.0085)|Colorectal(14;0.0361)|Ovarian(20;0.0991)					AGGTACAGCTCCACCTATCTA	0.338000													5	273					0	0	1	0	0
CPSF1	29894	broad.mit.edu	37	8	145620126	145620126	+	Nonsense_Mutation	SNP	G	G	A			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr8:145620126G>A	ENST00000349769.3	-	30	3479	c.3385C>T	c.(3385-3387)Cag>Tag	p.Q1129*		NM_013291.2	NP_037423.2	Q10570	CPSF1_HUMAN	cleavage and polyadenylation specific factor 1, 160kDa	1129					mRNA cleavage|mRNA export from nucleus|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage and polyadenylation specificity factor complex	mRNA 3'-UTR binding|protein binding			NS(1)|autonomic_ganglia(1)|breast(2)|central_nervous_system(2)|cervix(1)|endometrium(4)|kidney(3)|large_intestine(5)|lung(15)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	38	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.88e-41)|Epithelial(56;1.67e-40)|all cancers(56;1.2e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0323)|Colorectal(110;0.055)			TCCTCCCCCTGCATGAGGCAG	0.667000													4	181					0	0	1	0	0
PTCH1	5727	broad.mit.edu	37	9	98242854	98242854	+	Missense_Mutation	SNP	G	G	A			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr9:98242854G>A	ENST00000430669.2	-	6	1150	c.565C>T	c.(565-567)Cgg>Tgg	p.R189W	PTCH1_ENST00000437951.1_Missense_Mutation_p.R189W|PTCH1_ENST00000331920.6_Missense_Mutation_p.R255W|PTCH1_ENST00000418258.1_Missense_Mutation_p.R104W|PTCH1_ENST00000421141.1_Missense_Mutation_p.R104W|PTCH1_ENST00000548379.1_5'UTR|PTCH1_ENST00000429896.2_Missense_Mutation_p.R104W|PTCH1_ENST00000375274.2_Missense_Mutation_p.R254W			Q13635	PTC1_HUMAN	patched 1	255					embryonic limb morphogenesis|negative regulation of multicellular organism growth|protein processing|regulation of smoothened signaling pathway|smoothened signaling pathway	integral to plasma membrane	hedgehog receptor activity			NS(8)|bone(33)|breast(10)|central_nervous_system(95)|cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(8)|kidney(2)|large_intestine(18)|lung(22)|meninges(1)|oesophagus(3)|ovary(6)|prostate(2)|skin(262)|upper_aerodigestive_tract(11)|urinary_tract(2)|vulva(1)	490		Medulloblastoma(1;7.87e-06)|all_neural(1;0.000555)|Acute lymphoblastic leukemia(62;0.136)				TTTGTCCACCGCAAAGGAGGT	0.458000													5	344					0	0	1	0	0
PRPF8	10594	broad.mit.edu	37	17	1556843	1556843	+	Missense_Mutation	SNP	C	C	T			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr17:1556843C>T	ENST00000572621.1	-	38	6627	c.6362G>A	c.(6361-6363)cGg>cAg	p.R2121Q	PRPF8_ENST00000575116.1_5'UTR|PRPF8_ENST00000304992.6_Missense_Mutation_p.R2121Q			Q6P2Q9	PRP8_HUMAN	pre-mRNA processing factor 8	2121	MPN.					catalytic step 2 spliceosome|nuclear speck|U5 snRNP	protein binding|RNA binding			NS(1)|autonomic_ganglia(1)|breast(2)|endometrium(11)|haematopoietic_and_lymphoid_tissue(3)|kidney(8)|large_intestine(13)|lung(24)|ovary(2)|prostate(2)|skin(2)|upper_aerodigestive_tract(5)|urinary_tract(3)	77				UCEC - Uterine corpus endometrioid carcinoma (25;0.0855)		CACTTGGGCCCGAAGGTCAGA	0.463000													4	313					0	0	1	0	0
MYO18B	84700	broad.mit.edu	37	22	26219533	26219533	+	Silent	SNP	C	C	T			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr22:26219533C>T	ENST00000335473.7	+	13	2833	c.2583C>T	c.(2581-2583)tgC>tgT	p.C861C	MYO18B_ENST00000407587.2_Silent_p.C861C|MYO18B_ENST00000536101.1_Silent_p.C861C	NM_032608.5	NP_115997.5	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	861	Myosin head-like.					nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			NS(2)|breast(6)|central_nervous_system(3)|endometrium(12)|haematopoietic_and_lymphoid_tissue(4)|kidney(5)|large_intestine(27)|liver(2)|lung(60)|ovary(7)|prostate(8)|skin(6)|upper_aerodigestive_tract(2)|urinary_tract(2)	146						CCCTGGGCTGCGAGTATGAGG	0.582000													6	455					0	0	1	0	0
ANKRD20A8P	0	broad.mit.edu	37	2	95522786	95522786	+	RNA	SNP	T	T	C			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr2:95522786T>C	ENST00000432432.2	-	0	241					NR_040113.1													p.K44K(1)									CGGCGTCGCCTTTGACAGCTG	0.687000													9	238					0	0	1	0	0
TUBB8P7	0	broad.mit.edu	37	16	90162513	90162513	+	RNA	SNP	T	T	C			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr16:90162513T>C	ENST00000564451.1	+	0	1866				TUBB8P7_ENST00000567960.1_RNA														p.N415N(2)									GCAACATGAATGACCTGGTGT	0.537000													6	482					0	0	1	0	0
GTPBP6	8225	broad.mit.edu	37	X	224472	224472	+	Missense_Mutation	SNP	G	G	A			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chrX:224472G>A	ENST00000326153.4	-	4	513	c.514C>T	c.(514-516)Cgt>Tgt	p.R172C				O43824	GTPB6_HUMAN	GTP binding protein 6 (putative)	401						intracellular	GTP binding			breast(1)|cervix(1)|endometrium(1)|kidney(1)|lung(3)	7		all_cancers(21;9e-05)|all_epithelial(21;6.22e-06)|all_lung(23;0.000597)|Lung NSC(23;0.00901)|Lung SC(21;0.186)				TGCAGGCCACGCAGCGTGGAC	0.677000													3	31					0	0	1	0	0
CROCCP2	0	broad.mit.edu	37	1	16959834	16959834	+	RNA	SNP	G	G	T	rs150284826	by1000genomes	TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr1:16959834G>T	ENST00000412962.1	-	0	23																											CCCAGCTGCAGCGGGTCCCTT	0.642000													5	44					0.248553	0.251254	1	1	0
EPPK1	83481	broad.mit.edu	37	8	144944616	144944616	+	Missense_Mutation	SNP	G	G	A			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr8:144944616G>A	ENST00000525985.1	-	2	2877	c.2806C>T	c.(2806-2808)Cgg>Tgg	p.R936W				P58107	EPIPL_HUMAN	epiplakin 1	936						cytoplasm|cytoskeleton	protein binding|structural molecule activity			NS(1)|autonomic_ganglia(1)|breast(1)|central_nervous_system(5)|cervix(1)|endometrium(8)|kidney(4)|large_intestine(2)|lung(30)|ovary(2)|pancreas(1)|prostate(10)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	71	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			GGCAGCAGCCGCACACCGCCC	0.711000													5	118					0	0	1	0	0
DCST2	127579	broad.mit.edu	37	1	154996955	154996955	+	Missense_Mutation	SNP	C	C	T			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr1:154996955C>T	ENST00000368424.3	-	11	1793	c.1735G>A	c.(1735-1737)Gcc>Acc	p.A579T	DCST2_ENST00000295536.5_Missense_Mutation_p.A579T	NM_144622.2	NP_653223.2	Q5T1A1	DCST2_HUMAN	DC-STAMP domain containing 2	579						integral to membrane				breast(1)|central_nervous_system(1)|endometrium(6)|kidney(2)|large_intestine(10)|lung(13)|ovary(3)|prostate(1)|skin(1)	38	all_epithelial(22;2.77e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			CACCGACTGGCCAGCACTAGG	0.562000													5	290					0	0	1	0	0
ADCY3	109	broad.mit.edu	37	2	25046089	25046089	+	Missense_Mutation	SNP	C	C	T			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr2:25046089C>T	ENST00000260600.5	-	17	3723	c.2872G>A	c.(2872-2874)Gat>Aat	p.D958N	ADCY3_ENST00000405392.1_Missense_Mutation_p.D545N	NM_004036.3	NP_004027.2	O60266	ADCY3_HUMAN	adenylate cyclase 3	958					activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|sensory perception of smell|synaptic transmission|transmembrane transport|water transport	cytoplasm|integral to plasma membrane	ATP binding|calmodulin binding|metal ion binding			NS(1)|breast(5)|endometrium(7)|kidney(1)|large_intestine(7)|lung(14)|ovary(3)|prostate(4)|skin(2)	44	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.203)					GAGTCAAAATCTGAGATGATT	0.502000													10	107					0	0	1	0	0
ZNF91	7644	broad.mit.edu	37	19	23544783	23544783	+	Missense_Mutation	SNP	C	C	T	rs410211		TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr19:23544783C>T	ENST00000300619.7	-	4	1203	c.998G>A	c.(997-999)cGt>cAt	p.R333H	ZNF91_ENST00000397082.2_Missense_Mutation_p.R301H|ZNF91_ENST00000599743.1_Intron	NM_003430.2	NP_003421.2	Q05481	ZNF91_HUMAN	zinc finger protein 91	333				R -> H (in Ref. 1; AAA59469).		nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding	p.R333H(1)					all_lung(12;0.0349)|Lung NSC(12;0.0538)|all_epithelial(12;0.0611)				GGTTGAAGAACGGCTAAAAGC	0.393000													6	592					0	0	1	0	0
GOLGA6B	55889	broad.mit.edu	37	15	72954797	72954797	+	Missense_Mutation	SNP	T	T	C			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr15:72954797T>C	ENST00000421285.3	+	11	1052	c.1052T>C	c.(1051-1053)gTg>gCg	p.V351A		NM_018652.4	NP_061122.4	A6NDN3	GOG6B_HUMAN	golgin A6 family, member B	351								p.V351A(4)		NS(1)|breast(1)|endometrium(1)|lung(8)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)	16						GAGCAGGAGGTGCAGAGAGTG	0.562000													6	348					0	0	1	0	0
EDEM2	55741	broad.mit.edu	37	20	33722547	33722547	+	Silent	SNP	G	G	A			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr20:33722547G>A	ENST00000540582.1	-	10	1294	c.573C>T	c.(571-573)atC>atT	p.I191I	EDEM2_ENST00000542871.1_Intron|EDEM2_ENST00000374492.3_Silent_p.I232I|EDEM2_ENST00000374491.2_Silent_p.I195I|EDEM2_ENST00000541621.1_5'UTR			Q9BV94	EDEM2_HUMAN	ER degradation enhancer, mannosidase alpha-like 2	232					post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine|response to unfolded protein	endoplasmic reticulum lumen|endoplasmic reticulum membrane|extracellular region	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity|misfolded protein binding			breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(10)|prostate(1)|stomach(1)|upper_aerodigestive_tract(2)	22			BRCA - Breast invasive adenocarcinoma(18;0.00936)			CTACCAGCCCGATATCTGACC	0.562000													18	241					0	0	1	0	0
KMT2D	8085	broad.mit.edu	37	12	49440044	49440044	+	Splice_Site	SNP	G	G	A			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr12:49440044G>A	ENST00000301067.7	-	16	4581	c.4583_splice	c.e16+1	p.R1528_splice		NM_003482.3	NP_003473.3			lysine (K)-specific methyltransferase 2D																		TGTTCTCACCGTTCACAGTGG	0.547000													4	195					0	0	1	0	0
UBB	7314	broad.mit.edu	37	17	16285560	16285560	+	Silent	SNP	T	T	C			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr17:16285560T>C	ENST00000302182.3	+	2	731	c.339T>C	c.(337-339)ccT>ccC	p.P113P	UBB_ENST00000578649.1_Intron|RP11-138I1.4_ENST00000583934.1_RNA|UBB_ENST00000395837.1_Silent_p.P113P|UBB_ENST00000395839.1_Silent_p.P113P|UBB_ENST00000535788.1_Intron	NM_018955.2	NP_061828.1	P0CG47	UBB_HUMAN	ubiquitin B	113	Ubiquitin-like 2.				activation of MAPK activity|anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|anti-apoptosis|apoptosis|cellular membrane organization|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA repair|endosome transport|epidermal growth factor receptor signaling pathway|G1/S transition of mitotic cell cycle|I-kappaB kinase/NF-kappaB cascade|induction of apoptosis by extracellular signals|innate immune response|JNK cascade|M/G1 transition of mitotic cell cycle|mRNA metabolic process|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of type I interferon production|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|S phase of mitotic cell cycle|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|viral reproduction	cytosol|endocytic vesicle membrane|endosome membrane|nucleoplasm|plasma membrane	protein binding			breast(1)|central_nervous_system(1)|endometrium(2)|large_intestine(2)|lung(3)|prostate(2)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	16				UCEC - Uterine corpus endometrioid carcinoma (92;0.0822)		AAGGCATCCCTCCCGACCAGC	0.557000													6	653					0	0	1	0	0
KBTBD6	89890	broad.mit.edu	37	13	41705440	41705440	+	Missense_Mutation	SNP	G	G	T			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr13:41705440G>T	ENST00000379485.1	-	1	1442	c.1208C>A	c.(1207-1209)aCa>aAa	p.T403K	KBTBD6_ENST00000499385.2_Missense_Mutation_p.T337K	NM_152903.4	NP_690867.3	Q86V97	KBTB6_HUMAN	kelch repeat and BTB (POZ) domain containing 6	403							protein binding	p.T403K(7)		NS(1)|breast(1)|endometrium(8)|kidney(4)|large_intestine(9)|lung(9)|ovary(1)|prostate(2)|skin(4)|urinary_tract(4)	43		Lung NSC(96;4.52e-06)|Breast(139;0.00123)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)		all cancers(112;4.08e-09)|Epithelial(112;4.74e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000131)|GBM - Glioblastoma multiforme(144;0.000876)|BRCA - Breast invasive adenocarcinoma(63;0.0673)		CCAGAGGTCTGTCCTGGGCTG	0.507000													6	588					7.03913e-09	7.52458e-09	1	1	0
TRPM2	7226	broad.mit.edu	37	21	45798964	45798964	+	Missense_Mutation	SNP	G	G	A			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr21:45798964G>A	ENST00000397928.1	+	8	1544	c.1099G>A	c.(1099-1101)Gcc>Acc	p.A367T	TRPM2_ENST00000300482.5_Missense_Mutation_p.A367T|TRPM2_ENST00000300481.9_Missense_Mutation_p.A367T|TRPM2_ENST00000498430.1_3'UTR|TRPM2_ENST00000397932.2_Missense_Mutation_p.A367T	NM_003307.3	NP_003298.1	O94759	TRPM2_HUMAN	transient receptor potential cation channel, subfamily M, member 2	367						integral to plasma membrane	ADP-ribose diphosphatase activity|calcium channel activity|sodium channel activity			breast(3)|central_nervous_system(2)|endometrium(4)|kidney(3)|large_intestine(15)|lung(29)|ovary(3)|pancreas(1)|prostate(5)|skin(7)|upper_aerodigestive_tract(3)|urinary_tract(1)	76						TGCCCAGGTGGCCAACCTGCC	0.597000													5	273					0	0	1	0	0
RGPD8	727851	broad.mit.edu	37	2	113127775	113127775	+	Missense_Mutation	SNP	G	G	C			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr2:113127775G>C	ENST00000302558.3	-	23	5469	c.5278C>G	c.(5278-5280)Cct>Gct	p.P1760A	RGPD8_ENST00000409750.1_Missense_Mutation_p.P1620A	NM_001164463.1	NP_001157935.1			RANBP2-like and GRIP domain containing 8									p.P1760A(12)		endometrium(4)|kidney(1)|lung(1)|prostate(3)|urinary_tract(1)	10						GAACGGGAAGGATTTTCTTCC	0.308000													5	352					0	0	1	0	0
OR12D2	26529	broad.mit.edu	37	6	29365088	29365088	+	Silent	SNP	T	T	C	rs144790258	by1000genomes	TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr6:29365088T>C	ENST00000383555.2	+	1	673	c.612T>C	c.(610-612)atT>atC	p.I204I	OR5V1_ENST00000377154.1_Intron	NM_013936.3	NP_039224.2	P58182	O12D2_HUMAN	olfactory receptor, family 12, subfamily D, member 2 (gene/pseudogene)	204					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|lung(20)|ovary(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(2)	31						CGGGGACAATTGCCATGGGCC	0.443000													9	664					0	0	1	0	0
ZNRD1-AS1	0	broad.mit.edu	37	6	29977342	29977342	+	RNA	SNP	A	A	T	rs116382006	by1000genomes	TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr6:29977342A>T	ENST00000376797.3	-	0	731				HLA-J_ENST00000462773.1_RNA|ZNRD1-AS1_ENST00000420251.1_RNA|ZNRD1-AS1_ENST00000425604.1_RNA|ZNRD1-AS1_ENST00000448093.1_RNA																							TGGGACTGAGAGGCAAGATTT	0.438000													12	430					0	0	1	0	0
UBC	7316	broad.mit.edu	37	12	125396503	125396503	+	Silent	SNP	G	G	A	rs6657		TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr12:125396503G>A	ENST00000536769.1	-	1	3391	c.1815C>T	c.(1813-1815)ctC>ctT	p.L605L	UBC_ENST00000339647.5_Silent_p.L605L|UBC_ENST00000538617.1_Silent_p.L225L|UBC_ENST00000546120.1_Silent_p.L529L			P0CG48	UBC_HUMAN	ubiquitin C	605	Ubiquitin-like 8.				activation of MAPK activity|anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|anti-apoptosis|apoptosis|cellular membrane organization|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA repair|endosome transport|epidermal growth factor receptor signaling pathway|G1/S transition of mitotic cell cycle|I-kappaB kinase/NF-kappaB cascade|induction of apoptosis by extracellular signals|innate immune response|JNK cascade|M/G1 transition of mitotic cell cycle|mRNA metabolic process|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of type I interferon production|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|S phase of mitotic cell cycle|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|viral reproduction	cytosol|endocytic vesicle membrane|endosome membrane|nucleoplasm|plasma membrane	protein binding	p.L605L(1)		breast(3)|endometrium(4)|kidney(4)|large_intestine(2)|lung(13)|ovary(3)|prostate(4)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	36	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;6.17e-05)|Epithelial(86;0.000207)|all cancers(50;0.00308)		TCCCACCTCTGAGACGGAGCA	0.537000													9	714					0	0	1	0	0
XYLT2	64132	broad.mit.edu	37	17	48437468	48437468	+	Missense_Mutation	SNP	G	G	A			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr17:48437468G>A	ENST00000017003.2	+	11	2463	c.2414G>A	c.(2413-2415)gGc>gAc	p.G805D	XYLT2_ENST00000507602.1_Intron	NM_022167.2	NP_071450.2	Q9H1B5	XYLT2_HUMAN	xylosyltransferase II	805					glycosaminoglycan biosynthetic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	acetylglucosaminyltransferase activity|protein xylosyltransferase activity			endometrium(2)|kidney(2)|large_intestine(4)|pancreas(1)|prostate(2)|urinary_tract(1)	12	Breast(11;7.18e-19)					CAGCTCACAGGCCCTGCGCTC	0.657000													5	155					0	0	1	0	0
LRP2BP	55805	broad.mit.edu	37	4	186298198	186298198	+	Translation_Start_Site	SNP	C	C	T			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr4:186298198C>T	ENST00000510776.1	-	1	1974	c.3G>A	c.(1-3)atG>atA	p.M1I	LRP2BP_ENST00000362004.3_Intron|LRP2BP_ENST00000328559.7_Intron|RP11-714G18.1_ENST00000514884.1_RNA|LRP2BP_ENST00000505916.1_Intron			Q9P2M1	LR2BP_HUMAN	LRP2 binding protein	0						cytoplasm	protein binding			breast(1)|endometrium(2)|large_intestine(6)|lung(3)|prostate(1)|skin(2)	15		all_lung(41;1.3e-11)|Lung NSC(41;2.25e-11)|Melanoma(20;0.00109)|Colorectal(36;0.0215)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_hematologic(60;0.0749)		all cancers(43;2.14e-25)|Epithelial(43;1.55e-22)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-11)|BRCA - Breast invasive adenocarcinoma(30;8.01e-05)|GBM - Glioblastoma multiforme(59;0.000132)|STAD - Stomach adenocarcinoma(60;0.000766)|Colorectal(24;0.00116)|LUSC - Lung squamous cell carcinoma(40;0.00904)|COAD - Colon adenocarcinoma(29;0.0101)|READ - Rectum adenocarcinoma(43;0.161)		TAAGGAATTCCATCAACCACA	0.358000													47	90					0	0	1	0	0
DENND4C	55667	broad.mit.edu	37	9	19316732	19316732	+	Missense_Mutation	SNP	C	C	T			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr9:19316732C>T	ENST00000380432.2	+	8	1027	c.994C>T	c.(994-996)Cgc>Tgc	p.R332C	DENND4C_ENST00000434457.2_Missense_Mutation_p.R568C|DENND4C_ENST00000602925.1_Missense_Mutation_p.R568C|DENND4C_ENST00000307015.9_5'UTR	NM_017925.4	NP_060395.5	Q5VZ89	DEN4C_HUMAN	DENN/MADD domain containing 4C	332	dDENN.					integral to membrane				breast(1)|endometrium(8)|kidney(1)|large_intestine(7)|liver(2)|lung(13)|ovary(1)|prostate(2)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	40						GGCATTTTTGCGCTTTATGGC	0.413000													7	599					0	0	1	0	0
GLI2	2736	broad.mit.edu	37	2	121726395	121726395	+	Missense_Mutation	SNP	G	G	A			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr2:121726395G>A	ENST00000452319.1	+	6	809	c.749G>A	c.(748-750)cGc>cAc	p.R250H	GLI2_ENST00000361492.4_Missense_Mutation_p.R250H|GLI2_ENST00000314490.11_5'UTR|GLI2_ENST00000435313.2_3'UTR			P10070	GLI2_HUMAN	GLI family zinc finger 2	250					axon guidance|branching morphogenesis of a tube|cell proliferation|cerebellar cortex morphogenesis|developmental growth|embryonic digestive tract development|epidermal cell differentiation|floor plate formation|heart development|hindgut morphogenesis|kidney development|lung development|negative regulation of transcription from RNA polymerase II promoter|odontogenesis of dentine-containing tooth|osteoblast development|osteoblast differentiation|pituitary gland development|positive regulation of DNA replication|positive regulation of T cell differentiation in thymus|positive regulation of transcription from RNA polymerase II promoter|proximal/distal pattern formation|skeletal system development|smoothened signaling pathway involved in ventral spinal cord interneuron specification|spinal cord ventral commissure morphogenesis	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			NS(1)|breast(3)|central_nervous_system(4)|endometrium(3)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(7)|lung(24)|ovary(8)|pancreas(1)|prostate(2)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(1)	64	Renal(3;0.0496)	Prostate(154;0.0623)				CGGATGATCCGCACCTCACCC	0.667000													5	275					0	0	1	0	0
FRG1B	0	broad.mit.edu	37	20	29628245	29628245	+	Missense_Mutation	SNP	G	G	A			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr20:29628245G>A	ENST00000278882.3	+	6	627	c.247G>A	c.(247-249)Gcc>Acc	p.A83T	FRG1B_ENST00000358464.4_Missense_Mutation_p.A83T|FRG1B_ENST00000439954.2_Missense_Mutation_p.A88T														p.A83T(2)		endometrium(10)|kidney(21)|lung(3)|pancreas(1)|prostate(9)|urinary_tract(9)	53						GGCTTTGTTGGCCTCAAATAG	0.353000													10	647					0	0	1	0	0
CFTR	1080	broad.mit.edu	37	7	117188877	117188877	+	Splice_Site	SNP	G	G	T			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr7:117188877G>T	ENST00000003084.6	+	10	1524	c.1392_splice	c.e10+1	p.K464_splice	CFTR_ENST00000454343.1_Intron	NM_000492.3	NP_000483.3	P13569	CFTR_HUMAN	cystic fibrosis transmembrane conductance regulator (ATP-binding cassette sub-family C, member 7)	464	ABC transporter 1.				respiratory gaseous exchange	apical plasma membrane|basolateral plasma membrane|chloride channel complex|early endosome membrane	ATP binding|ATP-binding and phosphorylation-dependent chloride channel activity|channel-conductance-controlling ATPase activity|chloride channel regulator activity|enzyme binding|PDZ domain binding			NS(1)|breast(2)|central_nervous_system(2)|cervix(1)|endometrium(5)|kidney(6)|large_intestine(15)|lung(22)|ovary(2)|pancreas(1)|prostate(3)|skin(9)	69	Lung NSC(10;0.00148)|all_lung(10;0.00171)		STAD - Stomach adenocarcinoma(10;0.000534)		Bumetanide(DB00887)|Glibenclamide(DB01016)	GAGCAGGCAAGGTAGTTCTTT	0.373000									Cystic Fibrosis				5	199					0.00010058	0.000106295	1	1	0
ETV3L	440695	broad.mit.edu	37	1	157068573	157068573	+	Silent	SNP	C	C	T			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr1:157068573C>T	ENST00000454449.2	-	3	695	c.411G>A	c.(409-411)ccG>ccA	p.P137P		NM_001004341.2	NP_001004341.1	Q6ZN32	ETV3L_HUMAN	ets variant 3-like	137						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)|central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|lung(9)|ovary(2)|prostate(2)|skin(2)|upper_aerodigestive_tract(2)	24	Hepatocellular(266;0.158)	Prostate(1639;0.184)				GGGGGGATGGCGGCGCCCGCA	0.592000													6	336					0	0	1	0	0
TICAM2	353376	broad.mit.edu	37	5	114916434	114916434	+	Missense_Mutation	SNP	G	G	A			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr5:114916434G>A	ENST00000408996.4	-	4	1413	c.1027C>T	c.(1027-1029)Cgg>Tgg	p.R343W	TMED7-TICAM2_ENST00000333314.3_3'UTR|TICAM2_ENST00000427199.2_Missense_Mutation_p.R174W|TMED7-TICAM2_ENST00000282382.4_Missense_Mutation_p.R343W	NM_001164468.2|NM_001164469.2	NP_001157940.1|NP_001157941.1			toll-like receptor adaptor molecule 2											cervix(1)|kidney(1)|lung(2)|soft_tissue(1)	5		all_cancers(142;0.0223)|all_epithelial(76;0.000869)|Prostate(80;0.0115)|Ovarian(225;0.156)		OV - Ovarian serous cystadenocarcinoma(64;4.38e-07)|Epithelial(69;1.62e-06)|all cancers(49;6.93e-05)		TTCAGGGGCCGCATGGGTATA	0.438000													6	503					0	0	1	0	0
CARM1	10498	broad.mit.edu	37	19	11022906	11022906	+	Missense_Mutation	SNP	C	C	T			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr19:11022906C>T	ENST00000327064.4	+	5	795	c.605C>T	c.(604-606)gCc>gTc	p.A202V	CARM1_ENST00000344150.4_Missense_Mutation_p.A202V	NM_199141.1	NP_954592.1	Q86X55	CARM1_HUMAN	coactivator-associated arginine methyltransferase 1	202					cellular lipid metabolic process|histone H3-R2 methylation|interspecies interaction between organisms|pathogenesis|positive regulation of fat cell differentiation|regulation of estrogen receptor signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleoplasm	beta-catenin binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-R17 specific)|ligand-dependent nuclear receptor transcription coactivator activity|protein-arginine omega-N asymmetric methyltransferase activity|transcription regulatory region DNA binding	p.A202V(2)		breast(1)|central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(2)|lung(4)|urinary_tract(1)	13						TCGTTTTTTGCCGCCCAAGCT	0.622000													9	898					0	0	1	0	0
FRG1B	0	broad.mit.edu	37	20	29625885	29625885	+	Missense_Mutation	SNP	A	A	T			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr20:29625885A>T	ENST00000278882.3	+	5	509	c.129A>T	c.(127-129)aaA>aaT	p.K43N	FRG1B_ENST00000358464.4_Missense_Mutation_p.K43N|FRG1B_ENST00000439954.2_Missense_Mutation_p.K48N														p.K43N(2)		endometrium(10)|kidney(21)|lung(3)|pancreas(1)|prostate(9)|urinary_tract(9)	53						TCGCCCTGAAATCTGGCTATG	0.353000													14	663					0	0	1	0	0
CDK12	51755	broad.mit.edu	37	17	37650878	37650878	+	Silent	SNP	C	C	A			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr17:37650878C>A	ENST00000447079.4	+	5	2383	c.2350C>A	c.(2350-2352)Cga>Aga	p.R784R	CDK12_ENST00000430627.2_Silent_p.R784R	NM_015083.1|NM_016507.2	NP_055898.1|NP_057591.2	Q9NYV4	CDK12_HUMAN	cyclin-dependent kinase 12	784	Protein kinase.				mRNA processing|phosphorylation of RNA polymerase II C-terminal domain|protein autophosphorylation|regulation of MAP kinase activity|RNA splicing	nuclear cyclin-dependent protein kinase holoenzyme complex|nuclear speck|nucleolus	ATP binding|cyclin-dependent protein kinase activity|protein binding|RNA polymerase II carboxy-terminal domain kinase activity			NS(4)|breast(3)|endometrium(5)|kidney(4)|large_intestine(11)|lung(23)|ovary(11)|prostate(4)|skin(2)|urinary_tract(3)	70						GTTAatccaccgaagtgttgt	0.403000			"""Mis, N, F"""		serous ovarian					TCGA Ovarian(9;0.13)			5	131					0.014758	0.0152499	1	1	0
MAGI1	9223	broad.mit.edu	37	3	65425588	65425588	+	Silent	SNP	C	C	T	rs139785185		TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr3:65425588C>T	ENST00000330909.8	-	9	1235	c.1236G>A	c.(1234-1236)caG>caA	p.Q412Q	MAGI1_ENST00000497477.2_Silent_p.Q412Q|MAGI1_ENST00000483466.1_Silent_p.Q412Q|MAGI1_ENST00000402939.2_Silent_p.Q412Q|MAGI1_ENST00000470990.1_5'UTR	NM_015520.1	NP_056335.1	Q96QZ7	MAGI1_HUMAN	membrane associated guanylate kinase, WW and PDZ domain containing 1	412	Poly-Gln.				cell adhesion|cell surface receptor linked signaling pathway|protein complex assembly	tight junction	ATP binding|protein C-terminus binding			breast(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(11)|liver(1)|lung(21)|pancreas(1)|skin(5)	51		Lung NSC(201;0.0016)		BRCA - Breast invasive adenocarcinoma(55;0.00138)|KIRC - Kidney renal clear cell carcinoma(15;0.0988)|Kidney(15;0.133)		gctgctgctgctgttgctgct	0.537000											OREG0015658	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	219					0	0	1	0	0
POLR1A	25885	broad.mit.edu	37	2	86272753	86272753	+	Missense_Mutation	SNP	C	C	T			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr2:86272753C>T	ENST00000263857.6	-	20	3251	c.2873G>A	c.(2872-2874)gGc>gAc	p.G958D	POLR1A_ENST00000409681.1_Missense_Mutation_p.G958D			O95602	RPA1_HUMAN	polymerase (RNA) I polypeptide A, 194kDa	958					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	DNA-directed RNA polymerase I complex|nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|protein binding|zinc ion binding			NS(1)|breast(4)|cervix(2)|endometrium(8)|kidney(3)|large_intestine(12)|liver(1)|lung(20)|ovary(3)|prostate(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(5)	63						AGGTTTGATGCCGGTGAGGAA	0.512000													6	429					0	0	1	0	0
CPD	1362	broad.mit.edu	37	17	28772820	28772820	+	Silent	SNP	A	A	G			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr17:28772820A>G	ENST00000225719.4	+	12	2731	c.2655A>G	c.(2653-2655)aaA>aaG	p.K885K	CPD_ENST00000543464.2_Silent_p.K638K	NM_001304.4	NP_001295.2	O75976	CBPD_HUMAN	carboxypeptidase D	885	Carboxypeptidase-like 2.				proteolysis	integral to membrane	metallocarboxypeptidase activity|serine-type carboxypeptidase activity|zinc ion binding			central_nervous_system(1)|endometrium(4)|kidney(1)|large_intestine(9)|liver(1)|lung(13)|skin(5)|stomach(1)|urinary_tract(1)	36						AGAAAGGAAAAGGGGCTAGCA	0.413000													4	266					0	0	1	0	0
VCL	7414	broad.mit.edu	37	10	75854102	75854102	+	Missense_Mutation	SNP	A	A	G			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr10:75854102A>G	ENST00000211998.4	+	11	1520	c.1426A>G	c.(1426-1428)Aaa>Gaa	p.K476E	VCL_ENST00000372755.3_Missense_Mutation_p.K476E|VCL_ENST00000417648.2_Intron|VCL_ENST00000478896.2_Intron	NM_014000.2	NP_054706.1	P18206	VINC_HUMAN	vinculin	476	3 X 112 AA tandem repeats.|N-terminal globular head.				adherens junction assembly|apical junction assembly|cell-matrix adhesion|cellular component movement|epithelial cell-cell adhesion|lamellipodium assembly|morphogenesis of an epithelium|muscle contraction|negative regulation of cell migration|platelet activation|platelet degranulation|protein localization at cell surface	costamere|cytosol|extracellular region|focal adhesion	actin binding|alpha-catenin binding|beta-catenin binding|beta-dystroglycan binding|cadherin binding|structural molecule activity		VCL/ALK(4)	breast(1)|central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(3)|lung(8)|ovary(2)|upper_aerodigestive_tract(1)	20	Prostate(51;0.0112)					CCTGCAGACCAAAACCAACCG	0.562000													12	152					0	0	1	0	0
MUC4	4585	broad.mit.edu	37	3	195505836	195505836	+	Missense_Mutation	SNP	G	G	C			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr3:195505836G>C	ENST00000463781.3	-	2	13074	c.12615C>G	c.(12613-12615)caC>caG	p.H4205Q	MUC4_ENST00000349607.4_Intron|MUC4_ENST00000475231.1_Missense_Mutation_p.H4205Q|MUC4_ENST00000346145.4_Intron	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													4	11					0	0	1	0	0
PI4KA	5297	broad.mit.edu	37	22	21067590	21067590	+	Silent	SNP	C	C	T	rs2539909		TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr22:21067590C>T	ENST00000255882.6	-	48	5636	c.5550G>A	c.(5548-5550)aaG>aaA	p.K1850K	PI4KA_ENST00000414196.3_Silent_p.K602K|PI4KA_ENST00000572273.1_Silent_p.K1792K	NM_058004.3	NP_477352.3	P42356	PI4KA_HUMAN	phosphatidylinositol 4-kinase, catalytic, alpha	1792	PI3K/PI4K.				phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling|synaptic transmission	Golgi-associated vesicle	1-phosphatidylinositol 4-kinase activity|ATP binding|protein binding			breast(3)|endometrium(8)|kidney(9)|large_intestine(19)|lung(29)|ovary(1)|pancreas(1)|prostate(3)|salivary_gland(1)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)	79	all_cancers(11;7.59e-25)|all_epithelial(7;1.34e-22)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000536)|Lung(15;0.0108)|Epithelial(17;0.196)			CGTCTCCCACCTTGAAGATGG	0.662000													4	63					0	0	1	0	0
FAM104B	90736	broad.mit.edu	37	X	55172596	55172596	+	Missense_Mutation	SNP	C	C	G			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chrX:55172596C>G	ENST00000425133.2	-	3	310	c.272G>C	c.(271-273)gGt>gCt	p.G91A	FAM104B_ENST00000358460.4_Intron|FAM104B_ENST00000477847.2_Missense_Mutation_p.G87A|FAM104B_ENST00000332132.4_Intron|FAM104B_ENST00000472571.2_3'UTR|FAM104B_ENST00000489298.1_Missense_Mutation_p.G89A	NM_001166700.1|NM_001166701.1|NM_001166704.1	NP_001160172.1|NP_001160173.1|NP_001160176.1	Q5XKR9	F104B_HUMAN	family with sequence similarity 104, member B	0										endometrium(3)|large_intestine(2)|lung(2)|upper_aerodigestive_tract(1)	8						GGAGTAAAGACCTTGGCATGG	0.483000													4	153					0	0	1	0	0
OR2G3	81469	broad.mit.edu	37	1	247769306	247769306	+	Missense_Mutation	SNP	T	T	A			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr1:247769306T>A	ENST00000320002.2	+	1	451	c.419T>A	c.(418-420)cTt>cAt	p.L140H	RP11-978I15.10_ENST00000435333.1_RNA|RP11-978I15.10_ENST00000446347.1_RNA	NM_001001914.1	NP_001001914.1	Q8NGZ4	OR2G3_HUMAN	olfactory receptor, family 2, subfamily G, member 3	140					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			NS(1)|breast(3)|central_nervous_system(1)|endometrium(4)|kidney(2)|large_intestine(2)|liver(1)|lung(31)|skin(5)	50	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			AACCCACGGCTTTGCCAACAG	0.507000													115	417					0	0	1	0	0
CEACAM5	1048	broad.mit.edu	37	19	42225061	42225061	+	Missense_Mutation	SNP	G	G	A			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr19:42225061G>A	ENST00000221992.6	+	8	2105	c.1991G>A	c.(1990-1992)cGc>cAc	p.R664H	CEA_ENST00000598976.1_Intron|CEACAM5_ENST00000398599.4_Missense_Mutation_p.R663H|CEACAM5_ENST00000405816.1_Missense_Mutation_p.R664H	NM_004363.2	NP_004354.2	P06731	CEAM5_HUMAN	carcinoembryonic antigen-related cell adhesion molecule 5	664	Ig-like 7.		R -> S (in dbSNP:rs10423171).			anchored to membrane|basolateral plasma membrane|integral to plasma membrane				breast(1)|endometrium(3)|kidney(5)|large_intestine(4)|lung(10)|ovary(2)|skin(7)|stomach(1)|urinary_tract(1)	34				OV - Ovarian serous cystadenocarcinoma(3;0.00278)|all cancers(3;0.00625)|Epithelial(262;0.0379)|GBM - Glioblastoma multiforme(1328;0.142)		GCTACTGGCCGCAATAATTCC	0.473000													6	313					0	0	1	0	0
MUC16	94025	broad.mit.edu	37	19	9059381	9059381	+	Silent	SNP	G	G	T			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr19:9059381G>T	ENST00000397910.4	-	3	28268	c.28065C>A	c.(28063-28065)acC>acA	p.T9355T		NM_024690.2	NP_078966.2	Q8WXI7	MUC16_HUMAN	mucin 16, cell surface associated	9357	Ser-rich.|Thr-rich.				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			NS(9)|autonomic_ganglia(1)|breast(26)|central_nervous_system(11)|cervix(1)|endometrium(46)|haematopoietic_and_lymphoid_tissue(5)|kidney(35)|large_intestine(91)|liver(1)|lung(278)|ovary(17)|pancreas(2)|prostate(17)|skin(18)|soft_tissue(1)|stomach(8)|upper_aerodigestive_tract(16)|urinary_tract(7)	590						TTGTGAGGGGGGTAGAAATTC	0.507000													42	405					2.66277e-13	2.91338e-13	1	1	0
DENND5B	160518	broad.mit.edu	37	12	31545239	31545239	+	Missense_Mutation	SNP	C	C	T			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr12:31545239C>T	ENST00000389082.5	-	19	3692	c.3428G>A	c.(3427-3429)cGc>cAc	p.R1143H	DENND5B_ENST00000306833.6_Missense_Mutation_p.R1178H|DENND5B_ENST00000536562.1_Missense_Mutation_p.R1178H	NM_144973.3	NP_659410.3	Q6ZUT9	DEN5B_HUMAN	DENN/MADD domain containing 5B	1143	RUN 2.					integral to membrane				NS(2)|central_nervous_system(1)|endometrium(1)|kidney(4)|large_intestine(8)|lung(17)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	38						GTGAAAGATGCGGGCAGATTT	0.453000													4	204					0	0	1	0	0
RUNX1T1	862	broad.mit.edu	37	8	92998452	92998452	+	Silent	SNP	G	G	A			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr8:92998452G>A	ENST00000523629.1	-	9	1633	c.1179C>T	c.(1177-1179)atC>atT	p.I393I	RUNX1T1_ENST00000360348.2_Silent_p.I356I|RUNX1T1_ENST00000265814.3_Silent_p.I393I|RUNX1T1_ENST00000436581.2_Silent_p.I404I|RUNX1T1_ENST00000396218.1_Silent_p.I366I|RUNX1T1_ENST00000520724.1_Silent_p.I356I|RUNX1T1_ENST00000518844.1_Silent_p.I366I|RUNX1T1_ENST00000422361.2_Silent_p.I356I	NM_001198626.1|NM_001198630.1|NM_001198633.1|NM_175634.2	NP_001185555.1|NP_001185559.1|NP_001185562.1|NP_783552.1	Q06455	MTG8_HUMAN	runt-related transcription factor 1; translocated to, 1 (cyclin D-related)	393					generation of precursor metabolites and energy	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			NS(1)|breast(3)|central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(17)|lung(54)|pancreas(1)|skin(3)|upper_aerodigestive_tract(2)	86			BRCA - Breast invasive adenocarcinoma(11;0.0141)			TGTACCGCCGGATCCAGTAAT	0.512000													32	631					0	0	1	0	0
NBPF12	149013	broad.mit.edu	37	1	146397379	146397379	+	Missense_Mutation	SNP	C	C	G			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr1:146397379C>G	ENST00000442909.2	+	6	1032	c.196C>G	c.(196-198)Ctc>Gtc	p.L66V	NBPF12_ENST00000446760.2_Missense_Mutation_p.L66V|NBPF12_ENST00000309471.8_Intron					neuroblastoma breakpoint family, member 12											ovary(2)	2						GTGTAAAGACCTCATAAAATT	0.527000													8	851					0	0	1	0	0
CDH23	64072	broad.mit.edu	37	10	73377113	73377113	+	Missense_Mutation	SNP	C	C	T			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr10:73377113C>T	ENST00000224721.6	+	10	1117	c.1112C>T	c.(1111-1113)gCc>gTc	p.A371V	CDH23_ENST00000299366.7_Missense_Mutation_p.A411V|CDH23_ENST00000461841.3_Missense_Mutation_p.A411V|CDH23_ENST00000398809.4_Missense_Mutation_p.A366V|CDH23_ENST00000398842.3_Missense_Mutation_p.A366V	NM_022124.5	NP_071407.4	Q9H251	CAD23_HUMAN	cadherin-related 23	366	Cadherin 4.				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			NS(1)|breast(2)|central_nervous_system(6)|endometrium(15)|haematopoietic_and_lymphoid_tissue(5)|kidney(7)|large_intestine(27)|lung(49)|ovary(3)|pancreas(1)|prostate(7)|stomach(7)|upper_aerodigestive_tract(3)	133						GTCGGCTTTGCCCTTCCACTC	0.567000													4	181					0	0	1	0	0
RP11-368J21.3	0	broad.mit.edu	37	16	22588087	22588087	+	RNA	SNP	G	G	C			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr16:22588087G>C	ENST00000550753.1	+	0	2562					NR_003676.2																						GTGGGACACCGTTCCCTGGAT	0.522000													5	130					0	0	1	0	0
MFN1	55669	broad.mit.edu	37	3	179076706	179076706	+	Silent	SNP	C	C	A			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr3:179076706C>A	ENST00000471841.1	+	4	453	c.327C>A	c.(325-327)acC>acA	p.T109T	MFN1_ENST00000280653.7_Silent_p.T109T|MFN1_ENST00000263969.5_Silent_p.T109T	NM_033540.2	NP_284941.2	Q8IWA4	MFN1_HUMAN	mitofusin 1	109					mitochondrial fusion	integral to membrane|mitochondrial outer membrane	GTP binding|GTPase activity			breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(8)|lung(14)|ovary(3)|prostate(1)|urinary_tract(1)	31	all_cancers(143;1.67e-16)|Ovarian(172;0.0172)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;5.78e-26)|GBM - Glioblastoma multiforme(14;0.00225)|BRCA - Breast invasive adenocarcinoma(182;0.0923)			GCCATATAACCAATTGCTTCC	0.388000													4	214					1	1	1	1	0
ASS1	445	broad.mit.edu	37	9	133333912	133333912	+	Missense_Mutation	SNP	G	G	A	rs138279074	byFrequency	TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr9:133333912G>A	ENST00000372394.1	+	5	780	c.299G>A	c.(298-300)cGc>cAc	p.R100H	ASS1_ENST00000372393.3_Missense_Mutation_p.R100H|ASS1_ENST00000352480.5_Missense_Mutation_p.R100H			P00966	ASSY_HUMAN	argininosuccinate synthase 1	100					arginine biosynthetic process|urea cycle	cytosol	argininosuccinate synthase activity|ATP binding|protein binding			breast(1)|cervix(1)|endometrium(2)|kidney(3)|large_intestine(3)|lung(4)|ovary(1)|skin(1)|urinary_tract(1)	17				OV - Ovarian serous cystadenocarcinoma(145;0.000514)	Adenosine triphosphate(DB00171)|L-Arginine(DB00125)|L-Aspartic Acid(DB00128)|L-Citrulline(DB00155)	TGCATCGCCCGCAAACAAGTG	0.637000													4	159					0	0	1	0	0
BMS1	9790	broad.mit.edu	37	10	43318571	43318571	+	Missense_Mutation	SNP	G	G	A			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr10:43318571G>A	ENST00000374518.4	+	20	3201	c.3138G>A	c.(3136-3138)atG>atA	p.M1046I		NM_014753.3	NP_055568.3	Q14692	BMS1_HUMAN	BMS1 ribosome biogenesis factor	1046					ribosome assembly	nucleolus	ATP binding|GTP binding|GTPase activity	p.M1046I(1)		NS(1)|breast(3)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(15)|lung(23)|ovary(2)|prostate(2)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	62						TGTAGGGAATGTTTAATTCTG	0.393000													6	500					0	0	1	0	0
ARPP21	10777	broad.mit.edu	37	3	35785355	35785355	+	Missense_Mutation	SNP	G	G	T	rs141444314		TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr3:35785355G>T	ENST00000187397.4	+	18	2386	c.1930G>T	c.(1930-1932)Ggt>Tgt	p.G644C	ARPP21_ENST00000444190.1_Missense_Mutation_p.G625C|ARPP21_ENST00000337271.5_Missense_Mutation_p.G625C|ARPP21_ENST00000417925.1_Missense_Mutation_p.G645C|ARPP21_ENST00000458225.1_Missense_Mutation_p.G645C	NM_016300.4	NP_057384.2	Q9UBL0	ARP21_HUMAN	cAMP-regulated phosphoprotein, 21kDa	644	Gln-rich.					cytoplasm	nucleic acid binding			cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(12)|lung(31)|ovary(3)|prostate(4)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(1)	61						TTACCCATCTGGTCAGTACCC	0.448000													5	329					0.014758	0.0152499	1	1	0
SYNJ1	8867	broad.mit.edu	37	21	34003427	34003427	+	Missense_Mutation	SNP	G	G	A			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr21:34003427G>A	ENST00000382491.3	-	28	4583	c.4459C>T	c.(4459-4461)Ccg>Tcg	p.P1487S	SYNJ1_ENST00000382499.2_3'UTR|SYNJ1_ENST00000322229.7_Missense_Mutation_p.P1534S|SYNJ1_ENST00000357345.3_3'UTR|SYNJ1_ENST00000433931.2_Missense_Mutation_p.P1573S	NM_001160306.1	NP_001153778.1	O43426	SYNJ1_HUMAN	synaptojanin 1	1534	Poly-Glu.|Pro-rich.						inositol-polyphosphate 5-phosphatase activity|nucleotide binding|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|RNA binding			breast(1)|cervix(1)|endometrium(13)|kidney(5)|large_intestine(13)|lung(11)|ovary(4)|pancreas(1)|skin(5)|upper_aerodigestive_tract(1)|urinary_tract(2)	57						CTTCTTGACGGCAACACACAG	0.517000													5	282					0	0	1	0	0
PLEKHG5	57449	broad.mit.edu	37	1	6536011	6536013	+	In_Frame_Del	DEL	CTC	CTC	-			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr1:6536011_6536013delCTC	ENST00000377748.1	-	4	855_857	c.358_360delGAG	c.(358-360)del	p.E120del	PLEKHG5_ENST00000535355.1_In_Frame_Del_p.E112del|PLEKHG5_ENST00000400915.3_In_Frame_Del_p.E99del|PLEKHG5_ENST00000544978.1_In_Frame_Del_p.E43del|PLEKHG5_ENST00000377725.1_In_Frame_Del_p.E43del|PLEKHG5_ENST00000537245.1_In_Frame_Del_p.E122del|PLEKHG5_ENST00000340850.5_In_Frame_Del_p.E43del|PLEKHG5_ENST00000400913.1_In_Frame_Del_p.E43del|PLEKHG5_ENST00000377732.1_In_Frame_Del_p.E80del|PLEKHG5_ENST00000377737.2_In_Frame_Del_p.E43del|PLEKHG5_ENST00000377740.3_In_Frame_Del_p.E120del|PLEKHG5_ENST00000377728.3_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)	11	229	---	---	---	---					
TAF1B	9014	broad.mit.edu	37	2	10059788	10059788	+	Frame_Shift_Del	DEL	A	A	-			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr2:10059788delA	ENST00000263663.5	+	14	1592	c.1404delA	c.(1402-1404)ggfs	p.G468fs	TAF1B_ENST00000396242.3_Frame_Shift_Del_p.G213fs	NM_005680.2	NP_005671.2	Q53T94	TAF1B_HUMAN	TATA box binding protein (TBP)-associated factor, RNA polymerase I, B, 63kDa	468					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	nucleoplasm	DNA binding|sequence-specific DNA binding transcription factor activity			breast(2)|central_nervous_system(1)|endometrium(1)|kidney(1)|lung(4)|ovary(2)|pancreas(1)|prostate(1)|upper_aerodigestive_tract(1)	14	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					CAACTGCTGGAAAAAAAAGCC	0.418													7	360	---	---	---	---					
BRE	9577	broad.mit.edu	37	2	28248272	28248273	+	Frame_Shift_Ins	INS	-	-	A			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr2:28248272_28248273insA	ENST00000344773.2	+	5	618_619	c.480_481insA	c.(478-483)ggaaaafs	p.GK160fs	BRE_ENST00000361704.2_Frame_Shift_Ins_p.GK160fs|BRE_ENST00000379624.1_Frame_Shift_Ins_p.GK160fs|BRE_ENST00000342045.2_Frame_Shift_Ins_p.GK160fs|BRE_ENST00000379632.2_Frame_Shift_Ins_p.GK160fs|BRE_ENST00000603461.1_3'UTR	NM_004899.4	NP_004890.2	Q9NXR7	BRE_HUMAN	brain and reproductive organ-expressed (TNFRSF1A modulator)	160					apoptosis|chromatin modification|double-strand break repair|G2/M transition DNA damage checkpoint|positive regulation of anti-apoptosis|positive regulation of DNA repair|response to ionizing radiation|signal transduction	BRCA1-A complex|BRISC complex|cytoplasm|nuclear ubiquitin ligase complex	peroxisome targeting sequence binding|polyubiquitin binding|tumor necrosis factor receptor binding			NS(1)|endometrium(3)|kidney(2)|large_intestine(2)|lung(11)|prostate(2)|skin(2)	23	Acute lymphoblastic leukemia(172;0.155)					TTTATGCTGGGAAAAAAAACAA	0.391													7	248	---	---	---	---					
AC016995.3	0	broad.mit.edu	37	2	38710019	38710019	+	RNA	DEL	T	T	-	rs2005502	by1000genomes	TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr2:38710019delT	ENST00000417039.1	-	0	696																											CTTtaaaaaataaataaataa	0.244													8	44	---	---	---	---					
ANKRD36BP2	0	broad.mit.edu	37	2	89082220	89082223	+	RNA	DEL	TGAT	TGAT	-			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr2:89082220_89082223delTGAT	ENST00000393525.3	+	0	474																											TGTGTACATATGATTGATTATGTA	0.328													8	221	---	---	---	---					
TMEM131	23505	broad.mit.edu	37	2	98427639	98427639	+	Frame_Shift_Del	DEL	T	T	-			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr2:98427639delT	ENST00000186436.5	-	18	2148	c.1920delA	c.(1918-1920)aafs	p.K640fs		NM_015348.1	NP_056163.1	Q92545	TM131_HUMAN	transmembrane protein 131	640						integral to membrane				NS(1)|autonomic_ganglia(1)|breast(3)|central_nervous_system(4)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(7)|lung(23)|ovary(4)|prostate(1)|skin(1)|stomach(1)	57						TCCCCTCTAATTTTTTTGCAG	0.393													9	883	---	---	---	---					
GTF3C3	9330	broad.mit.edu	37	2	197649613	197649614	+	Frame_Shift_Ins	INS	-	-	T			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr2:197649613_197649614insT	ENST00000263956.3	-	8	1170_1171	c.1081_1082insA	c.(1081-1083)ttcfs	p.F361fs	GTF3C3_ENST00000409364.3_Frame_Shift_Ins_p.F361fs	NM_012086.4	NP_036218.1	Q9Y5Q9	TF3C3_HUMAN	general transcription factor IIIC, polypeptide 3, 102kDa	361						transcription factor TFIIIC complex	DNA binding|protein binding			breast(4)|endometrium(3)|kidney(1)|large_intestine(9)|lung(5)|ovary(3)|pancreas(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(3)	33						TTCTTCTGAAGTTTTTTTTTCC	0.337													7	342	---	---	---	---					
NPRL2	10641	broad.mit.edu	37	3	50385605	50385623	+	Frame_Shift_Del	DEL	CACGGTAGTGCCAGGGCTC	CACGGTAGTGCCAGGGCTC	-			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr3:50385605_50385623delCACGGTAGTGCCAGGGCTC	ENST00000232501.3	-	9	1302_1320	c.864_882delGAGCCCTGGCACTACCGTG	c.(862-882)ctfs	p.LSPGTTV288fs	NPRL2_ENST00000493465.1_Intron	NM_006545.4	NP_006536.3	Q8WTW4	NPRL2_HUMAN	nitrogen permease regulator-like 2 (S. cerevisiae)	288					negative regulation of kinase activity		protein binding|protein kinase activity			breast(2)|endometrium(2)|kidney(1)|large_intestine(1)|lung(3)|prostate(1)|urinary_tract(1)	11						TGAGGTCTCGCACGGTAGTGCCAGGGCTCAGGCTGCAGT	0.598													53	86	---	---	---	---					
ACOX2	8309	broad.mit.edu	37	3	58514557	58514558	+	Frame_Shift_Del	DEL	AG	AG	-			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr3:58514557_58514558delAG	ENST00000302819.5	-	9	1409_1410	c.1118_1119delCT	c.(1117-1119)afs	p.T373fs	ACOX2_ENST00000459701.2_Frame_Shift_Del_p.T359fs	NM_003500.3	NP_003491.1	Q99424	ACOX2_HUMAN	acyl-CoA oxidase 2, branched chain	373					bile acid biosynthetic process|fatty acid beta-oxidation using acyl-CoA oxidase	peroxisomal matrix	3alpha,7alpha,12alpha-trihydroxy-5beta-cholestanoyl-CoA 24-hydroxylase activity|acyl-CoA dehydrogenase activity|pristanoyl-CoA oxidase activity			breast(3)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(8)|prostate(1)|skin(3)|urinary_tract(1)	25				BRCA - Breast invasive adenocarcinoma(55;0.000194)|Kidney(10;0.00255)|KIRC - Kidney renal clear cell carcinoma(10;0.00268)|OV - Ovarian serous cystadenocarcinoma(275;0.156)		TCAGAATGGCAGTGTAGGAGTG	0.550													74	63	---	---	---	---					
RP11-341G5.1	0	broad.mit.edu	37	4	13799706	13799708	+	RNA	DEL	ATG	ATG	-			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr4:13799706_13799708delATG	ENST00000510907.1	+	0	281																											aggaataagaatgaggaggagga	0.527													2	4	---	---	---	---					
CLOCK	9575	broad.mit.edu	37	4	56304530	56304532	+	In_Frame_Del	DEL	CTG	CTG	-			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr4:56304530_56304532delCTG	ENST00000309964.4	-	21	2528_2530	c.2278_2280delCAG	c.(2278-2280)del	p.Q760del	CLOCK_ENST00000513440.1_In_Frame_Del_p.Q760del|CLOCK_ENST00000381322.1_In_Frame_Del_p.Q760del	NM_004898.3	NP_004889.1	O15516	CLOCK_HUMAN	clock circadian regulator	760	Gln-rich.				circadian rhythm|photoperiodism|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|transcription factor complex	DNA binding|histone acetyltransferase activity|sequence-specific DNA binding transcription factor activity|signal transducer activity			breast(1)|central_nervous_system(3)|cervix(1)|endometrium(4)|kidney(5)|large_intestine(9)|lung(8)|ovary(2)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)	38	Lung NSC(11;0.00335)|Glioma(25;0.08)|all_epithelial(27;0.0992)|all_neural(26;0.101)		LUSC - Lung squamous cell carcinoma(4;1.62e-07)|Lung(4;1.34e-06)|Epithelial(7;0.0107)			cctgggagctctgctgctgctgc	0.512													7	256	---	---	---	---					
ACSL1	2180	broad.mit.edu	37	4	185678849	185678849	+	Frame_Shift_Del	DEL	T	T	-	rs139154123	byFrequency	TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr4:185678849delT	ENST00000515030.1	-	20	2221	c.1896delA	c.(1894-1896)aafs	p.K632fs	ACSL1_ENST00000281455.2_Frame_Shift_Del_p.K632fs|ACSL1_ENST00000507295.1_Frame_Shift_Del_p.K598fs|ACSL1_ENST00000513317.1_Frame_Shift_Del_p.K632fs|ACSL1_ENST00000437665.3_Frame_Shift_Del_p.K461fs|ACSL1_ENST00000504342.1_Frame_Shift_Del_p.K632fs|ACSL1_ENST00000454703.2_Frame_Shift_Del_p.K461fs			P33121	ACSL1_HUMAN	acyl-CoA synthetase long-chain family member 1	632					digestion|fatty acid metabolic process|long-chain fatty-acyl-CoA biosynthetic process|regulation of fatty acid oxidation|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial outer membrane|peroxisomal membrane	ATP binding|long-chain fatty acid-CoA ligase activity			NS(1)|central_nervous_system(1)|cervix(1)|endometrium(3)|kidney(3)|large_intestine(6)|liver(1)|lung(17)|ovary(2)|prostate(1)|skin(2)	38		all_lung(41;7.57e-14)|Lung NSC(41;1.81e-13)|Colorectal(36;0.00172)|Hepatocellular(41;0.00826)|Renal(120;0.00988)|Prostate(90;0.0235)|all_hematologic(60;0.0315)|all_neural(102;0.107)|Medulloblastoma(177;0.146)		all cancers(43;1.33e-28)|Epithelial(43;5.3e-25)|OV - Ovarian serous cystadenocarcinoma(60;4.88e-11)|Colorectal(24;3.59e-06)|STAD - Stomach adenocarcinoma(60;2.72e-05)|GBM - Glioblastoma multiforme(59;2.83e-05)|BRCA - Breast invasive adenocarcinoma(30;7.66e-05)|COAD - Colon adenocarcinoma(29;0.000538)|LUSC - Lung squamous cell carcinoma(40;0.008)|READ - Rectum adenocarcinoma(43;0.0419)	Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	CGAGGATAGCTTTTTTGACAT	0.383													8	1003	---	---	---	---					
PAM	5066	broad.mit.edu	37	5	102296908	102296910	+	In_Frame_Del	DEL	AGA	AGA	-			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr5:102296908_102296910delAGA	ENST00000438793.3	+	13	1607_1609	c.1137_1139delAGA	c.(1135-1140)cga>cg	p.RE379del	PAM_ENST00000346918.2_In_Frame_Del_p.RE379del|PAM_ENST00000379787.4_5'UTR|PAM_ENST00000455264.2_In_Frame_Del_p.RE379del|PAM_ENST00000348126.2_In_Frame_Del_p.RE379del|PAM_ENST00000274392.9_In_Frame_Del_p.RE282del|PAM_ENST00000304400.7_In_Frame_Del_p.RE379del	NM_000919.3|NM_001177306.1|NM_138766.2	NP_000910.2|NP_001170777.1|NP_620121.1	P19021	AMD_HUMAN	peptidylglycine alpha-amidating monooxygenase	379	Peptidylglycine alpha-hydroxylating monooxygenase (By similarity).				peptide metabolic process|protein modification process	extracellular region|integral to membrane|stored secretory granule	L-ascorbic acid binding|peptidylamidoglycolate lyase activity|peptidylglycine monooxygenase activity|protein binding			endometrium(2)|kidney(2)|large_intestine(10)|lung(8)|prostate(2)|upper_aerodigestive_tract(1)	25		all_cancers(142;3.12e-07)|all_epithelial(76;3.48e-10)|Prostate(80;0.00914)|Lung NSC(167;0.0213)|Ovarian(225;0.024)|Colorectal(57;0.0251)|all_lung(232;0.0284)		Epithelial(69;1.1e-13)|COAD - Colon adenocarcinoma(37;0.0127)	Vitamin C(DB00126)	AGCCAAAACGAGAAGAAGAAGAA	0.325													9	872	---	---	---	---					
HAVCR2	84868	broad.mit.edu	37	5	156535948	156535950	+	In_Frame_Del	DEL	AGC	AGC	-			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr5:156535948_156535950delAGC	ENST00000307851.4	-	1	775_777	c.45_47delGCT	c.(43-48)cta>ct	p.LL17del	HAVCR2_ENST00000522593.1_In_Frame_Del_p.LL17del|CTB-120L21.1_ENST00000517708.1_RNA	NM_032782.4	NP_116171.3	Q8TDQ0	HAVR2_HUMAN	hepatitis A virus cellular receptor 2	17						integral to membrane		p.L18delL(1)|p.L15L(1)		cervix(1)|large_intestine(4)|lung(12)|prostate(2)|skin(1)|upper_aerodigestive_tract(2)	22	Renal(175;0.00212)	Medulloblastoma(196;0.0354)|all_neural(177;0.0999)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			TGTAAGTAGTAGCAGCAGCAGCA	0.438													11	275	---	---	---	---					
ZNF184	7738	broad.mit.edu	37	6	27420810	27420810	+	Frame_Shift_Del	DEL	T	T	-			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr6:27420810delT	ENST00000211936.6	-	6	812	c.528delA	c.(526-528)aafs	p.K176fs	ZNF184_ENST00000377419.1_Frame_Shift_Del_p.K176fs	NM_007149.2	NP_009080.2	Q99676	ZN184_HUMAN	zinc finger protein 184	176					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)|cervix(1)|endometrium(4)|kidney(9)|large_intestine(13)|lung(14)|ovary(1)|skin(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	48						TTACAGGGCCTTTTTCCCAAC	0.408													7	1382	---	---	---	---					
OR2J2	26707	broad.mit.edu	37	6	29141422	29141422	+	Frame_Shift_Del	DEL	A	A	-			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr6:29141422delA	ENST00000377167.2	+	1	112	c.10delA	c.(10-12)aafs	p.K5fs		NM_030905.2	NP_112167.2	O76002	OR2J2_HUMAN	olfactory receptor, family 2, subfamily J, member 2	5					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			endometrium(1)|kidney(2)|large_intestine(1)|liver(2)|lung(17)|ovary(1)|upper_aerodigestive_tract(1)	25						AATGATGATTAAAAAAAATGC	0.358													8	656	---	---	---	---					
ZBTB22	0	broad.mit.edu	37	6	33283321	33283321	+	Frame_Shift_Del	DEL	C	C	-			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr6:33283321delC	ENST00000431845.2	-	2	1524	c.1373delG	c.(1372-1374)gcfs	p.G458fs	ZBTB22_ENST00000418724.1_Frame_Shift_Del_p.G458fs	NM_005453.4	NP_005444.4	O15209	ZBT22_HUMAN	zinc finger and BTB domain containing 22	458					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)|central_nervous_system(1)|endometrium(3)|large_intestine(1)|lung(9)|ovary(2)|prostate(1)|urinary_tract(3)	21						CACCGACGTGCCCCCCACGGT	0.632													8	890	---	---	---	---					
UHRF1BP1	54887	broad.mit.edu	37	6	34826124	34826124	+	Frame_Shift_Del	DEL	T	T	-			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr6:34826124delT	ENST00000192788.5	+	14	2162	c.1991delT	c.(1990-1992)ctfs	p.L664fs	UHRF1BP1_ENST00000452449.2_Frame_Shift_Del_p.L664fs	NM_017754.3	NP_060224.3	Q6BDS2	URFB1_HUMAN	UHRF1 binding protein 1	664								p.L666fs*15(1)		breast(1)|cervix(1)|endometrium(4)|kidney(3)|large_intestine(11)|lung(24)|ovary(3)|prostate(4)|skin(1)|upper_aerodigestive_tract(2)	54						CTGCACATGCTTTTTTTGCAT	0.502													7	644	---	---	---	---					
TRAF3IP2	10758	broad.mit.edu	37	6	111880692	111880693	+	Frame_Shift_Ins	INS	-	-	T			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr6:111880692_111880693insT	ENST00000368761.5	-	9	2091_2092	c.1613_1614insA	c.(1612-1614)aatfs	p.N538fs	TRAF3IP2-AS1_ENST00000449449.2_RNA|TRAF3IP2_ENST00000392556.4_Frame_Shift_Ins_p.N126fs|TRAF3IP2_ENST00000359831.4_Frame_Shift_Ins_p.N537fs|TRAF3IP2-AS1_ENST00000456352.2_RNA|TRAF3IP2_ENST00000340026.6_Frame_Shift_Ins_p.N547fs|TRAF3IP2-AS1_ENST00000442928.2_RNA|TRAF3IP2-AS1_ENST00000532353.1_RNA|TRAF3IP2-AS1_ENST00000438298.2_RNA|TRAF3IP2-AS1_ENST00000440395.1_RNA|TRAF3IP2_ENST00000368735.1_Frame_Shift_Ins_p.N82fs|TRAF3IP2_ENST00000368731.2_5'UTR	NM_001164281.2|NM_147686.3	NP_001157753.1|NP_679211.2	O43734	CIKS_HUMAN	TRAF3 interacting protein 2	547	SEFIR.				intracellular signal transduction|positive regulation of I-kappaB kinase/NF-kappaB cascade	intracellular				central_nervous_system(1)|endometrium(4)|kidney(1)|large_intestine(3)|lung(5)|ovary(2)|prostate(1)|urinary_tract(1)	18		all_cancers(87;7.87e-06)|Acute lymphoblastic leukemia(125;3.61e-09)|all_hematologic(75;2.63e-07)|all_epithelial(87;0.0024)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.033)|all cancers(137;0.0412)|Epithelial(106;0.0732)		GCAGCAGGATGTTTTTTTTATT	0.550													7	664	---	---	---	---					
RFX6	222546	broad.mit.edu	37	6	117244332	117244332	+	Frame_Shift_Del	DEL	T	T	-			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr6:117244332delT	ENST00000332958.2	+	14	1516	c.1500delT	c.(1498-1500)agfs	p.S500fs		NM_173560.3	NP_775831.2	Q8HWS3	RFX6_HUMAN	regulatory factor X, 6	500					glucose homeostasis|pancreatic A cell differentiation|pancreatic D cell differentiation|pancreatic E cell differentiation|positive regulation of transcription, DNA-dependent|regulation of insulin secretion|transcription, DNA-dependent|type B pancreatic cell differentiation	nucleus	protein binding|transcription regulatory region DNA binding			cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(11)|lung(29)|ovary(1)|pancreas(1)|prostate(1)|skin(5)|upper_aerodigestive_tract(1)	59						TAAAGTGGAGTTTTTTTGGTG	0.328													8	732	---	---	---	---					
SOGA3	387104	broad.mit.edu	37	6	127804080	127804080	+	Frame_Shift_Del	DEL	T	T	-	rs34142169		TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr6:127804080delT	ENST00000556132.1	-	5	2399	c.1535delA	c.(1534-1536)agfs	p.K512fs	SOGA3_ENST00000525778.1_Frame_Shift_Del_p.K512fs|SOGA3_ENST00000368268.2_Frame_Shift_Del_p.K512fs|SOGA3_ENST00000465909.2_Frame_Shift_Del_p.K512fs|SOGA3_ENST00000481848.2_Frame_Shift_Del_p.K512fs	NM_001012279.2	NP_001012279.1	Q5TF21	CF174_HUMAN	SOGA family member 3	512						integral to membrane											CTGTTGAGCCTTTTTTTCAGA	0.294													7	1116	---	---	---	---					
PHTF2	57157	broad.mit.edu	37	7	77569581	77569581	+	Frame_Shift_Del	DEL	T	T	-			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr7:77569581delT	ENST00000416283.2	+	12	1726	c.1600delT	c.(1600-1602)ttfs	p.F535fs	PHTF2_ENST00000275575.7_Frame_Shift_Del_p.F531fs|PHTF2_ENST00000248550.7_Frame_Shift_Del_p.F569fs|PHTF2_ENST00000307305.8_Frame_Shift_Del_p.F531fs|PHTF2_ENST00000424760.1_Frame_Shift_Del_p.F531fs|PHTF2_ENST00000422959.2_Frame_Shift_Del_p.F535fs	NM_001127357.1|NM_020432.4	NP_001120829.1|NP_065165.3	Q8N3S3	PHTF2_HUMAN	putative homeodomain transcription factor 2	569					regulation of transcription, DNA-dependent|transcription, DNA-dependent	endoplasmic reticulum|nucleus	DNA binding			endometrium(2)|kidney(3)|large_intestine(3)|lung(9)|ovary(1)|prostate(1)	19						GTGGATTTTCTTTTTTTTGCT	0.303													8	682	---	---	---	---					
CBLL1	79872	broad.mit.edu	37	7	107395909	107395909	+	Frame_Shift_Del	DEL	A	A	-			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr7:107395909delA	ENST00000440859.2	+	5	880	c.413delA	c.(412-414)gafs	p.E138fs	CBLL1_ENST00000415884.2_Intron|CBLL1_ENST00000222597.2_Frame_Shift_Del_p.E137fs	NM_024814.2	NP_079090.2	Q75N03	HAKAI_HUMAN	Cbl proto-oncogene-like 1, E3 ubiquitin protein ligase	138					cell-cell adhesion|negative regulation of cell adhesion|positive regulation of cell migration|positive regulation of endocytosis		protein binding|ubiquitin-protein ligase activity|zinc ion binding			endometrium(2)|large_intestine(2)|lung(9)|ovary(2)|prostate(3)|skin(3)	21						ATTTTACATGAAAAAAAGGGA	0.269													8	1265	---	---	---	---					
ERICH1-AS1	0	broad.mit.edu	37	8	941911	941911	+	RNA	DEL	T	T	-			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr8:941911delT	ENST00000524139.1	+	0	206				ERICH1-AS1_ENST00000578889.1_RNA|ERICH1-AS1_ENST00000522092.1_RNA																							GTTCCTGTTCTTCTCTCCCTC	0.622													2	4	---	---	---	---					
SFTPC	6440	broad.mit.edu	37	8	22021060	22021061	+	Frame_Shift_Del	DEL	GT	GT	-			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr8:22021060_22021061delGT	ENST00000522109.1	+	4	460_461	c.436_437delGT	c.(436-438)gfs	p.V146fs	SFTPC_ENST00000521315.1_Splice_Site|SFTPC_ENST00000520605.1_Splice_Site|SFTPC_ENST00000318561.3_Splice_Site|SFTPC_ENST00000437090.2_Splice_Site|SFTPC_ENST00000524255.1_Splice_Site			P11686	PSPC_HUMAN	surfactant protein C	146	BRICHOS.				respiratory gaseous exchange	extracellular space		p.M146fs*41(1)		autonomic_ganglia(1)|large_intestine(1)|lung(1)	3				Colorectal(74;0.00191)|COAD - Colon adenocarcinoma(73;0.0615)|READ - Rectum adenocarcinoma(644;0.1)		CAACTTCCAGGTGTGTGTGTGT	0.545													9	215	---	---	---	---					
LOXL2	4017	broad.mit.edu	37	8	23167294	23167294	+	Frame_Shift_Del	DEL	G	G	-			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr8:23167294delG	ENST00000389131.3	-	10	2136	c.1767delC	c.(1765-1767)ccfs	p.P589fs		NM_002318.2	NP_002309.1	Q9Y4K0	LOXL2_HUMAN	lysyl oxidase-like 2	589	Lysyl-oxidase like.				aging|cell adhesion|protein modification process	extracellular space|membrane	copper ion binding|electron carrier activity|oxidoreductase activity, acting on the CH-NH2 group of donors, oxygen as acceptor|scavenger receptor activity			breast(2)|endometrium(4)|kidney(3)|large_intestine(12)|lung(5)|ovary(2)|prostate(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	35		Prostate(55;0.0453)|Breast(100;0.143)		Colorectal(74;0.0288)|COAD - Colon adenocarcinoma(73;0.096)		AGCCCGTGGTGGGGTCGGTCT	0.662													8	159	---	---	---	---					
GTF2E2	2961	broad.mit.edu	37	8	30511012	30511014	+	In_Frame_Del	DEL	GAT	GAT	-	rs113662547		TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr8:30511012_30511014delGAT	ENST00000355904.4	-	2	384_386	c.102_104delATC	c.(100-105)tcg>tc	p.SS34del		NM_002095.4	NP_002086.1	P29084	T2EB_HUMAN	general transcription factor IIE, polypeptide 2, beta 34kDa	34	Poly-Ser.				regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	transcription factor TFIIE complex	DNA binding|protein binding			endometrium(2)|kidney(2)|large_intestine(1)|lung(4)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	12				KIRC - Kidney renal clear cell carcinoma(542;0.113)|Kidney(114;0.135)		CTTCTTTGACGATGATGATGATG	0.384													7	785	---	---	---	---					
WHSC1L1	54904	broad.mit.edu	37	8	38205092	38205092	+	Frame_Shift_Del	DEL	T	T	-			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr8:38205092delT	ENST00000317025.8	-	2	1115	c.598delA	c.(598-600)gcfs	p.S200fs	WHSC1L1_ENST00000316985.3_Frame_Shift_Del_p.S200fs|WHSC1L1_ENST00000527502.1_Frame_Shift_Del_p.S200fs|WHSC1L1_ENST00000433384.2_Frame_Shift_Del_p.S200fs	NM_023034.1	NP_075447.1	Q9BZ95	NSD3_HUMAN	Wolf-Hirschhorn syndrome candidate 1-like 1	200					cell differentiation|cell growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome	histone-lysine N-methyltransferase activity|zinc ion binding			NS(1)|breast(2)|endometrium(3)|kidney(3)|large_intestine(2)|lung(10)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)	24	Colorectal(12;0.000442)|Esophageal squamous(3;0.0725)	all_lung(54;0.00787)|Lung NSC(58;0.0295)|Hepatocellular(245;0.065)	Epithelial(3;3.12e-43)|all cancers(3;1.72e-38)|BRCA - Breast invasive adenocarcinoma(5;2.84e-27)|LUSC - Lung squamous cell carcinoma(2;2.79e-25)|Lung(2;5.03e-23)|COAD - Colon adenocarcinoma(9;0.0511)			TGCTTGTTGCTTTTTTTCCTC	0.378			T	NUP98	AML								9	1241	---	---	---	---					
TOX	9760	broad.mit.edu	37	8	59750796	59750798	+	In_Frame_Del	DEL	CTT	CTT	-			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	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													8	849	---	---	---	---					
CHD7	55636	broad.mit.edu	37	8	61769038	61769040	+	In_Frame_Del	DEL	GGA	GGA	-			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr8:61769038_61769040delGGA	ENST00000423902.2	+	34	7678_7680	c.7199_7201delGGA	c.(7198-7203)cgg>c	p.RR2404del	CHD7_ENST00000529472.1_3'UTR|CHD7_ENST00000524602.1_Intron	NM_017780.3	NP_060250.2	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	2404	Poly-Arg.				central nervous system development|chromatin modification|cognition|cranial nerve development|face development|heart morphogenesis|in utero embryonic development|inner ear morphogenesis|nose development|palate development|regulation of growth hormone secretion|regulation of transcription, DNA-dependent|retina development in camera-type eye|skeletal system development|T cell differentiation|transcription, DNA-dependent	nucleus	ATP binding|chromatin binding|DNA binding|helicase activity			NS(1)|breast(6)|central_nervous_system(8)|cervix(2)|endometrium(16)|haematopoietic_and_lymphoid_tissue(1)|kidney(9)|large_intestine(16)|lung(49)|ovary(4)|pancreas(2)|prostate(4)|skin(2)|urinary_tract(3)	123		all_cancers(86;0.2)|all_lung(136;0.0402)|Lung NSC(129;0.0459)|all_epithelial(80;0.0477)	BRCA - Breast invasive adenocarcinoma(89;0.143)			CCTCGCCAGCGGAGGAGGAGGAG	0.512													8	148	---	---	---	---					
ESRP1	54845	broad.mit.edu	37	8	95686610	95686611	+	Frame_Shift_Ins	INS	-	-	A			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr8:95686610_95686611insA	ENST00000433389.2	+	12	1717_1718	c.1527_1528insA	c.(1525-1530)caaaaafs	p.QK509fs	ESRP1_ENST00000423620.2_Frame_Shift_Ins_p.QK509fs|ESRP1_ENST00000358397.5_Frame_Shift_Ins_p.QK509fs|ESRP1_ENST00000454170.2_Frame_Shift_Ins_p.QK509fs	NM_001034915.2|NM_017697.3	NP_001030087.2|NP_060167.2	Q6NXG1	ESRP1_HUMAN	epithelial splicing regulatory protein 1	509	RRM 3.				mRNA processing|regulation of RNA splicing|RNA splicing	nucleus|plasma membrane	mRNA binding|nucleotide binding	p.N512fs*8(2)	ESRP1/RAF1(4)	NS(1)|central_nervous_system(1)|endometrium(6)|kidney(1)|large_intestine(2)|lung(6)|prostate(1)|urinary_tract(2)	20						AGAAGTGTCATAAAAAAAACAT	0.436													7	383	---	---	---	---					
TAF1L	138474	broad.mit.edu	37	9	32633584	32633584	+	Frame_Shift_Del	DEL	T	T	-			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr9:32633584delT	ENST00000242310.4	-	1	2083	c.1994delA	c.(1993-1995)agfs	p.K665fs	RP11-555J4.4_ENST00000430787.1_RNA	NM_153809.2	NP_722516.1	Q8IZX4	TAF1L_HUMAN	TAF1 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 210kDa-like	665					male meiosis|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding	p.K665fs*4(2)		breast(6)|central_nervous_system(4)|endometrium(14)|kidney(11)|large_intestine(32)|liver(2)|lung(68)|ovary(2)|pancreas(2)|prostate(7)|skin(9)|stomach(1)|upper_aerodigestive_tract(1)	159			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		CATCTTGGCCTTTTTTTTGAT	0.478													10	576	---	---	---	---					
KIAA1217	56243	broad.mit.edu	37	10	24822125	24822127	+	In_Frame_Del	DEL	GAA	GAA	-			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr10:24822125_24822127delGAA	ENST00000376451.2	+	11	2682_2684	c.2422_2424delGAA	c.(2422-2424)del	p.E812del	KIAA1217_ENST00000396445.1_In_Frame_Del_p.E812del|KIAA1217_ENST00000376462.1_In_Frame_Del_p.E1049del|KIAA1217_ENST00000307544.6_In_Frame_Del_p.E812del|KIAA1217_ENST00000376452.3_In_Frame_Del_p.E1093del|KIAA1217_ENST00000376454.3_In_Frame_Del_p.E1129del|KIAA1217_ENST00000458595.1_In_Frame_Del_p.E1094del|KIAA1217_ENST00000396446.1_In_Frame_Del_p.E812del			Q5T5P2	SKT_HUMAN	KIAA1217	1129					embryonic skeletal system development	cytoplasm				breast(1)|endometrium(12)|haematopoietic_and_lymphoid_tissue(4)|kidney(3)|large_intestine(19)|lung(19)|ovary(5)|prostate(3)|skin(3)|urinary_tract(1)	70						GGATGAGGAGGAAGAAGAAGAAG	0.552													7	462	---	---	---	---					
RP11-192P3.4	0	broad.mit.edu	37	10	31498549	31498550	+	RNA	DEL	TG	TG	-	rs2785512	by1000genomes	TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr10:31498549_31498550delTG	ENST00000605929.1	+	0	317				ZEB1-AS1_ENST00000605946.1_RNA																							CTGCCCGCCCTGCCCCCGCCCC	0.569													3	4	---	---	---	---					
ANK3	288	broad.mit.edu	37	10	61831289	61831290	+	Frame_Shift_Ins	INS	-	-	T	rs28932171	byFrequency	TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr10:61831289_61831290insT	ENST00000280772.1	-	37	9540_9541	c.9349_9350insA	c.(9349-9351)catfs	p.H3117fs	ANK3_ENST00000503366.1_Intron|ANK3_ENST00000355288.2_Intron|ANK3_ENST00000373827.2_Intron	NM_020987.3	NP_066267.2	Q12955	ANK3_HUMAN	ankyrin 3, node of Ranvier (ankyrin G)	3117			I -> V (in dbSNP:rs28932171).		establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			NS(4)|breast(7)|central_nervous_system(5)|endometrium(19)|haematopoietic_and_lymphoid_tissue(5)|kidney(14)|large_intestine(30)|liver(2)|lung(59)|ovary(8)|pancreas(2)|prostate(5)|skin(26)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(7)	196						CTGACTTATGATTTTTTTTACA	0.401													11	984	---	---	---	---					
TBC1D12	23232	broad.mit.edu	37	10	96281817	96281817	+	Frame_Shift_Del	DEL	T	T	-			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr10:96281817delT	ENST00000225235.4	+	10	1977	c.1867delT	c.(1867-1869)ttfs	p.F624fs	TBC1D12_ENST00000485048.1_Intron	NM_015188.1	NP_056003.1	O60347	TBC12_HUMAN	TBC1 domain family, member 12	624	Rab-GAP TBC.					intracellular	Rab GTPase activator activity			breast(1)|central_nervous_system(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(4)|lung(5)|upper_aerodigestive_tract(2)	20		Colorectal(252;0.0429)				CCAGTTGGCCTTTTTTCGTGT	0.418													10	1078	---	---	---	---					
INA	9118	broad.mit.edu	37	10	105048271	105048273	+	In_Frame_Del	DEL	GAG	GAG	-			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr10:105048271_105048273delGAG	ENST00000369849.4	+	3	1394_1396	c.1345_1347delGAG	c.(1345-1347)del	p.E454del		NM_032727.3	NP_116116.1	Q16352	AINX_HUMAN	internexin neuronal intermediate filament protein, alpha	454	Poly-Glu.|Tail.				cell differentiation|nervous system development	neurofilament	structural constituent of cytoskeleton	p.E449_E450delEE(1)		breast(2)|endometrium(2)|large_intestine(2)|lung(4)|ovary(1)|prostate(2)	13				Epithelial(162;3.45e-09)|all cancers(201;9.17e-08)|BRCA - Breast invasive adenocarcinoma(275;0.198)		ACTTAAGAAAGAGGAGGAGGAGG	0.458													14	573	---	---	---	---					
MKI67	4288	broad.mit.edu	37	10	129913974	129913974	+	Frame_Shift_Del	DEL	T	T	-			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr10:129913974delT	ENST00000368654.3	-	7	1073	c.698delA	c.(697-699)atfs	p.N233fs	MKI67_ENST00000368653.3_Intron	NM_002417.4	NP_002408.3	P46013	KI67_HUMAN	marker of proliferation Ki-67	233					cell proliferation	nucleolus	ATP binding|protein C-terminus binding			NS(2)|autonomic_ganglia(1)|breast(2)|central_nervous_system(2)|cervix(2)|endometrium(14)|haematopoietic_and_lymphoid_tissue(5)|kidney(7)|large_intestine(30)|lung(64)|ovary(4)|pancreas(1)|prostate(4)|skin(2)|soft_tissue(1)|stomach(10)|upper_aerodigestive_tract(4)|urinary_tract(4)	159		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				GGGAGATTCATTTTTTTTGCT	0.343													7	528	---	---	---	---					
PSMA1	5682	broad.mit.edu	37	11	14529252	14529254	+	In_Frame_Del	DEL	CAT	CAT	-			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr11:14529252_14529254delCAT	ENST00000530457.1	-	9	1138_1140	c.608_610delATG	c.(607-612)gtg>g	p.DV203del	PSMA1_ENST00000555531.1_3'UTR|PSMA1_ENST00000524606.1_5'UTR|PSMA1_ENST00000419365.2_3'UTR|PSMA1_ENST00000396394.2_In_Frame_Del_p.DV228del|PSMA1_ENST00000418988.2_In_Frame_Del_p.DV234del|PSMA1_ENST00000396393.1_In_Frame_Del_p.DV228del			P25786	PSA1_HUMAN	proteasome (prosome, macropain) subunit, alpha type, 1	228					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|polysome|proteasome core complex, alpha-subunit complex	protein binding|RNA binding|threonine-type endopeptidase activity			large_intestine(1)|skin(1)|upper_aerodigestive_tract(1)	3						AATGGAGACACATCATCATCATC	0.360													7	634	---	---	---	---					
TSGA10IP	254187	broad.mit.edu	37	11	65715748	65715751	+	RNA	DEL	CATC	CATC	-	rs585897		TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr11:65715748_65715751delCATC	ENST00000532620.1	+	0	1382							Q3SY00	T10IP_HUMAN	testis specific, 10 interacting protein											endometrium(2)|kidney(3)|lung(9)	14						ACTTTTGGATcatccatccatcca	0.422													4	9	---	---	---	---					
DDX10	1662	broad.mit.edu	37	11	108788635	108788637	+	In_Frame_Del	DEL	TGA	TGA	-			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	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*								9	382	---	---	---	---					
CBL	867	broad.mit.edu	37	11	119149356	119149358	+	In_Frame_Del	DEL	ATG	ATG	-			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr11:119149356_119149358delATG	ENST00000264033.4	+	9	1740_1742	c.1364_1366delATG	c.(1363-1368)tat>t	p.YD455del		NM_005188.3	NP_005179.2	P22681	CBL_HUMAN	Cbl proto-oncogene, E3 ubiquitin protein ligase	455	Asp/Glu-rich (acidic).				epidermal growth factor receptor signaling pathway|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of receptor-mediated endocytosis	cytosol|nucleus	calcium ion binding|sequence-specific DNA binding transcription factor activity|SH3 domain binding|signal transducer activity|ubiquitin-protein ligase activity|zinc ion binding	p.E366_K477del(1)		breast(2)|central_nervous_system(2)|endometrium(5)|haematopoietic_and_lymphoid_tissue(194)|kidney(3)|large_intestine(9)|lung(30)|ovary(1)|pancreas(1)|prostate(1)|skin(2)|urinary_tract(1)	251		Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.92e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.000784)		TCCCCAAATTATGATGATGATGA	0.473			"""T, Mis S, O"""	MLL	"""AML, JMML, MDS"""				Noonan syndrome;CBL gene-associated Juvenile Myelomonocytic Leukemia and Developmental Anomalies				8	245	---	---	---	---					
FAR2	55711	broad.mit.edu	37	12	29450110	29450110	+	Frame_Shift_Del	DEL	A	A	-			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr12:29450110delA	ENST00000182377.4	+	4	790	c.522delA	c.(520-522)ccfs	p.P174fs	RP11-996F15.2_ENST00000553105.1_RNA|FAR2_ENST00000536681.2_Frame_Shift_Del_p.P174fs|FAR2_ENST00000547116.1_Frame_Shift_Del_p.P77fs	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													12	720	---	---	---	---					
RP11-551L14.1	0	broad.mit.edu	37	12	31269805	31269806	+	RNA	INS	-	-	AAG	rs67001718		TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr12:31269805_31269806insAAG	ENST00000542490.1	-	0	52																				central_nervous_system(1)|cervix(1)|endometrium(4)|kidney(1)|large_intestine(2)|lung(25)|prostate(3)|stomach(3)|urinary_tract(1)	41						CAATATTCCTCAAACTTCTCTT	0.307													6	12	---	---	---	---					
RP11-609L23.1	0	broad.mit.edu	37	12	43018865	43018867	+	RNA	DEL	TTC	TTC	-			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr12:43018865_43018867delTTC	ENST00000550337.1	-	0	752																											ctcttcttctttcttcttcttct	0.453													8	45	---	---	---	---					
TMTC3	160418	broad.mit.edu	37	12	88566417	88566417	+	Frame_Shift_Del	DEL	T	T	-			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	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													9	944	---	---	---	---					
DDX55	57696	broad.mit.edu	37	12	124103201	124103202	+	Translation_Start_Site	DEL	TG	TG	-			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr12:124103201_124103202delTG	ENST00000421670.3	+	0	639_640				DDX55_ENST00000541259.1_Intron|DDX55_ENST00000538744.1_Intron|DDX55_ENST00000238146.4_Intron			Q8NHQ9	DDX55_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 55								ATP binding|ATP-dependent helicase activity|RNA binding			autonomic_ganglia(1)|breast(1)|endometrium(1)|large_intestine(3)|liver(1)|lung(4)|ovary(1)|prostate(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000142)|Epithelial(86;0.000637)|all cancers(50;0.00772)		GAATGTGGTATGTGTGTGTGTG	0.520											OREG0022230	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	253	---	---	---	---					
BRCA2	675	broad.mit.edu	37	13	32907421	32907421	+	Frame_Shift_Del	DEL	A	A	-	rs80359307		TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr13:32907421delA	ENST00000544455.1	+	10	2033	c.1806delA	c.(1804-1806)ggfs	p.G602fs	BRCA2_ENST00000380152.3_Frame_Shift_Del_p.G602fs	NM_000059.3	NP_000050.2	P51587	BRCA2_HUMAN	breast cancer 2, early onset	602					cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			NS(3)|breast(13)|central_nervous_system(5)|cervix(2)|endometrium(24)|haematopoietic_and_lymphoid_tissue(1)|kidney(10)|large_intestine(32)|liver(1)|lung(41)|oesophagus(5)|ovary(22)|pancreas(4)|prostate(3)|salivary_gland(1)|skin(11)|upper_aerodigestive_tract(2)|urinary_tract(3)	183		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		CTTATAAAGGAAAAAAAATAC	0.303			"""D, Mis, N, F, S"""		"""breast, ovarian, pancreatic"""	"""breast, ovarian, pancreatic, leukemia  (FANCB, FANCD1)"""		Homologous recombination	Pancreatic Cancer, Familial Clustering of;Li-Fraumeni syndrome;Hereditary Prostate Cancer;Hereditary Breast-Ovarian Cancer, BRCA2 type;Fanconi Anemia type D1, bi-allelic BRCA2 mutations;Fanconi Anemia	TCGA Ovarian(8;0.087)			7	428	---	---	---	---					
KIAA1704	0	broad.mit.edu	37	13	45580365	45580367	+	In_Frame_Del	DEL	GAT	GAT	-	rs138421508		TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr13:45580365_45580367delGAT	ENST00000361121.2	+	3	285_287	c.250_252delGAT	c.(250-252)del	p.D88del	RP11-321C24.1_ENST00000437748.2_lincRNA|KIAA1704_ENST00000357537.3_De_novo_Start_InFrame|KIAA1704_ENST00000379151.4_In_Frame_Del_p.D88del			Q8IXQ4	K1704_HUMAN		88	Poly-Asp.									breast(1)|endometrium(1)|kidney(2)|large_intestine(3)|lung(1)|pancreas(1)|prostate(2)|skin(1)	12		Lung NSC(96;0.00143)|Prostate(109;0.0137)|Breast(139;0.0192)|Lung SC(185;0.0367)|Hepatocellular(98;0.133)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;0.000313)|BRCA - Breast invasive adenocarcinoma(63;0.126)		Ggatgatgacgatgatgatgatg	0.335													18	1169	---	---	---	---					
ESD	2098	broad.mit.edu	37	13	47354112	47354112	+	Frame_Shift_Del	DEL	T	T	-			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr13:47354112delT	ENST00000378720.3	-	8	740	c.558delA	c.(556-558)aafs	p.K186fs	ESD_ENST00000378697.1_Frame_Shift_Del_p.K157fs|ESD_ENST00000495654.1_5'UTR	NM_001984.1	NP_001975.1	P10768	ESTD_HUMAN	esterase D	186						cytoplasmic membrane-bounded vesicle	carboxylesterase activity|S-formylglutathione hydrolase activity			endometrium(1)|kidney(2)|large_intestine(1)|lung(4)|ovary(1)	9		all_lung(13;3.54e-08)|Lung NSC(96;9.1e-06)|Breast(56;0.000148)|Prostate(109;0.0029)|Lung SC(185;0.0367)|Myeloproliferative disorder(33;0.0505)|Hepatocellular(98;0.0556)		GBM - Glioblastoma multiforme(144;2.66e-05)	Glutathione(DB00143)	CACTAAAGGCTTTTTTGCCCC	0.353													9	860	---	---	---	---					
FBXL3	26224	broad.mit.edu	37	13	77581683	77581683	+	Frame_Shift_Del	DEL	A	A	-			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr13:77581683delA	ENST00000355619.5	-	5	1208	c.884delT	c.(883-885)tafs	p.L295fs	FBXL3_ENST00000477982.1_Intron	NM_012158.2	NP_036290.1	Q9UKT7	FBXL3_HUMAN	F-box and leucine-rich repeat protein 3	295					regulation of circadian rhythm|rhythmic process|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	cytoplasm|nucleus|SCF ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity	p.L295fs*3(1)		breast(1)|endometrium(3)|kidney(1)|large_intestine(5)|lung(5)|urinary_tract(1)	16		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.218)		GBM - Glioblastoma multiforme(99;0.0521)		TTCTTCATATAAAAAAAAATA	0.418													10	418	---	---	---	---					
LAMP1	3916	broad.mit.edu	37	13	113964154	113964154	+	Frame_Shift_Del	DEL	T	T	-			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr13:113964154delT	ENST00000332556.4	+	3	574	c.380delT	c.(379-381)ctfs	p.L127fs	LAMP1_ENST00000397181.3_Frame_Shift_Del_p.L127fs	NM_005561.3	NP_005552.3	P11279	LAMP1_HUMAN	lysosomal-associated membrane protein 1	127	First lumenal domain.					endosome membrane|integral to plasma membrane|lysosomal membrane|membrane fraction				NS(1)|central_nervous_system(2)|endometrium(3)|large_intestine(4)|lung(2)|prostate(1)|skin(1)|stomach(2)	16	Lung NSC(43;0.0161)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0482)|all_epithelial(44;0.0148)|all_lung(25;0.0271)|Lung NSC(25;0.0977)|Breast(118;0.188)	all cancers(43;0.025)|GBM - Glioblastoma multiforme(44;0.206)|Epithelial(84;0.246)			GACACACACCTTTTCCCCAAT	0.408													8	1052	---	---	---	---					
DPPA3P2	0	broad.mit.edu	37	14	36841115	36841115	+	RNA	DEL	T	T	-			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr14:36841115delT	ENST00000557188.1	+	0	746																											TTCTTGCACCTTTTTTTCTTG	0.358													8	793	---	---	---	---					
RP11-407N17.3	0	broad.mit.edu	37	14	39746242	39746243	+	Frame_Shift_Ins	INS	-	-	T	rs75842899	byFrequency	TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr14:39746242_39746243insT	ENST00000553728.1	+	6	1986_1987	c.1773_1774insT	c.(1771-1776)ctttttfs	p.LF591fs	CTAGE5_ENST00000396158.2_Frame_Shift_Ins_p.LF56fs|CTAGE5_ENST00000556148.1_Intron|CTAGE5_ENST00000341502.5_Frame_Shift_Ins_p.LF56fs|CTAGE5_ENST00000341749.3_Frame_Shift_Ins_p.LF44fs|CTAGE5_ENST00000348007.3_Frame_Shift_Ins_p.LF56fs|CTAGE5_ENST00000280083.3_Frame_Shift_Ins_p.LF56fs|CTAGE5_ENST00000396165.4_Frame_Shift_Ins_p.LF27fs|CTAGE5_ENST00000557038.1_5'UTR|RP11-407N17.3_ENST00000603904.1_Frame_Shift_Ins_p.LF27fs|CTAGE5_ENST00000553352.1_Frame_Shift_Ins_p.LF27fs																							TTGCTGTTCTCTTTTTTTTGTG	0.371													9	527	---	---	---	---					
PTPN21	11099	broad.mit.edu	37	14	88940113	88940113	+	Frame_Shift_Del	DEL	T	T	-			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr14:88940113delT	ENST00000556564.1	-	14	2829	c.2545delA	c.(2545-2547)ttfs	p.I849fs	PTPN21_ENST00000328736.3_Frame_Shift_Del_p.I849fs	NM_007039.3	NP_008970.2	Q16825	PTN21_HUMAN	protein tyrosine phosphatase, non-receptor type 21	849						cytoplasm|cytoskeleton	binding|protein tyrosine phosphatase activity			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(13)|liver(1)|lung(7)|ovary(4)|prostate(3)|skin(6)|upper_aerodigestive_tract(1)|urinary_tract(1)	45						AGAGGACCAATTTTTTTTGCA	0.393													10	716	---	---	---	---					
EML1	2009	broad.mit.edu	37	14	100367334	100367334	+	Frame_Shift_Del	DEL	T	T	-			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr14:100367334delT	ENST00000262233.6	+	9	1105	c.966delT	c.(964-966)ggfs	p.G322fs	EML1_ENST00000334192.4_Frame_Shift_Del_p.G341fs|EML1_ENST00000327921.9_Frame_Shift_Del_p.G310fs	NM_004434.2	NP_004425.2	O00423	EMAL1_HUMAN	echinoderm microtubule associated protein like 1	322						cytoplasm|microtubule|microtubule associated complex	calcium ion binding|protein binding			breast(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(15)|lung(9)|ovary(1)|pancreas(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	42		Melanoma(154;0.0879)|all_epithelial(191;0.216)				TTGGAATAGGTTTTTTTGACC	0.428													8	839	---	---	---	---					
SNHG14	0	broad.mit.edu	37	15	25324325	25324325	+	RNA	DEL	T	T	-			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr15:25324325delT	ENST00000549804.2	+	0	1377																											ACAACTGTCATTTTTTTTGAT	0.478													9	373	---	---	---	---					
SNHG14	0	broad.mit.edu	37	15	25337049	25337050	+	RNA	DEL	GA	GA	-			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr15:25337049_25337050delGA	ENST00000546682.1	+	0	969				SNHG14_ENST00000553108.1_RNA|SNHG14_ENST00000549804.2_RNA	NR_003361.1																						ACTGGAGCTGGAGAGAGAGAGA	0.500													7	845	---	---	---	---					
WHAMM	123720	broad.mit.edu	37	15	83478966	83478966	+	Frame_Shift_Del	DEL	C	C	-			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr15:83478966delC	ENST00000286760.4	+	1	587	c.488delC	c.(487-489)gcfs	p.A163fs		NM_001080435.1	NP_001073904.1	Q8TF30	WHAMM_HUMAN	WAS protein homolog associated with actin, golgi membranes and microtubules	163						cytoplasmic vesicle membrane|ER-Golgi intermediate compartment|Golgi apparatus	actin binding			endometrium(6)|large_intestine(5)|lung(1)|prostate(1)	13						TGCGGCGGCGCCACAGTGCGC	0.781													2	4	---	---	---	---					
CMTM1	113540	broad.mit.edu	37	16	66603929	66603930	+	Frame_Shift_Ins	INS	-	-	T			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr16:66603929_66603930insT	ENST00000379500.2	+	2	590_591	c.523_524insT	c.(523-525)tttfs	p.F175fs	CMTM1_ENST00000328020.6_Frame_Shift_Ins_p.F175fs|CMTM1_ENST00000528324.1_Frame_Shift_Ins_p.F58fs|CMTM1_ENST00000533666.1_Intron|CMTM1_ENST00000535705.1_Intron|CMTM1_ENST00000332695.7_Intron|CKLF-CMTM1_ENST00000527729.1_Intron|CMTM1_ENST00000533953.1_Intron|CMTM1_ENST00000457188.2_Frame_Shift_Ins_p.F58fs|CMTM1_ENST00000531885.1_Intron|CMTM1_ENST00000336328.6_Intron	NM_052999.3|NM_181268.2	NP_443725.3|NP_851785.2	Q8IZ96	CKLF1_HUMAN	CKLF-like MARVEL transmembrane domain containing 1	58					chemotaxis	extracellular space|integral to membrane	cytokine activity			breast(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(2)	7		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0702)|Epithelial(162;0.222)		CTGCATTGTCGTTTTTTTTATT	0.347													8	772	---	---	---	---					
NOB1	28987	broad.mit.edu	37	16	69782978	69782980	+	In_Frame_Del	DEL	TCC	TCC	-			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr16:69782978_69782980delTCC	ENST00000268802.5	-	6	596_598	c.567_569delGGA	c.(565-570)gaa>ga	p.EE189del		NM_014062.1	NP_054781.1	Q9ULX3	NOB1_HUMAN	NIN1/RPN12 binding protein 1 homolog (S. cerevisiae)	189	Poly-Glu.					nucleus	metal ion binding|protein binding			breast(2)|cervix(1)|endometrium(1)|large_intestine(1)|lung(3)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	11						CCCGTTTTCTTCCTCCTCCTCCT	0.522													9	260	---	---	---	---					
TMEM97	27346	broad.mit.edu	37	17	26653806	26653807	+	Frame_Shift_Ins	INS	-	-	A			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr17:26653806_26653807insA	ENST00000226230.6	+	3	663_664	c.518_519insA	c.(517-519)aaafs	p.K173fs	TMEM97_ENST00000336687.6_Frame_Shift_Ins_p.K66fs|TMEM97_ENST00000583381.1_Frame_Shift_Ins_p.K66fs	NM_014573.2	NP_055388.2	Q5BJF2	TMM97_HUMAN	transmembrane protein 97	173					cholesterol homeostasis|regulation of cell growth	integral to membrane|lysosome|nuclear membrane|plasma membrane|rough endoplasmic reticulum	protein binding	p.K176fs?(1)		endometrium(1)|lung(3)|ovary(1)|upper_aerodigestive_tract(1)	6	all_lung(13;0.000238)|Lung NSC(42;0.000789)			UCEC - Uterine corpus endometrioid carcinoma (53;0.153)		GAAGAGAAAAGAAAAAAAAAAT	0.441													16	299	---	---	---	---					
CSF3	1440	broad.mit.edu	37	17	38172769	38172769	+	Frame_Shift_Del	DEL	T	T	-			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr17:38172769delT	ENST00000331769.2	+	3	539	c.323delT	c.(322-324)ctfs	p.L108fs	CSF3_ENST00000225474.2_Frame_Shift_Del_p.L115fs|CSF3_ENST00000394149.3_Frame_Shift_Del_p.L112fs|CSF3_ENST00000394148.3_Frame_Shift_Del_p.L79fs|CSF3_ENST00000577675.1_Frame_Shift_Del_p.L72fs			P09919	CSF3_HUMAN	colony stimulating factor 3 (granulocyte)	115					cytokine-mediated signaling pathway|granulocyte differentiation|immune response|positive regulation of cell proliferation	extracellular space	cytokine activity|enzyme binding|granulocyte colony-stimulating factor receptor binding|growth factor activity			endometrium(1)|ovary(1)|prostate(1)	3	Colorectal(19;0.000442)	Myeloproliferative disorder(1115;0.0255)			Filgrastim(DB00099)|Pegfilgrastim(DB00019)	CATAGCGGCCTTTTCCTCTAC	0.627													9	894	---	---	---	---					
BPTF	2186	broad.mit.edu	37	17	65940454	65940456	+	In_Frame_Del	DEL	CAC	CAC	-	rs143937013		TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr17:65940454_65940456delCAC	ENST00000321892.4	+	22	7105_7107	c.7044_7046delCAC	c.(7042-7047)agc>ag	p.ST2348del	BPTF_ENST00000424123.3_In_Frame_Del_p.ST2209del|BPTF_ENST00000306378.6_In_Frame_Del_p.ST2222del|BPTF_ENST00000335221.5_In_Frame_Del_p.ST2348del			Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	2348	Thr-rich.				brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			NS(1)|breast(1)|central_nervous_system(3)|cervix(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(16)|lung(23)|ovary(3)|pancreas(2)|prostate(4)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(2)	78	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)			CCACAGCCAGCACCACCACCACC	0.542													8	703	---	---	---	---					
ITGB4	3691	broad.mit.edu	37	17	73750045	73750046	+	Frame_Shift_Ins	INS	-	-	C			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr17:73750045_73750046insC	ENST00000200181.3	+	33	4495_4496	c.4308_4309insC	c.(4306-4311)ggccccfs	p.GP1436fs	ITGB4_ENST00000339591.3_Intron|ITGB4_ENST00000579662.1_Intron|GALK1_ENST00000225614.2_Intron|ITGB4_ENST00000450894.3_Intron|ITGB4_ENST00000449880.2_Intron	NM_000213.3	NP_000204.3	P16144	ITB4_HUMAN	integrin, beta 4	1436					cell communication|cell motility|cell-matrix adhesion|hemidesmosome assembly|integrin-mediated signaling pathway|multicellular organismal development|response to wounding	cell leading edge|cell surface|hemidesmosome|integrin complex	protein binding|receptor activity			breast(2)|central_nervous_system(1)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(3)|liver(1)|lung(25)|skin(1)|urinary_tract(1)	43	all_cancers(13;1.5e-07)		all cancers(21;8.32e-07)|Epithelial(20;1.92e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00194)|Lung(188;0.132)|LUSC - Lung squamous cell carcinoma(166;0.154)			CGACACCCGGGCCCCCCGGAGG	0.817													2	4	---	---	---	---					
SLC38A10	124565	broad.mit.edu	37	17	79219742	79219742	+	Frame_Shift_Del	DEL	C	C	-			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr17:79219742delC	ENST00000374759.3	-	16	3357	c.2974delG	c.(2974-2976)acfs	p.D992fs		NM_001037984.1	NP_001033073.1	Q9HBR0	S38AA_HUMAN	solute carrier family 38, member 10	992					amino acid transport|sodium ion transport	integral to membrane				NS(1)|breast(2)|endometrium(4)|kidney(2)|large_intestine(2)|lung(7)|pancreas(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	23	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0272)|OV - Ovarian serous cystadenocarcinoma(97;0.117)			GGCACATGGTCCCCCCCGCGG	0.687													7	336	---	---	---	---					
SERPINB10	5273	broad.mit.edu	37	18	61584739	61584739	+	Frame_Shift_Del	DEL	A	A	-			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr18:61584739delA	ENST00000238508.3	+	3	277	c.218delA	c.(217-219)gafs	p.E73fs		NM_005024.1	NP_005015.1			serpin peptidase inhibitor, clade B (ovalbumin), member 10									p.R76fs*7(1)		breast(1)|endometrium(3)|kidney(2)|large_intestine(6)|lung(6)|prostate(1)|skin(3)|stomach(2)	24		Esophageal squamous(42;0.131)				CCTGAAAGTGAAAAAAAAAGG	0.284													8	187	---	---	---	---					
RSPH6A	81492	broad.mit.edu	37	19	46299165	46299167	+	In_Frame_Del	DEL	CCT	CCT	-	rs62639328	byFrequency	TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	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													10	488	---	---	---	---					
SIGLEC8	27181	broad.mit.edu	37	19	51961617	51961619	+	In_Frame_Del	DEL	GCA	GCA	-			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr19:51961617_51961619delGCA	ENST00000321424.3	-	1	89_91	c.23_25delTGC	c.(22-27)ccc>c	p.LP8del	SIGLEC8_ENST00000430817.1_In_Frame_Del_p.LP8del|SIGLEC8_ENST00000340550.5_In_Frame_Del_p.LP8del	NM_014442.2	NP_055257.2	Q9NYZ4	SIGL8_HUMAN	sialic acid binding Ig-like lectin 8	8					cell adhesion	integral to membrane	sugar binding|transmembrane receptor activity			NS(1)|central_nervous_system(3)|endometrium(2)|kidney(4)|large_intestine(11)|liver(3)|lung(15)|ovary(2)|skin(4)|stomach(3)|urinary_tract(2)	50		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000627)|OV - Ovarian serous cystadenocarcinoma(262;0.00979)		CAGagcaggggcagcagcagcag	0.596													7	259	---	---	---	---					
RP4-777D9.2	0	broad.mit.edu	37	20	21142441	21142442	+	RNA	INS	-	-	A	rs71715453		TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chr20:21142441_21142442insA	ENST00000591761.1	-	0	5142				PLK1S1_ENST00000457464.1_RNA|RP5-872K7.7_ENST00000425746.2_RNA																							TTCATTTCTGGAAAAAAAAAAA	0.366													8	60	---	---	---	---					
TSPYL2	64061	broad.mit.edu	37	X	53111759	53111761	+	In_Frame_Del	DEL	CCG	CCG	-			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chrX:53111759_53111761delCCG	ENST00000375442.4	+	1	211_213	c.79_81delCCG	c.(79-81)del	p.P33del		NM_022117.3	NP_071400.1	Q9H2G4	TSYL2_HUMAN	TSPY-like 2	33	Pro-rich.				cell cycle|chromatin modification|negative regulation of cell cycle|negative regulation of cell growth|negative regulation of DNA replication|nucleosome assembly|regulation of protein kinase activity|regulation of signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	protein binding|rDNA binding			central_nervous_system(1)|endometrium(4)|kidney(3)|large_intestine(2)|lung(8)|upper_aerodigestive_tract(1)	19						CGACccgcccccgccgccgccgc	0.744													2	4	---	---	---	---					
BHLHB9	80823	broad.mit.edu	37	X	102004419	102004421	+	In_Frame_Del	DEL	GAG	GAG	-			TCGA-3A-A9IO-01A-11D-A38G-08	TCGA-3A-A9IO-10A-01D-A38J-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f03781a-d0e8-412d-b9b4-cfe3a5200e63	15ef34ec-aff2-4c0d-a8cf-9d725d670cab	g.chrX:102004419_102004421delGAG	ENST00000372735.1	+	4	1081_1083	c.496_498delGAG	c.(496-498)del	p.E171del	BHLHB9_ENST00000457056.1_In_Frame_Del_p.E171del|BHLHB9_ENST00000448867.1_In_Frame_Del_p.E171del|BHLHB9_ENST00000447531.1_In_Frame_Del_p.E171del|BHLHB9_ENST00000361229.4_In_Frame_Del_p.E171del			Q6PI77	BHLH9_HUMAN	basic helix-loop-helix domain containing, class B, 9	171	Poly-Glu.					cytoplasm|nucleus	binding			cervix(1)|endometrium(6)|kidney(3)|large_intestine(1)|lung(8)|ovary(3)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	26						GTCAGGGGCTGAGGAGGAGGAGG	0.488													8	389	---	---	---	---					
