Hugo_Symbol	Entrez_Gene_Id	Center	NCBI_Build	Chromosome	Start_position	End_position	Strand	Variant_Classification	Variant_Type	Reference_Allele	Tumor_Seq_Allele1	Tumor_Seq_Allele2	dbSNP_RS	dbSNP_Val_Status	Tumor_Sample_Barcode	Matched_Norm_Sample_Barcode	Match_Norm_Seq_Allele1	Match_Norm_Seq_Allele2	Tumor_Validation_Allele1	Tumor_Validation_Allele2	Match_Norm_Validation_Allele1	Match_Norm_Validation_Allele2	Verification_Status	Validation_Status	Mutation_Status	Sequencing_Phase	Sequence_Source	Validation_Method	Score	BAM_file	Sequencer	Tumor_Sample_UUID	Matched_Norm_Sample_UUID	Genome_Change	Annotation_Transcript	Transcript_Strand	Transcript_Exon	Transcript_Position	cDNA_Change	Codon_Change	Protein_Change	Other_Transcripts	Refseq_mRNA_Id	Refseq_prot_Id	SwissProt_acc_Id	SwissProt_entry_Id	Description	UniProt_AApos	UniProt_Region	UniProt_Site	UniProt_Natural_Variations	UniProt_Experimental_Info	GO_Biological_Process	GO_Cellular_Component	GO_Molecular_Function	COSMIC_overlapping_mutations	COSMIC_fusion_genes	COSMIC_tissue_types_affected	COSMIC_total_alterations_in_gene	Tumorscape_Amplification_Peaks	Tumorscape_Deletion_Peaks	TCGAscape_Amplification_Peaks	TCGAscape_Deletion_Peaks	DrugBank	ref_context	gc_content	CCLE_ONCOMAP_overlapping_mutations	CCLE_ONCOMAP_total_mutations_in_gene	CGC_Mutation_Type	CGC_Translocation_Partner	CGC_Tumor_Types_Somatic	CGC_Tumor_Types_Germline	CGC_Other_Diseases	DNARepairGenes_Role	FamilialCancerDatabase_Syndromes	MUTSIG_Published_Results	OREGANNO_ID	OREGANNO_Values	t_alt_count	t_ref_count	validation_status	validation_method	validation_tumor_sample	validation_alt_allele	filter
PER3	8863	broad.mit.edu	37	1	7887817	7887817	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr1:7887817C>T	uc001aoo.2	+	17	2979	c.2804C>T	c.(2803-2805)CCC>CTC	p.P935L	PER3_uc009vmg.1_Missense_Mutation_p.P943L|PER3_uc009vmh.1_Missense_Mutation_p.P936L|PER3_uc001aop.2_Missense_Mutation_p.P943L|PER3_uc010nzw.1_Missense_Mutation_p.P624L	NM_016831	NP_058515	P56645	PER3_HUMAN	period 3	935					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	signal transducer activity			ovary(1)|pancreas(1)|skin(1)	3	Ovarian(185;0.0634)|all_lung(157;0.178)	all_epithelial(116;9.35e-21)|all_lung(118;7.57e-07)|Lung NSC(185;4.52e-06)|Renal(390;0.000147)|Breast(487;0.00086)|Colorectal(325;0.000959)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0234)|all cancers(8;8.58e-70)|GBM - Glioblastoma multiforme(8;1.81e-35)|Colorectal(212;2.06e-07)|COAD - Colon adenocarcinoma(227;1.92e-05)|Kidney(185;7.18e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000472)|STAD - Stomach adenocarcinoma(132;0.00118)|KIRC - Kidney renal clear cell carcinoma(229;0.00122)|READ - Rectum adenocarcinoma(331;0.0649)		GAAGAGATGCCCAGACCCTCT	0.473													5	54	---	---	---	---	PASS
VPS13D	55187	broad.mit.edu	37	1	12343573	12343573	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr1:12343573G>T	uc001atv.2	+	21	5555	c.5414G>T	c.(5413-5415)CGA>CTA	p.R1805L	VPS13D_uc001atw.2_Missense_Mutation_p.R1805L|VPS13D_uc001atx.2_Missense_Mutation_p.R993L	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	1805					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		AGTTACAATCGAGTTAACCGG	0.373													5	75	---	---	---	---	PASS
CELA2B	51032	broad.mit.edu	37	1	15808768	15808768	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr1:15808768G>T	uc001awl.2	+	4	261	c.236G>T	c.(235-237)GGG>GTG	p.G79V		NM_015849	NP_056933	P08218	CEL2B_HUMAN	elastase 2B preproprotein	79	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			ovary(1)	1						AGCTCCTCCGGGATCTACCGC	0.572													5	42	---	---	---	---	PASS
HSPG2	3339	broad.mit.edu	37	1	22154752	22154752	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr1:22154752G>T	uc001bfj.2	-	89	12445	c.12405C>A	c.(12403-12405)TTC>TTA	p.F4135L	HSPG2_uc001bfi.2_Missense_Mutation_p.F152L|HSPG2_uc009vqd.2_Missense_Mutation_p.F4136L	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	4135	EGF-like 3.			F -> I (in Ref. 2; CAA44373).	angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	TCCCACCTTTGAATCCATCTC	0.642													9	57	---	---	---	---	PASS
CSMD2	114784	broad.mit.edu	37	1	34067979	34067979	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr1:34067979T>C	uc001bxn.1	-	44	6735	c.6706A>G	c.(6706-6708)ATC>GTC	p.I2236V	CSMD2_uc001bxm.1_Missense_Mutation_p.I2234V|CSMD2_uc001bxo.1_Missense_Mutation_p.I1107V	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	2236	Extracellular (Potential).|CUB 13.					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				CAGATGGTGATGAAATCTCCA	0.542													5	40	---	---	---	---	PASS
GJB4	127534	broad.mit.edu	37	1	35227351	35227351	+	Missense_Mutation	SNP	G	A	A	rs141637346		TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr1:35227351G>A	uc001bxv.1	+	2	866	c.496G>A	c.(496-498)GTG>ATG	p.V166M	GJB4_uc001bxw.3_Missense_Mutation_p.V166M	NM_153212	NP_694944	Q9NTQ9	CXB4_HUMAN	gap junction protein, beta 4	166	Extracellular (Potential).				cell communication	connexon complex|integral to membrane	gap junction channel activity			ovary(2)|central_nervous_system(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.234)				GGCCTGCTCCGTGGAGCCTTG	0.582													8	23	---	---	---	---	PASS
GLMN	11146	broad.mit.edu	37	1	92756981	92756981	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr1:92756981C>A	uc001dor.2	-	4	394	c.279G>T	c.(277-279)TTG>TTT	p.L93F	GLMN_uc009wdg.2_RNA|GLMN_uc001dos.2_Missense_Mutation_p.L93F	NM_053274	NP_444504	Q92990	GLMN_HUMAN	glomulin	93					muscle cell differentiation|negative regulation of T cell proliferation|positive regulation of cytokine secretion|positive regulation of interleukin-2 biosynthetic process|positive regulation of phosphorylation|regulation of gene expression, epigenetic|vasculogenesis	intracellular	hepatocyte growth factor receptor binding			skin(1)	1		all_lung(203;0.00827)|Lung NSC(277;0.0295)		all cancers(265;0.00702)|GBM - Glioblastoma multiforme(16;0.0381)|Epithelial(280;0.0989)		TTACCTTTACCAATAAATCAA	0.308									Multiple_Glomus_Tumors_(of_the_Skin)_Familial				5	25	---	---	---	---	PASS
FMO5	2330	broad.mit.edu	37	1	146684906	146684906	+	Silent	SNP	G	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr1:146684906G>T	uc001epi.2	-	4	845	c.456C>A	c.(454-456)ACC>ACA	p.T152T	FMO5_uc001eph.3_Silent_p.T152T|FMO5_uc001epj.2_Silent_p.T152T|FMO5_uc001epk.3_Silent_p.T152T	NM_001461	NP_001452	P49326	FMO5_HUMAN	flavin containing monooxygenase 5 isoform 1	152						integral to membrane|intrinsic to endoplasmic reticulum membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity|NADP binding			ovary(3)	3	all_hematologic(923;0.0487)					GATGAGCATTGGTGTGATGGC	0.507													6	116	---	---	---	---	PASS
SV2A	9900	broad.mit.edu	37	1	149880790	149880790	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr1:149880790G>T	uc001etg.2	-	8	1824	c.1333C>A	c.(1333-1335)CGC>AGC	p.R445S	SV2A_uc009wlk.2_5'Flank|SV2A_uc001eth.2_Missense_Mutation_p.R445S	NM_014849	NP_055664	Q7L0J3	SV2A_HUMAN	synaptic vesicle glycoprotein 2	445	Cytoplasmic (Potential).				neurotransmitter transport	cell junction|endoplasmic reticulum|integral to membrane|synaptic vesicle membrane	transmembrane transporter activity			ovary(6)|pancreas(1)	7	Breast(34;0.00769)|all_hematologic(923;0.127)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.221)|STAD - Stomach adenocarcinoma(528;0.247)		Levetiracetam(DB01202)	AGAGTGATGCGCCGATATTCG	0.507													6	144	---	---	---	---	PASS
RPRD2	23248	broad.mit.edu	37	1	150444878	150444878	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr1:150444878G>A	uc009wlr.2	+	11	3655	c.3454G>A	c.(3454-3456)GGG>AGG	p.G1152R	RPRD2_uc010pcc.1_3'UTR|RPRD2_uc001eup.3_Missense_Mutation_p.G1126R	NM_015203	NP_056018	Q5VT52	RPRD2_HUMAN	Regulation of nuclear pre-mRNA domain containing	1152	Poly-Gly.						protein binding			ovary(1)	1						GGCATCCCTTGGGGGTGGGGG	0.547													6	39	---	---	---	---	PASS
FLG	2312	broad.mit.edu	37	1	152278619	152278619	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr1:152278619G>T	uc001ezu.1	-	3	8779	c.8743C>A	c.(8743-8745)CAT>AAT	p.H2915N		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	2915	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GATCCATGATGGTTTCTGGAA	0.567									Ichthyosis				7	263	---	---	---	---	PASS
FLG	2312	broad.mit.edu	37	1	152280465	152280465	+	Silent	SNP	G	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr1:152280465G>T	uc001ezu.1	-	3	6933	c.6897C>A	c.(6895-6897)TCC>TCA	p.S2299S		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	2299	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CTGATTGTCTGGAGCTCTCTG	0.552									Ichthyosis				9	429	---	---	---	---	PASS
C1orf77	26097	broad.mit.edu	37	1	153615769	153615769	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr1:153615769G>T	uc001fcm.1	+	5	782	c.470G>T	c.(469-471)CGA>CTA	p.R157L	C1orf77_uc001fcn.1_Missense_Mutation_p.R158L|C1orf77_uc001fco.1_Missense_Mutation_p.R132L|C1orf77_uc001fcp.2_5'Flank|C1orf77_uc009woj.1_3'UTR	NM_015607	NP_056422	Q9Y3Y2	CHTOP_HUMAN	small protein rich in arginine and glycine	157	Arg/Gly-rich.|Interaction with PRMT1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	protein binding|RNA binding				0	all_lung(78;1.84e-32)|Lung NSC(65;6.67e-31)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.171)			GGTGGTGTTCGAGGTCGTGGA	0.562													7	123	---	---	---	---	PASS
UBAP2L	9898	broad.mit.edu	37	1	154227742	154227742	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr1:154227742C>A	uc001fep.3	+	17	2191	c.2024C>A	c.(2023-2025)TCC>TAC	p.S675Y	UBAP2L_uc009wot.2_Missense_Mutation_p.S675Y|UBAP2L_uc010pek.1_Missense_Mutation_p.S667Y|UBAP2L_uc010pel.1_Missense_Mutation_p.S685Y|UBAP2L_uc010pen.1_Missense_Mutation_p.S589Y|UBAP2L_uc001feq.2_5'UTR|UBAP2L_uc001fer.2_5'Flank	NM_014847	NP_055662	Q14157	UBP2L_HUMAN	ubiquitin associated protein 2-like isoform a	675					binding of sperm to zona pellucida		protein binding			ovary(1)|central_nervous_system(1)	2	all_lung(78;1.09e-30)|Lung NSC(65;1.66e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			CATTCATCCTCCTTGGGTGGC	0.498													6	71	---	---	---	---	PASS
ASH1L	55870	broad.mit.edu	37	1	155317595	155317595	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr1:155317595A>G	uc009wqq.2	-	20	8150	c.7670T>C	c.(7669-7671)ATT>ACT	p.I2557T	RAG1AP1_uc010pey.1_Intron|ASH1L_uc001fkt.2_Missense_Mutation_p.I2552T|MIR555_hsa-mir-555|MI0003561_5'Flank	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like	2557					cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	11	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)			CTCTCCCACAATCTCATCAAT	0.493													7	78	---	---	---	---	PASS
MEX3A	92312	broad.mit.edu	37	1	156047123	156047123	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr1:156047123C>A	uc001fnd.3	-	2	805	c.805G>T	c.(805-807)GAG>TAG	p.E269*		NM_001093725	NP_001087194	A1L020	MEX3A_HUMAN	MEX3A protein	269	KH 2.					cytoplasmic mRNA processing body|nucleus	RNA binding|zinc ion binding				0	Hepatocellular(266;0.158)|all_neural(408;0.195)					CCCGTGATCTCGAACACGGGG	0.602													3	16	---	---	---	---	PASS
CCT3	7203	broad.mit.edu	37	1	156287294	156287294	+	Silent	SNP	G	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr1:156287294G>T	uc001fol.1	-	9	1024	c.804C>A	c.(802-804)CTC>CTA	p.L268L	CCT3_uc001fom.1_Silent_p.L267L|CCT3_uc001fon.1_Silent_p.L230L|CCT3_uc010phj.1_Silent_p.L222L|CCT3_uc010phk.1_Silent_p.L222L|CCT3_uc010phl.1_Silent_p.L222L	NM_005998	NP_005989	P49368	TCPG_HUMAN	chaperonin containing TCP1, subunit 3 isoform a	268					'de novo' posttranslational protein folding	cytoskeleton|cytosol|plasma membrane	ATP binding|unfolded protein binding			ovary(1)|skin(1)	2	Hepatocellular(266;0.158)					CCTCCATCTGGAGAATTCGGG	0.463													7	162	---	---	---	---	PASS
INSRR	3645	broad.mit.edu	37	1	156819146	156819146	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr1:156819146G>T	uc010pht.1	-	6	1590	c.1336C>A	c.(1336-1338)CCG>ACG	p.P446T	NTRK1_uc001fqf.1_Intron|NTRK1_uc009wsi.1_Intron	NM_014215	NP_055030	P14616	INSRR_HUMAN	insulin receptor-related receptor precursor	446					protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|insulin receptor substrate binding|metal ion binding|phosphatidylinositol 3-kinase binding|transmembrane receptor protein tyrosine kinase activity			lung(11)|ovary(5)|skin(2)|kidney(1)|central_nervous_system(1)	20	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					CAGAGGCGCGGGTTGAAGGCG	0.612													6	83	---	---	---	---	PASS
PEAR1	375033	broad.mit.edu	37	1	156882414	156882414	+	Nonsense_Mutation	SNP	G	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr1:156882414G>T	uc001fqj.1	+	17	2325	c.2209G>T	c.(2209-2211)GGA>TGA	p.G737*	PEAR1_uc001fqk.1_Nonsense_Mutation_p.G362*	NM_001080471	NP_001073940	Q5VY43	PEAR1_HUMAN	platelet endothelial aggregation receptor 1	737						integral to membrane				ovary(2)|central_nervous_system(1)	3	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					TTGCAGGATTGGTGAGTTCTT	0.602													5	52	---	---	---	---	PASS
CD1A	909	broad.mit.edu	37	1	158225830	158225830	+	Missense_Mutation	SNP	T	G	G			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr1:158225830T>G	uc001frt.2	+	3	895	c.362T>G	c.(361-363)CTG>CGG	p.L121R		NM_001763	NP_001754	P06126	CD1A_HUMAN	CD1A antigen precursor	121	Extracellular (Potential).				antigen processing and presentation|immune response	endosome membrane|integral to plasma membrane|MHC class I protein complex				pancreas(2)|skin(1)	3	all_hematologic(112;0.0378)				Antithymocyte globulin(DB00098)	GGCTGTGAGCTGCACTCTGGA	0.423													7	36	---	---	---	---	PASS
PRDX6	9588	broad.mit.edu	37	1	173454564	173454564	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr1:173454564G>T	uc001giy.1	+	3	368	c.317G>T	c.(316-318)AGG>ATG	p.R106M		NM_004905	NP_004896	P30041	PRDX6_HUMAN	peroxiredoxin 6	106	Thioredoxin.				cell redox homeostasis|phospholipid catabolic process	cytoplasmic membrane-bounded vesicle|cytosol|lysosome	peroxiredoxin activity|phospholipase A2 activity|protein binding			central_nervous_system(1)	1						ATCGATGATAGGAATCGGGAG	0.448													5	45	---	---	---	---	PASS
CACNA1E	777	broad.mit.edu	37	1	181680149	181680149	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr1:181680149G>A	uc001gow.2	+	8	1280	c.1115G>A	c.(1114-1116)CGC>CAC	p.R372H	CACNA1E_uc009wxs.2_Missense_Mutation_p.R279H	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	372	Cytoplasmic (Potential).				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						AAGCTGCGGCGCCAGCAGCAG	0.567													10	68	---	---	---	---	PASS
APOB	338	broad.mit.edu	37	2	21228607	21228607	+	Silent	SNP	G	C	C			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr2:21228607G>C	uc002red.2	-	26	11261	c.11133C>G	c.(11131-11133)ACC>ACG	p.T3711T		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	3711					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	TGGGGTTTTTGGTGTACACAA	0.403													8	58	---	---	---	---	PASS
C2orf39	92749	broad.mit.edu	37	2	26671582	26671582	+	Missense_Mutation	SNP	G	T	T	rs145706376	byFrequency	TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr2:26671582G>T	uc002rhg.2	+	11	1494	c.1420G>T	c.(1420-1422)GCC>TCC	p.A474S		NM_145038	NP_659475	Q96MC2	CC164_HUMAN	hypothetical protein LOC92749	474											0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AGAAGAGGCCGCCGCGGAACC	0.507													4	73	---	---	---	---	PASS
BIRC6	57448	broad.mit.edu	37	2	32773032	32773032	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr2:32773032C>T	uc010ezu.2	+	64	13060	c.12926C>T	c.(12925-12927)GCC>GTC	p.A4309V		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	4309					anti-apoptosis|apoptosis	intracellular	acid-amino acid ligase activity|cysteine-type endopeptidase inhibitor activity|protein binding			ovary(5)|skin(4)|lung(2)|central_nervous_system(1)|breast(1)|pancreas(1)	14	Acute lymphoblastic leukemia(172;0.155)					GTGGAACAAGCCTTAACTAAG	0.403													5	47	---	---	---	---	PASS
KDM3A	55818	broad.mit.edu	37	2	86705771	86705771	+	Silent	SNP	G	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr2:86705771G>A	uc002sri.3	+	15	2556	c.2229G>A	c.(2227-2229)GCG>GCA	p.A743A	KDM3A_uc010ytj.1_Silent_p.A743A|KDM3A_uc010ytk.1_Silent_p.A691A	NM_018433	NP_060903	Q9Y4C1	KDM3A_HUMAN	jumonji domain containing 1A	743					androgen receptor signaling pathway|cell differentiation|formaldehyde biosynthetic process|histone H3-K9 demethylation|hormone-mediated signaling pathway|positive regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	cytoplasm|nucleus	androgen receptor binding|iron ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			breast(2)|ovary(1)|central_nervous_system(1)|skin(1)	5						CTGTAAGAGCGAAATGGGGAA	0.403													18	42	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	2	89326856	89326856	+	RNA	SNP	A	C	C			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr2:89326856A>C	uc010ytr.1	-	68		c.6322T>G			uc002stl.2_Intron					Parts of antibodies, mostly variable regions.																		TACCAGGCTAAGTAGCTGCTA	0.572													8	103	---	---	---	---	PASS
CKAP2L	150468	broad.mit.edu	37	2	113498469	113498469	+	Silent	SNP	C	G	G			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr2:113498469C>G	uc002tie.2	-	8	2017	c.1938G>C	c.(1936-1938)ACG>ACC	p.T646T	CKAP2L_uc002tif.2_Silent_p.T235T|CKAP2L_uc010yxp.1_Silent_p.T481T|uc002tid.2_Intron	NM_152515	NP_689728	Q8IYA6	CKP2L_HUMAN	cytoskeleton associated protein 2-like	646						centrosome					0						GGGGTGTCGCCGTGACTTGTT	0.433													35	138	---	---	---	---	PASS
CCDC74A	90557	broad.mit.edu	37	2	132288338	132288338	+	Missense_Mutation	SNP	G	A	A	rs140463466	byFrequency	TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr2:132288338G>A	uc002tta.2	+	3	534	c.482G>A	c.(481-483)CGC>CAC	p.R161H	CCDC74A_uc002ttb.2_Intron	NM_138770	NP_620125	Q96AQ1	CC74A_HUMAN	coiled-coil domain containing 74A	161										skin(1)	1						GACACTGTGCGCTCTCCTGCA	0.627													13	21	---	---	---	---	PASS
SCN7A	6332	broad.mit.edu	37	2	167319016	167319016	+	Silent	SNP	A	G	G			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr2:167319016A>G	uc002udu.1	-	9	1093	c.966T>C	c.(964-966)TGT>TGC	p.C322C	SCN7A_uc010fpm.1_RNA	NM_002976	NP_002967	Q01118	SCN7A_HUMAN	sodium channel, voltage-gated, type VII, alpha	322					muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			large_intestine(1)	1						CAGCTTTTACACACACATATC	0.378													6	30	---	---	---	---	PASS
LRP2	4036	broad.mit.edu	37	2	170009390	170009390	+	Missense_Mutation	SNP	C	T	T	rs142934522	byFrequency	TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr2:170009390C>T	uc002ues.2	-	67	12593	c.12380G>A	c.(12379-12381)CGC>CAC	p.R4127H		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	4127	Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	AAGATTATTGCGGCCGGATTC	0.473													24	211	---	---	---	---	PASS
SLC25A12	8604	broad.mit.edu	37	2	172700882	172700882	+	Silent	SNP	G	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr2:172700882G>T	uc002uhh.2	-	5	551	c.462C>A	c.(460-462)CTC>CTA	p.L154L	SLC25A12_uc010fqh.2_Silent_p.L47L|SLC25A12_uc010zdv.1_RNA	NM_003705	NP_003696	O75746	CMC1_HUMAN	solute carrier family 25, member 12	154	EF-hand 3.				gluconeogenesis|malate-aspartate shuttle|response to calcium ion	integral to membrane|mitochondrial inner membrane	calcium ion binding|L-aspartate transmembrane transporter activity|L-glutamate transmembrane transporter activity|protein binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.216)		L-Aspartic Acid(DB00128)	AGCTCACCTGGAGAAACTGCG	0.348													5	68	---	---	---	---	PASS
COL5A2	1290	broad.mit.edu	37	2	189927746	189927746	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr2:189927746G>T	uc002uqk.2	-	28	2188	c.1913C>A	c.(1912-1914)CCT>CAT	p.P638H	COL5A2_uc010frx.2_Missense_Mutation_p.P214H	NM_000393	NP_000384	P05997	CO5A2_HUMAN	alpha 2 type V collagen preproprotein	638					axon guidance|collagen fibril organization|eye morphogenesis|skin development	collagen type V	extracellular matrix structural constituent			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.127)			CCTCTGCCCAGGAACTCCAGC	0.353													7	101	---	---	---	---	PASS
RFTN2	130132	broad.mit.edu	37	2	198498590	198498590	+	Silent	SNP	T	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr2:198498590T>A	uc002uuo.3	-	4	972	c.570A>T	c.(568-570)TCA>TCT	p.S190S		NM_144629	NP_653230	Q52LD8	RFTN2_HUMAN	raftlin family member 2	190						plasma membrane					0						AGTTTTCATCTGAACCGTGTC	0.398													7	50	---	---	---	---	PASS
ALS2	57679	broad.mit.edu	37	2	202625741	202625741	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr2:202625741C>A	uc002uyo.2	-	4	1332	c.976G>T	c.(976-978)GGA>TGA	p.G326*	ALS2_uc002uyp.3_Nonsense_Mutation_p.G326*|ALS2_uc002uyq.2_Nonsense_Mutation_p.G326*|ALS2_uc002uyr.2_Nonsense_Mutation_p.G326*	NM_020919	NP_065970	Q96Q42	ALS2_HUMAN	alsin isoform 1	326					cell death|endosome organization|positive regulation of Rac GTPase activity|regulation of endosome size	centrosome|cytosol|early endosome|growth cone|lamellipodium|protein complex|ruffle	protein homodimerization activity|protein serine/threonine kinase activator activity|Rab GTPase binding|Rab guanyl-nucleotide exchange factor activity|Rac guanyl-nucleotide exchange factor activity|Ran guanyl-nucleotide exchange factor activity			skin(5)|lung(1)|breast(1)	7						TCAGTTGTTCCCATGACATTT	0.433													7	103	---	---	---	---	PASS
VIL1	7429	broad.mit.edu	37	2	219296605	219296605	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr2:219296605T>A	uc002via.2	+	11	1193	c.1128T>A	c.(1126-1128)GAT>GAA	p.D376E	VIL1_uc010zke.1_Missense_Mutation_p.D65E|VIL1_uc002vib.2_Missense_Mutation_p.D376E	NM_007127	NP_009058	P09327	VILI_HUMAN	villin 1	376	Core.				actin filament capping|actin filament depolymerization|actin filament polymerization|actin filament severing|apoptosis|cellular response to epidermal growth factor stimulus|cytoplasmic actin-based contraction involved in cell motility|epidermal growth factor receptor signaling pathway|positive regulation of actin filament bundle assembly|positive regulation of epithelial cell migration|regulation of actin nucleation|regulation of cell shape|regulation of lamellipodium morphogenesis|regulation of wound healing|response to bacterium	actin filament bundle|cytoplasm|filopodium tip|intracellular membrane-bounded organelle|lamellipodium|microvillus|ruffle	actin filament binding|calcium ion binding|caspase inhibitor activity|lysophosphatidic acid binding|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity			ovary(1)	1		Renal(207;0.0474)		Epithelial(149;6.88e-07)|all cancers(144;0.00013)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TGAAGTTCGATGCCACATCCA	0.493													5	17	---	---	---	---	PASS
USP37	57695	broad.mit.edu	37	2	219328034	219328034	+	Missense_Mutation	SNP	A	C	C			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr2:219328034A>C	uc002vie.2	-	22	2975	c.2522T>G	c.(2521-2523)CTT>CGT	p.L841R	USP37_uc010fvs.1_Missense_Mutation_p.L841R|USP37_uc010zkf.1_Missense_Mutation_p.L841R|USP37_uc002vif.2_Missense_Mutation_p.L841R|USP37_uc002vig.2_Missense_Mutation_p.L747R	NM_020935	NP_065986	Q86T82	UBP37_HUMAN	ubiquitin specific peptidase 37	841	UIM 3.				ubiquitin-dependent protein catabolic process	nucleus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			skin(3)|ovary(1)|prostate(1)	5		Renal(207;0.0915)		Epithelial(149;1.08e-06)|all cancers(144;0.000197)|LUSC - Lung squamous cell carcinoma(224;0.00375)|Lung(261;0.00487)		CACACCTTGAAGACTTAACTC	0.234													9	87	---	---	---	---	PASS
ZFAND2B	130617	broad.mit.edu	37	2	220072369	220072369	+	Splice_Site	SNP	G	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr2:220072369G>T	uc002vka.2	+	3	323	c.151_splice	c.e3-1	p.D51_splice	ZFAND2B_uc010zkt.1_Splice_Site_p.D51_splice|ZFAND2B_uc010fwd.1_Splice_Site_p.D51_splice|ZFAND2B_uc002vjy.1_Splice_Site_p.D51_splice|ZFAND2B_uc002vjz.1_Splice_Site_p.D51_splice|ZFAND2B_uc002vkb.1_Splice_Site	NM_138802	NP_620157	Q8WV99	ZFN2B_HUMAN	zinc finger, AN1-type domain 2B							endoplasmic reticulum	protein binding|zinc ion binding				0		Renal(207;0.0915)		Epithelial(149;1.16e-06)|all cancers(144;0.000191)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CTTGACTACAGGATATCCAGG	0.537													5	57	---	---	---	---	PASS
TRPM8	79054	broad.mit.edu	37	2	234878421	234878421	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr2:234878421C>A	uc002vvh.2	+	16	2148	c.2108C>A	c.(2107-2109)CCC>CAC	p.P703H	TRPM8_uc010fyj.2_Intron	NM_024080	NP_076985	Q7Z2W7	TRPM8_HUMAN	transient receptor potential cation channel,	703	Helical; Name=1; (Potential).					integral to membrane				skin(4)	4		Breast(86;0.00205)|Renal(207;0.00694)|all_lung(227;0.0129)|Lung NSC(271;0.0408)|all_hematologic(139;0.0753)|Acute lymphoblastic leukemia(138;0.224)		Epithelial(121;1.19e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000139)|Lung(119;0.00758)|LUSC - Lung squamous cell carcinoma(224;0.0108)	Menthol(DB00825)	TTTATTATACCCTTGGTGGGC	0.423													14	81	---	---	---	---	PASS
CCBP2	1238	broad.mit.edu	37	3	42906223	42906223	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr3:42906223C>A	uc003cme.2	+	3	408	c.229C>A	c.(229-231)CGC>AGC	p.R77S	CCBP2_uc003cmd.1_Missense_Mutation_p.R77S|CCBP2_uc003cmf.2_Missense_Mutation_p.R77S|CCBP2_uc003cmg.2_Intron|CYP8B1_uc010hif.2_Intron	NM_001296	NP_001287	O00590	CCBP2_HUMAN	chemokine binding protein 2	77	Cytoplasmic (Potential).				chemotaxis|immune response|multicellular organismal development	integral to plasma membrane	C-X-C chemokine receptor activity			lung(4)|skin(1)	5				KIRC - Kidney renal clear cell carcinoma(284;0.241)		TTACGTGCCTCGCAGGCGGAT	0.537													4	74	---	---	---	---	PASS
DNAH1	25981	broad.mit.edu	37	3	52417939	52417939	+	Silent	SNP	C	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr3:52417939C>A	uc011bef.1	+	52	8475	c.8214C>A	c.(8212-8214)ACC>ACA	p.T2738T	DNAH1_uc003ddv.2_5'Flank	NM_015512	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	2738	AAA 4 (By similarity).				ciliary or flagellar motility|microtubule-based movement|response to mechanical stimulus	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			large_intestine(3)	3				BRCA - Breast invasive adenocarcinoma(193;2.02e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000207)|Kidney(197;0.0022)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		ACTGCTGTACCATCGACTGGT	0.552													4	17	---	---	---	---	PASS
ITIH3	3699	broad.mit.edu	37	3	52833895	52833895	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr3:52833895C>A	uc003dfv.2	+	9	1069	c.1033C>A	c.(1033-1035)CAG>AAG	p.Q345K	ITIH3_uc011bek.1_Missense_Mutation_p.Q345K	NM_002217	NP_002208	Q06033	ITIH3_HUMAN	inter-alpha (globulin) inhibitor H3	345	VWFA.				hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|liver(1)	3				BRCA - Breast invasive adenocarcinoma(193;7e-05)|Kidney(197;0.000656)|KIRC - Kidney renal clear cell carcinoma(197;0.000794)|OV - Ovarian serous cystadenocarcinoma(275;0.0496)		CGAGAACCTCCAGGAGGCCAG	0.542													5	55	---	---	---	---	PASS
HCLS1	3059	broad.mit.edu	37	3	121363748	121363748	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr3:121363748C>A	uc003eeh.3	-	5	441	c.316G>T	c.(316-318)GAG>TAG	p.E106*	HCLS1_uc011bjj.1_Nonsense_Mutation_p.E106*|HCLS1_uc011bjk.1_RNA|HCLS1_uc011bjl.1_Nonsense_Mutation_p.E106*	NM_005335	NP_005326	P14317	HCLS1_HUMAN	hematopoietic cell-specific Lyn substrate 1	106	Cortactin 1.				erythrocyte differentiation|intracellular signal transduction|positive regulation of cell proliferation|positive regulation of tyrosine phosphorylation of STAT protein|response to hormone stimulus	mitochondrion|nucleus|plasma membrane	DNA binding|sequence-specific DNA binding transcription factor activity				0				GBM - Glioblastoma multiforme(114;0.0912)		TTCTCCACCTCGGCAACATAC	0.463													4	85	---	---	---	---	PASS
SLC15A2	6565	broad.mit.edu	37	3	121631906	121631906	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr3:121631906G>T	uc003eep.2	+	5	620	c.467G>T	c.(466-468)GGG>GTG	p.G156V	SLC15A2_uc011bjn.1_Missense_Mutation_p.G125V	NM_021082	NP_066568	Q16348	S15A2_HUMAN	peptide transporter 2 isoform a	156	Helical; (Potential).				protein transport	integral to plasma membrane	peptide:hydrogen symporter activity|protein binding			skin(1)	1				GBM - Glioblastoma multiforme(114;0.0967)	Cefadroxil(DB01140)	ATAGCTTTGGGGACAGGAGGC	0.418													10	326	---	---	---	---	PASS
PIK3CA	5290	broad.mit.edu	37	3	178927980	178927980	+	Missense_Mutation	SNP	T	C	C	rs121913272		TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr3:178927980T>C	uc003fjk.2	+	8	1415	c.1258T>C	c.(1258-1260)TGT>CGT	p.C420R		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	420	C2 PI3K-type.		C -> R (in cancer; shows an increase in lipid kinase activity; may increase the affinity for lipid membranes).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.C420R(26)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			TAAGGAACACTGTCCATTGGC	0.328	C420R(EFM192A_BREAST)|C420R(OVISE_OVARY)|C420R(HEC151_ENDOMETRIUM)|C420R(CCK81_LARGE_INTESTINE)	57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			19	23	---	---	---	---	PASS
ECE2	9718	broad.mit.edu	37	3	183995720	183995720	+	Silent	SNP	C	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr3:183995720C>T	uc003fni.3	+	5	878	c.840C>T	c.(838-840)ACC>ACT	p.T280T	ECE2_uc011brg.1_Silent_p.T208T|ECE2_uc011brh.1_Silent_p.T133T|ECE2_uc003fnl.3_Silent_p.T208T|ECE2_uc003fnm.3_Silent_p.T162T|ECE2_uc003fnk.3_Silent_p.T133T|ECE2_uc011bri.1_Silent_p.T195T|ECE2_uc010hxv.2_5'UTR	NM_014693	NP_055508	O60344	ECE2_HUMAN	endothelin converting enzyme 2 isoform A	280	Lumenal (Potential).|Endothelin-converting enzyme 2 region.				brain development|cardioblast differentiation|cell-cell signaling|peptide hormone processing	cytoplasmic vesicle membrane|Golgi membrane|integral to membrane	metal ion binding|metalloendopeptidase activity|methyltransferase activity			ovary(2)|skin(2)	4	all_cancers(143;1.39e-10)|Ovarian(172;0.0339)		Epithelial(37;8.28e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			CAGAAAACACCACCTTCAACT	0.557													11	140	---	---	---	---	PASS
FGF12	2257	broad.mit.edu	37	3	192125875	192125875	+	Silent	SNP	G	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr3:192125875G>T	uc003fsx.2	-	1	964	c.138C>A	c.(136-138)CTC>CTA	p.L46L	FGF12_uc003fsy.2_Intron	NM_021032	NP_066360	P61328	FGF12_HUMAN	fibroblast growth factor 12 isoform 1	46					cell-cell signaling|heart development|JNK cascade|nervous system development|signal transduction	extracellular space|nucleus	growth factor activity|heparin binding			ovary(1)|skin(1)|lung(1)|pancreas(1)	4	all_cancers(143;1.72e-08)|Ovarian(172;0.0634)|Breast(254;0.247)	Lung NSC(153;0.21)	LUSC - Lung squamous cell carcinoma(58;5.45e-06)|Lung(62;6.17e-06)	GBM - Glioblastoma multiforme(46;0.00032)		TGAACACCCCGAGGACGTGCC	0.687													5	125	---	---	---	---	PASS
SLIT2	9353	broad.mit.edu	37	4	20598114	20598114	+	Nonsense_Mutation	SNP	G	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr4:20598114G>T	uc003gpr.1	+	32	3601	c.3397G>T	c.(3397-3399)GGA>TGA	p.G1133*	SLIT2_uc003gps.1_Nonsense_Mutation_p.G1125*	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	1133	EGF-like 6.				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						TTGTCAGAATGGAGCTCAGTG	0.398													4	26	---	---	---	---	PASS
ENAM	10117	broad.mit.edu	37	4	71509219	71509219	+	Silent	SNP	C	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr4:71509219C>A	uc011caw.1	+	9	2357	c.2076C>A	c.(2074-2076)ACC>ACA	p.T692T		NM_031889	NP_114095	Q9NRM1	ENAM_HUMAN	enamelin precursor	692					bone mineralization|odontogenesis	proteinaceous extracellular matrix	structural constituent of tooth enamel			ovary(3)	3			Lung(101;0.235)			AACAATATACCTCAAATCAGC	0.413													6	87	---	---	---	---	PASS
PPEF2	5470	broad.mit.edu	37	4	76788552	76788552	+	Nonsense_Mutation	SNP	G	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr4:76788552G>T	uc003hix.2	-	14	2027	c.1670C>A	c.(1669-1671)TCG>TAG	p.S557*	PPEF2_uc003hiy.2_RNA|PPEF2_uc003hiz.1_Nonsense_Mutation_p.S557*	NM_006239	NP_006230	O14830	PPE2_HUMAN	serine/threonine protein phosphatase with	557					detection of stimulus involved in sensory perception|negative regulation of MAPKKK cascade|negative regulation of peptidyl-threonine phosphorylation|protein dephosphorylation|visual perception	cytoplasm|photoreceptor inner segment|photoreceptor outer segment	calcium ion binding|Hsp70 protein binding|Hsp90 protein binding|iron ion binding|manganese ion binding|mitogen-activated protein kinase kinase kinase binding|protein serine/threonine phosphatase activity			ovary(2)|lung(1)|central_nervous_system(1)	4			Lung(101;0.0809)|LUSC - Lung squamous cell carcinoma(112;0.0934)			TCTCAGAGCCGACTCCTCCAC	0.398													4	31	---	---	---	---	PASS
ANKRD56	345079	broad.mit.edu	37	4	77816806	77816806	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr4:77816806G>T	uc003hki.2	-	1	2197	c.2197C>A	c.(2197-2199)CCT>ACT	p.P733T		NM_001029870	NP_001025041	A6NEL2	ANR56_HUMAN	ankyrin repeat domain 56	733											0						GGATAGACAGGGAAAATGGGC	0.502													9	327	---	---	---	---	PASS
FAT4	79633	broad.mit.edu	37	4	126239230	126239230	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr4:126239230G>T	uc003ifj.3	+	1	1664	c.1664G>T	c.(1663-1665)CGG>CTG	p.R555L		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	555	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						ATAAGTGCCCGGGACCAGGGA	0.517											OREG0016317	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	19	---	---	---	---	PASS
KIAA0922	23240	broad.mit.edu	37	4	154525134	154525134	+	Silent	SNP	C	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr4:154525134C>A	uc003inm.3	+	25	3019	c.2967C>A	c.(2965-2967)ACC>ACA	p.T989T	KIAA0922_uc010ipp.2_Silent_p.T990T|KIAA0922_uc010ipq.2_Silent_p.T758T	NM_015196	NP_056011	A2VDJ0	T131L_HUMAN	hypothetical protein LOC23240 isoform 2	989	Cytoplasmic (Potential).					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2	all_hematologic(180;0.093)	Renal(120;0.118)				AACACAAAACCAGCACAGCTG	0.517													4	24	---	---	---	---	PASS
HMGB2	3148	broad.mit.edu	37	4	174254762	174254762	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr4:174254762C>A	uc011ckc.1	-	1	159	c.39G>T	c.(37-39)ATG>ATT	p.M13I	HMGB2_uc003ita.3_Missense_Mutation_p.M13I|HMGB2_uc003itb.2_Missense_Mutation_p.M13I|HMGB2_uc003itc.2_Missense_Mutation_p.M13I	NM_001130689	NP_001124161	P26583	HMGB2_HUMAN	high-mobility group box 2	13	HMG box 1.				base-excision repair, DNA ligation|cell chemotaxis|cellular response to lipopolysaccharide|DNA fragmentation involved in apoptotic nuclear change|DNA topological change|negative regulation of transcription, DNA-dependent|nucleosome assembly|phosphatidylinositol-mediated signaling|positive regulation of DNA binding|positive regulation of endothelial cell proliferation|positive regulation of erythrocyte differentiation|positive regulation of megakaryocyte differentiation|positive regulation of nuclease activity|positive regulation of transcription from RNA polymerase II promoter|V(D)J recombination	condensed chromosome|extracellular space|nucleolus|nucleoplasm|perinuclear region of cytoplasm|protein complex	chemoattractant activity|damaged DNA binding|DNA bending activity|double-stranded DNA binding|RAGE receptor binding|sequence-specific DNA binding transcription factor activity|single-stranded DNA binding|transcription regulatory region DNA binding				0		Prostate(90;0.0132)|Renal(120;0.0183)|Melanoma(52;0.0749)|all_hematologic(60;0.107)|all_neural(102;0.122)		all cancers(43;9.58e-18)|Epithelial(43;3.75e-16)|OV - Ovarian serous cystadenocarcinoma(60;6.24e-09)|STAD - Stomach adenocarcinoma(60;0.00273)|GBM - Glioblastoma multiforme(59;0.0064)|LUSC - Lung squamous cell carcinoma(193;0.0903)|Kidney(143;0.249)		CGTACGAGGACATTTTGCCCC	0.602													10	17	---	---	---	---	PASS
HEATR7B2	133558	broad.mit.edu	37	5	41055934	41055934	+	Missense_Mutation	SNP	T	G	G			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr5:41055934T>G	uc003jmj.3	-	10	1433	c.943A>C	c.(943-945)ATG>CTG	p.M315L	HEATR7B2_uc003jmi.3_Intron	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	315	HEAT 4.						binding			ovary(6)|central_nervous_system(2)	8						AAAAATTCCATCAGCTCTCCA	0.398													10	54	---	---	---	---	PASS
DHX29	54505	broad.mit.edu	37	5	54555722	54555722	+	Silent	SNP	A	G	G			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr5:54555722A>G	uc003jpx.2	-	26	4131	c.4011T>C	c.(4009-4011)GAT>GAC	p.D1337D	DHX29_uc010ivw.2_RNA	NM_019030	NP_061903	Q7Z478	DHX29_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 29	1337							ATP binding|ATP-dependent helicase activity|translation initiation factor activity			ovary(2)|central_nervous_system(1)|skin(1)	4		Lung NSC(810;4.08e-05)|Breast(144;0.0544)|Prostate(74;0.183)				TTAAAACTGAATCAATGAGAA	0.373													10	51	---	---	---	---	PASS
CAMK4	814	broad.mit.edu	37	5	110809031	110809031	+	Silent	SNP	T	C	C			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr5:110809031T>C	uc011cvj.1	+	9	747	c.648T>C	c.(646-648)TGT>TGC	p.C216C	CAMK4_uc003kpf.2_Silent_p.C216C|CAMK4_uc010jbv.2_Silent_p.C19C	NM_001744	NP_001735	Q16566	KCC4_HUMAN	calcium/calmodulin-dependent protein kinase IV	216	Protein kinase.				activation of phospholipase C activity|nerve growth factor receptor signaling pathway|synaptic transmission	cytosol|nucleoplasm	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			ovary(3)|lung(2)	5		all_cancers(142;1.49e-05)|all_epithelial(76;1.82e-07)|Prostate(80;0.00964)|all_lung(232;0.0181)|Lung NSC(167;0.0298)|Ovarian(225;0.0446)|Colorectal(57;0.0478)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;3.79e-08)|Epithelial(69;5.29e-08)|all cancers(49;1.1e-05)|COAD - Colon adenocarcinoma(37;0.109)		TTAGAGGTTGTGCCTATGGAC	0.338													7	50	---	---	---	---	PASS
PCDHB16	57717	broad.mit.edu	37	5	140564336	140564336	+	Silent	SNP	G	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr5:140564336G>A	uc003liv.2	+	1	3357	c.2202G>A	c.(2200-2202)GGG>GGA	p.G734G	PCDHB9_uc003liw.1_5'Flank	NM_020957	NP_066008	Q9NRJ7	PCDBG_HUMAN	protocadherin beta 16 precursor	734	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CCTTTCCAGGGCGTCTGGTGG	0.627													24	69	---	---	---	---	PASS
PPARGC1B	133522	broad.mit.edu	37	5	149212301	149212301	+	Nonsense_Mutation	SNP	C	A	A	rs75266799	by1000genomes	TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr5:149212301C>A	uc003lrc.2	+	5	707	c.665C>A	c.(664-666)TCG>TAG	p.S222*	PPARGC1B_uc003lrb.1_Nonsense_Mutation_p.S222*|PPARGC1B_uc003lrd.2_Nonsense_Mutation_p.S183*|PPARGC1B_uc003lrf.2_Nonsense_Mutation_p.S201*|PPARGC1B_uc003lre.1_Nonsense_Mutation_p.S201*	NM_133263	NP_573570	Q86YN6	PRGC2_HUMAN	peroxisome proliferator-activated receptor	222					estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter	mediator complex	AF-2 domain binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|receptor activator activity|RNA binding|RNA polymerase II transcription cofactor activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)			CACCTCACCTCGGCACAGTGC	0.617													5	122	---	---	---	---	PASS
DSP	1832	broad.mit.edu	37	6	7584770	7584770	+	Silent	SNP	C	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr6:7584770C>A	uc003mxp.1	+	24	7554	c.7275C>A	c.(7273-7275)ACC>ACA	p.T2425T	DSP_uc003mxq.1_Silent_p.T1826T	NM_004415	NP_004406	P15924	DESP_HUMAN	desmoplakin isoform I	2425	Plectin 11.|Globular 2.				cellular component disassembly involved in apoptosis|keratinocyte differentiation|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural constituent of cytoskeleton			central_nervous_system(6)|ovary(2)|skin(1)	9	Ovarian(93;0.0584)	all_hematologic(90;0.236)		OV - Ovarian serous cystadenocarcinoma(45;0.000508)		AAAATCTTACCTATCTGCAAC	0.398													6	121	---	---	---	---	PASS
C6orf105	84830	broad.mit.edu	37	6	11723606	11723606	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr6:11723606C>A	uc003nab.2	-	5	922	c.634G>T	c.(634-636)GAG>TAG	p.E212*	C6orf105_uc003naa.2_RNA|C6orf105_uc011dip.1_Nonsense_Mutation_p.E230*	NM_032744	NP_116133	Q96IZ2	CF105_HUMAN	hypothetical protein LOC84830 isoform 2	212						integral to membrane					0	Ovarian(93;0.0848)|Breast(50;0.0871)	all_hematologic(90;0.135)	Epithelial(50;0.146)|BRCA - Breast invasive adenocarcinoma(129;0.193)			TTGAGCTTCTCTCCAAGTAGG	0.493													8	218	---	---	---	---	PASS
HIVEP1	3096	broad.mit.edu	37	6	12164614	12164614	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr6:12164614C>G	uc003nac.2	+	9	8256	c.8077C>G	c.(8077-8079)CTA>GTA	p.L2693V	HIVEP1_uc011diq.1_RNA	NM_002114	NP_002105	P15822	ZEP1_HUMAN	human immunodeficiency virus type I enhancer	2693					transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	Breast(50;0.0639)|Ovarian(93;0.0816)	all_hematologic(90;0.117)				GCCCACAGCACTACCGCGGAG	0.522													10	38	---	---	---	---	PASS
OR12D2	26529	broad.mit.edu	37	6	29364649	29364649	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr6:29364649A>T	uc003nmf.3	+	1	234	c.173A>T	c.(172-174)TAT>TTT	p.Y58F		NM_013936	NP_039224	P58182	O12D2_HUMAN	olfactory receptor, family 12, subfamily D,	58	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						TCCCTTATGTATTTCTTCCTG	0.448													14	30	---	---	---	---	PASS
TAP1	6890	broad.mit.edu	37	6	32818803	32818803	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr6:32818803C>G	uc003ocg.2	-	4	1303	c.1148G>C	c.(1147-1149)GGA>GCA	p.G383A	TAP1_uc011dqi.1_Missense_Mutation_p.G122A	NM_000593	NP_000584	Q03518	TAP1_HUMAN	transporter 1, ATP-binding cassette, sub-family	383	Lumenal (Potential).|ABC transmembrane type-1.				antigen processing and presentation of endogenous peptide antigen via MHC class I|cytosol to ER transport|intracellular transport of viral proteins in host cell|positive regulation of T cell mediated cytotoxicity	cytosol|plasma membrane|TAP complex	ADP binding|ATP binding|MHC class I protein binding|oligopeptide-transporting ATPase activity|peptide antigen binding|protein homodimerization activity|TAP1 binding|TAP2 binding|tapasin binding			skin(1)	1						GGACACTGATCCCCAGAGCAT	0.527													6	74	---	---	---	---	PASS
HTR1E	3354	broad.mit.edu	37	6	87725275	87725275	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr6:87725275G>A	uc003pli.2	+	2	926	c.223G>A	c.(223-225)GTC>ATC	p.V75I		NM_000865	NP_000856	P28566	5HT1E_HUMAN	5-hydroxytryptamine (serotonin) receptor 1E	75	Helical; Name=2; (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|synaptic transmission	integral to plasma membrane	protein binding|serotonin binding|serotonin receptor activity			ovary(2)|skin(1)	3		all_cancers(76;7.11e-06)|Acute lymphoblastic leukemia(125;1.2e-09)|Prostate(29;3.51e-09)|all_hematologic(105;7.43e-06)|all_epithelial(107;0.00819)		BRCA - Breast invasive adenocarcinoma(108;0.055)	Eletriptan(DB00216)	GGCAGTGCTCGTCATGCCCCT	0.562													24	60	---	---	---	---	PASS
PAPOLB	56903	broad.mit.edu	37	7	4900001	4900001	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr7:4900001C>A	uc003snk.2	-	1	1625	c.1441G>T	c.(1441-1443)GGT>TGT	p.G481C	RADIL_uc003sng.1_Intron|RADIL_uc011jwd.1_Intron|RADIL_uc003snj.1_Intron	NM_020144	NP_064529	Q9NRJ5	PAPOB_HUMAN	poly(A) polymerase beta (testis specific)	480					mRNA processing|RNA polyadenylation|transcription, DNA-dependent	nucleus	ATP binding|metal ion binding|polynucleotide adenylyltransferase activity|RNA binding			ovary(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.089)|OV - Ovarian serous cystadenocarcinoma(56;2.06e-14)		ATTTTCATACCCATCTCAAAC	0.388													5	30	---	---	---	---	PASS
PRPS1L1	221823	broad.mit.edu	37	7	18067280	18067280	+	Silent	SNP	C	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr7:18067280C>A	uc003stz.2	-	1	207	c.126G>T	c.(124-126)GTG>GTT	p.V42V		NM_175886	NP_787082	P21108	PRPS3_HUMAN	phosphoribosyl pyrophosphate synthetase 1-like	42					nucleoside metabolic process|ribonucleoside monophosphate biosynthetic process		ATP binding|kinase activity|magnesium ion binding|protein homodimerization activity|ribose phosphate diphosphokinase activity			ovary(1)	1	Lung NSC(10;0.0385)|all_lung(11;0.0736)					CATCAATTTCCACGCAGGTCT	0.498													7	225	---	---	---	---	PASS
DNAH11	8701	broad.mit.edu	37	7	21938980	21938980	+	Missense_Mutation	SNP	G	T	T	rs113653972		TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr7:21938980G>T	uc003svc.2	+	81	13128	c.13097G>T	c.(13096-13098)CGA>CTA	p.R4366L		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	4366					microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						CTGCGATGCCGAGAACTCGAT	0.502									Kartagener_syndrome				5	182	---	---	---	---	PASS
FAM188B	84182	broad.mit.edu	37	7	30818085	30818085	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr7:30818085G>T	uc003tbt.2	+	2	178	c.101G>T	c.(100-102)CGC>CTC	p.R34L	FAM188B_uc010kwe.2_Missense_Mutation_p.R5L	NM_032222	NP_115598	Q4G0A6	F188B_HUMAN	hypothetical protein LOC84182	34											0						GACCAGGAACGCCCACGCTCT	0.423													4	81	---	---	---	---	PASS
TXNDC3	51314	broad.mit.edu	37	7	37901736	37901736	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr7:37901736C>T	uc003tfn.2	+	7	749	c.377C>T	c.(376-378)GCT>GTT	p.A126V		NM_016616	NP_057700	Q8N427	TXND3_HUMAN	thioredoxin domain containing 3	126					cell differentiation|cell redox homeostasis|CTP biosynthetic process|GTP biosynthetic process|multicellular organismal development|spermatogenesis|UTP biosynthetic process	cytoplasm|microtubule cytoskeleton	ATP binding|nucleoside diphosphate kinase activity			ovary(1)|breast(1)|central_nervous_system(1)	3						GGTGAAATGGCTCGACCTCAG	0.358									Kartagener_syndrome				4	20	---	---	---	---	PASS
PCOLCE	5118	broad.mit.edu	37	7	100205276	100205276	+	Silent	SNP	G	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr7:100205276G>A	uc003uvo.2	+	8	1227	c.1029G>A	c.(1027-1029)GTG>GTA	p.V343V	PCOLCE_uc010lhb.1_RNA|PCOLCE_uc003uvp.1_RNA	NM_002593	NP_002584	Q15113	PCOC1_HUMAN	procollagen C-endopeptidase enhancer	343	NTR.				multicellular organismal development	extracellular space	collagen binding|heparin binding|peptidase activator activity				0	Lung NSC(181;0.0261)|all_lung(186;0.0392)|Esophageal squamous(72;0.0439)					CTGCGACAGTGAAGTCCATGG	0.562													12	83	---	---	---	---	PASS
ZAN	7455	broad.mit.edu	37	7	100373092	100373092	+	Silent	SNP	C	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr7:100373092C>T	uc003uwj.2	+	33	6087	c.5922C>T	c.(5920-5922)GCC>GCT	p.A1974A	ZAN_uc003uwk.2_Silent_p.A1974A|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA|ZAN_uc011kke.1_Silent_p.A61A	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	1974	Extracellular (Potential).|VWFD 3.				binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			AGATCAGTGCCAAGCATGAGA	0.552													7	42	---	---	---	---	PASS
MUC17	140453	broad.mit.edu	37	7	100683976	100683976	+	Silent	SNP	C	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr7:100683976C>A	uc003uxp.1	+	3	9332	c.9279C>A	c.(9277-9279)ACC>ACA	p.T3093T	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	3093	Extracellular (Potential).|Ser-rich.|50.|59 X approximate tandem repeats.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					CTGAAGGTACCAGCATGCCAA	0.493													9	364	---	---	---	---	PASS
PPP1R3A	5506	broad.mit.edu	37	7	113518998	113518998	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr7:113518998C>T	uc010ljy.1	-	4	2180	c.2149G>A	c.(2149-2151)GCT>ACT	p.A717T		NM_002711	NP_002702	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	717					glycogen metabolic process	integral to membrane				lung(9)|ovary(9)|pancreas(7)|skin(6)|breast(2)|prostate(1)	34						CCATGATCAGCTAGAGAAGAC	0.408													12	52	---	---	---	---	PASS
HYAL4	23553	broad.mit.edu	37	7	123508765	123508765	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr7:123508765G>T	uc003vlc.2	+	3	1076	c.438G>T	c.(436-438)TGG>TGT	p.W146C	HYAL4_uc011knz.1_Missense_Mutation_p.W146C	NM_012269	NP_036401	Q2M3T9	HYAL4_HUMAN	hyaluronoglucosaminidase 4	146	Extracellular (Potential).				fusion of sperm to egg plasma membrane|glycosaminoglycan catabolic process	integral to membrane	hyalurononglucosaminidase activity			skin(1)	1						TTATAGATTGGGAATATTGGC	0.393													6	60	---	---	---	---	PASS
CNOT4	4850	broad.mit.edu	37	7	135078943	135078943	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr7:135078943C>A	uc003vsv.1	-	10	1661	c.1354G>T	c.(1354-1356)GGA>TGA	p.G452*	CNOT4_uc003vss.2_Nonsense_Mutation_p.G449*|CNOT4_uc011kpz.1_Nonsense_Mutation_p.G449*|CNOT4_uc003vst.2_Nonsense_Mutation_p.G452*|CNOT4_uc003vsu.1_Nonsense_Mutation_p.G449*|CNOT4_uc011kpy.1_Nonsense_Mutation_p.G452*	NM_001008225	NP_001008226	O95628	CNOT4_HUMAN	CCR4-NOT transcription complex, subunit 4	452					nuclear-transcribed mRNA poly(A) tail shortening|protein autoubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	nucleotide binding|protein binding|RNA binding|ubiquitin-protein ligase activity|zinc ion binding				0						TGCAGGAATCCAGAGCCTGGA	0.507													5	49	---	---	---	---	PASS
ANGPT2	285	broad.mit.edu	37	8	6371296	6371296	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr8:6371296G>A	uc003wqj.3	-	7	1431	c.1102C>T	c.(1102-1104)CGC>TGC	p.R368C	MCPH1_uc003wqi.2_Intron|ANGPT2_uc003wqk.3_Missense_Mutation_p.R367C|ANGPT2_uc010lri.2_Missense_Mutation_p.R316C|ANGPT2_uc003wql.3_Missense_Mutation_p.R367C	NM_001147	NP_001138	O15123	ANGP2_HUMAN	angiopoietin 2 isoform a precursor	368	Fibrinogen C-terminal.				angiogenesis|blood coagulation|leukocyte migration|negative regulation of blood vessel endothelial cell migration|negative regulation of positive chemotaxis|Tie receptor signaling pathway	extracellular space	metal ion binding|receptor tyrosine kinase binding			upper_aerodigestive_tract(1)	1		Hepatocellular(245;0.0663)		Colorectal(4;0.0142)|READ - Rectum adenocarcinoma(4;0.19)|COAD - Colon adenocarcinoma(4;0.226)		AGCACATAGCGTTGCTGATTA	0.363													7	71	---	---	---	---	PASS
PPP1R3B	79660	broad.mit.edu	37	8	8998700	8998700	+	Silent	SNP	G	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr8:8998700G>T	uc003wsn.3	-	2	627	c.462C>A	c.(460-462)CTC>CTA	p.L154L	PPP1R3B_uc003wso.3_Silent_p.L153L	NM_024607	NP_078883	Q86XI6	PPR3B_HUMAN	protein phosphatase 1, regulatory (inhibitor)	154	CBM21.				glycogen metabolic process					ovary(1)|skin(1)	2				COAD - Colon adenocarcinoma(149;0.0717)|READ - Rectum adenocarcinoma(644;0.241)		TCTCAAATGCGAGGTTCTGAA	0.488													5	137	---	---	---	---	PASS
TOX	9760	broad.mit.edu	37	8	59852027	59852027	+	Nonsense_Mutation	SNP	G	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr8:59852027G>T	uc003xtw.1	-	3	466	c.245C>A	c.(244-246)TCG>TAG	p.S82*		NM_014729	NP_055544	O94900	TOX_HUMAN	thymus high mobility group box protein TOX	82						nucleus	DNA binding			kidney(2)|lung(1)|skin(1)	4		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)				GTGCACCAGCGAGTGGTCTGG	0.478													4	36	---	---	---	---	PASS
TRPA1	8989	broad.mit.edu	37	8	72958758	72958758	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr8:72958758G>A	uc003xza.2	-	17	2226	c.2051C>T	c.(2050-2052)ACA>ATA	p.T684I	uc011lff.1_Intron|uc003xyy.2_Intron	NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	684	Cytoplasmic (Potential).					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	GTTGAGGGCTGTAAGCGGTTC	0.239													4	23	---	---	---	---	PASS
ZFHX4	79776	broad.mit.edu	37	8	77618422	77618422	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr8:77618422G>A	uc003yav.2	+	2	2486	c.2099G>A	c.(2098-2100)CGT>CAT	p.R700H	ZFHX4_uc003yat.1_Missense_Mutation_p.R700H|ZFHX4_uc003yau.1_Missense_Mutation_p.R700H|ZFHX4_uc003yaw.1_Missense_Mutation_p.R700H	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	700	C2H2-type 3.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			AAACCCTTCCGTTGTGAGGTT	0.502										HNSCC(33;0.089)			7	45	---	---	---	---	PASS
SNTB1	6641	broad.mit.edu	37	8	121644768	121644768	+	Silent	SNP	C	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr8:121644768C>T	uc010mdg.2	-	3	1138	c.912G>A	c.(910-912)GTG>GTA	p.V304V	SNTB1_uc003ype.2_Silent_p.V304V	NM_021021	NP_066301	Q13884	SNTB1_HUMAN	basic beta 1 syntrophin	304					muscle contraction	cell junction|cytoplasm|cytoskeleton|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|calmodulin binding			skin(5)	5	Lung NSC(37;4.46e-09)|Ovarian(258;0.0254)|Hepatocellular(40;0.0997)		STAD - Stomach adenocarcinoma(47;0.00503)			CCTCAGCAATCACTCGGGTCA	0.527													7	19	---	---	---	---	PASS
NDRG1	10397	broad.mit.edu	37	8	134276808	134276808	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr8:134276808G>T	uc003yuh.2	-	4	773	c.187C>A	c.(187-189)CAT>AAT	p.H63N	NDRG1_uc003yug.2_Missense_Mutation_p.H63N|NDRG1_uc010mee.2_Intron|NDRG1_uc010mef.2_5'UTR|NDRG1_uc011ljh.1_5'UTR|NDRG1_uc011lji.1_Intron	NM_001135242	NP_001128714	Q92597	NDRG1_HUMAN	N-myc downstream regulated 1	63					cellular response to hypoxia|response to metal ion	cytoplasm|microtubule cytoskeleton|nucleus|plasma membrane	protein binding			ovary(4)	4	all_epithelial(106;4.26e-24)|Lung NSC(106;7.26e-07)|all_lung(105;2.77e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0107)			CCGATGTCATGGTAGGTGAGG	0.562													5	75	---	---	---	---	PASS
KDM4C	23081	broad.mit.edu	37	9	7174612	7174612	+	Silent	SNP	G	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr9:7174612G>T	uc003zkh.2	+	22	3634	c.3054G>T	c.(3052-3054)GGG>GGT	p.G1018G	KDM4C_uc011lmk.1_Silent_p.G763G|KDM4C_uc011lml.1_Silent_p.G705G	NM_015061	NP_055876	Q9H3R0	KDM4C_HUMAN	jumonji domain containing 2C isoform 1	1018					positive regulation of cell proliferation|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription, DNA-dependent	nuclear chromatin	androgen receptor binding|enzyme binding|histone demethylase activity (H3-K9 specific)|nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1						TTATCCAAGGGGAGAGAAAGA	0.448													8	180	---	---	---	---	PASS
FAM154A	158297	broad.mit.edu	37	9	18928612	18928612	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr9:18928612G>T	uc003zni.1	-	4	1141	c.863C>A	c.(862-864)TCC>TAC	p.S288Y	FAM154A_uc010mip.1_Missense_Mutation_p.S96Y	NM_153707	NP_714918	Q8IYX7	F154A_HUMAN	hypothetical protein LOC158297	288										pancreas(1)	1				GBM - Glioblastoma multiforme(50;6.53e-16)		GGGAGCTTTGGAGAACATCCG	0.542													5	55	---	---	---	---	PASS
CDKN2A	1029	broad.mit.edu	37	9	21971029	21971029	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr9:21971029C>T	uc003zpk.2	-	2	541	c.329G>A	c.(328-330)TGG>TAG	p.W110*	MTAP_uc003zpi.1_Intron|CDKN2A_uc003zpj.2_3'UTR|CDKN2A_uc010miu.2_RNA|CDKN2A_uc003zpl.2_Silent_p.L165L	NM_000077	NP_000068	P42771	CD2A1_HUMAN	cyclin-dependent kinase inhibitor 2A isoform 1	110	ANK 4.				cell cycle arrest|cell cycle checkpoint|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of cell-matrix adhesion|negative regulation of cyclin-dependent protein kinase activity|negative regulation of NF-kappaB transcription factor activity|positive regulation of macrophage apoptosis|positive regulation of smooth muscle cell apoptosis|Ras protein signal transduction|replicative senescence	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|NF-kappaB binding|protein binding|protein binding|protein kinase binding	p.0?(1112)|p.W110*(38)|p.?(13)|p.H83fs*2(2)|p.W110fs*9(1)|p.D105fs*8(1)|p.A68fs*3(1)|p.R107fs*33(1)|p.W110fs*36(1)|p.W110C(1)		haematopoietic_and_lymphoid_tissue(647)|skin(419)|upper_aerodigestive_tract(414)|central_nervous_system(381)|lung(325)|pancreas(244)|oesophagus(230)|urinary_tract(225)|pleura(94)|liver(91)|soft_tissue(79)|bone(77)|ovary(76)|biliary_tract(71)|stomach(46)|breast(46)|kidney(39)|NS(28)|thyroid(24)|cervix(23)|meninges(18)|genital_tract(15)|endometrium(13)|prostate(11)|autonomic_ganglia(10)|salivary_gland(10)|large_intestine(9)|adrenal_gland(6)|eye(4)|vulva(2)|small_intestine(1)	3678		all_cancers(5;0)|Acute lymphoblastic leukemia(3;0)|all_hematologic(3;0)|all_epithelial(2;2.37e-290)|Lung NSC(2;1.26e-139)|all_lung(2;4.48e-131)|Glioma(2;3.26e-60)|all_neural(2;2.1e-52)|Renal(3;1.07e-46)|Esophageal squamous(3;3.83e-46)|Melanoma(2;2.74e-34)|Breast(3;1.14e-11)|Ovarian(3;0.000128)|Hepatocellular(5;0.00162)|Colorectal(97;0.172)		all cancers(2;0)|GBM - Glioblastoma multiforme(3;0)|Lung(2;4.07e-74)|Epithelial(2;1.08e-61)|LUSC - Lung squamous cell carcinoma(2;3.82e-48)|LUAD - Lung adenocarcinoma(2;4.56e-26)|OV - Ovarian serous cystadenocarcinoma(39;7.64e-10)|BRCA - Breast invasive adenocarcinoma(2;5.01e-09)|STAD - Stomach adenocarcinoma(4;4.63e-07)|Kidney(2;5.79e-07)|KIRC - Kidney renal clear cell carcinoma(2;7.27e-07)|COAD - Colon adenocarcinoma(8;5.15e-05)		CAGACGGCCCCAGGCATCGCG	0.731		17							Uveal_Melanoma_Familial|Familial_Malignant_Melanoma_and_Tumors_of_the_Nervous_System|Hereditary_Melanoma	HNSCC(2;<9.43e_08)|TSP Lung(5;3.83e-07)			7	12	---	---	---	---	PASS
GNE	10020	broad.mit.edu	37	9	36227385	36227385	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr9:36227385C>A	uc010mlh.2	-	7	1356	c.1141G>T	c.(1141-1143)GAG>TAG	p.E381*	CLTA_uc003zzf.1_Intron|GNE_uc010mlg.2_Nonsense_Mutation_p.E381*|GNE_uc011lpl.1_Nonsense_Mutation_p.E271*|GNE_uc010mli.2_Nonsense_Mutation_p.E412*|GNE_uc010mlj.2_Nonsense_Mutation_p.E376*	NM_005476	NP_005467	Q9Y223	GLCNE_HUMAN	UDP-N-acetylglucosamine-2-epimerase/N-	381	UDP-N-acetylglucosamine 2-epimerase.				cell adhesion|lipopolysaccharide biosynthetic process|N-acetylneuraminate metabolic process|UDP-N-acetylglucosamine metabolic process		ATP binding|N-acylmannosamine kinase activity|UDP-N-acetylglucosamine 2-epimerase activity				0			STAD - Stomach adenocarcinoma(86;0.228)			TGCAGTGGCTCTTGAAGATCG	0.358													7	38	---	---	---	---	PASS
FLJ46321	389763	broad.mit.edu	37	9	84606846	84606846	+	Silent	SNP	A	G	G			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr9:84606846A>G	uc004amn.2	+	4	1508	c.1461A>G	c.(1459-1461)CCA>CCG	p.P487P		NM_001001670	NP_001001670	Q6ZQQ2	F75D1_HUMAN	hypothetical protein LOC389763	487						integral to membrane					0						AGCAGCCTCCACACTCTAAAT	0.453													18	85	---	---	---	---	PASS
PPP3R2	5535	broad.mit.edu	37	9	104356757	104356757	+	Silent	SNP	G	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr9:104356757G>T	uc004bbr.2	-	1	527	c.456C>A	c.(454-456)TCC>TCA	p.S152S	GRIN3A_uc004bbp.1_Intron|GRIN3A_uc004bbq.1_Intron|PPP3R2_uc010mtf.1_RNA	NM_147180	NP_671709	Q96LZ3	CANB2_HUMAN	protein phosphatase 3 regulatory subunit B, beta	149	EF-hand 4.|4.						calcium ion binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(62;0.0527)			Cyclosporine(DB00091)	ATTCCTCAAAGGATATCTTCC	0.502													5	50	---	---	---	---	PASS
TNC	3371	broad.mit.edu	37	9	117798447	117798447	+	Silent	SNP	T	C	C			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr9:117798447T>C	uc004bjj.3	-	21	5948	c.5586A>G	c.(5584-5586)GAA>GAG	p.E1862E	TNC_uc010mvf.2_Silent_p.E1589E	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	1862	Fibronectin type-III 14.				cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						TCAGTGTGTATTCCGTGGCAG	0.507													16	54	---	---	---	---	PASS
NUP188	23511	broad.mit.edu	37	9	131760858	131760858	+	Silent	SNP	C	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr9:131760858C>A	uc004bws.1	+	32	3493	c.3471C>A	c.(3469-3471)TCC>TCA	p.S1157S	NUP188_uc004bwu.2_Silent_p.S500S	NM_015354	NP_056169	Q5SRE5	NU188_HUMAN	nucleoporin 188kDa	1157					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|kidney(1)|breast(1)	7						GCCTTGGCTCCATGAAGTGCA	0.572													5	63	---	---	---	---	PASS
PPP2R4	5524	broad.mit.edu	37	9	131898812	131898812	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr9:131898812G>T	uc004bxm.1	+	8	995	c.728G>T	c.(727-729)GGA>GTA	p.G243V	PPP2R4_uc004bxl.1_Missense_Mutation_p.G208V|PPP2R4_uc011mbo.1_Missense_Mutation_p.G243V|PPP2R4_uc010myr.1_Intron|PPP2R4_uc004bxn.1_Missense_Mutation_p.G208V|PPP2R4_uc004bxo.1_Missense_Mutation_p.G166V|PPP2R4_uc011mbp.1_Missense_Mutation_p.G179V|PPP2R4_uc011mbq.1_Missense_Mutation_p.G166V|PPP2R4_uc010mys.1_Missense_Mutation_p.G173V|PPP2R4_uc011mbr.1_5'Flank	NM_178001	NP_821068	Q15257	PTPA_HUMAN	protein phosphatase 2A, regulatory subunit B'	243					ATP catabolic process|negative regulation of phosphoprotein phosphatase activity|negative regulation of protein dephosphorylation|positive regulation of apoptosis|positive regulation of phosphoprotein phosphatase activity|positive regulation of protein dephosphorylation	calcium channel complex|cytoplasm|nucleus|protein phosphatase type 2A complex|soluble fraction	ATP binding|peptidyl-prolyl cis-trans isomerase activity|protein heterodimerization activity|protein homodimerization activity|protein phosphatase 2A binding|protein phosphatase type 2A regulator activity|protein tyrosine phosphatase activator activity|receptor binding			ovary(1)|lung(1)|pancreas(1)	3		Medulloblastoma(224;0.235)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0178)		GGCAGCCAGGGAGTGTGGGGT	0.562													7	141	---	---	---	---	PASS
WAPAL	23063	broad.mit.edu	37	10	88259869	88259869	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr10:88259869C>A	uc001kdo.2	-	3	1573	c.1131G>T	c.(1129-1131)ATG>ATT	p.M377I	WAPAL_uc001kdn.2_Missense_Mutation_p.M420I|WAPAL_uc009xsw.2_Missense_Mutation_p.M377I	NM_015045	NP_055860	Q7Z5K2	WAPL_HUMAN	wings apart-like homolog	377	Mediates interaction with the cohesin complex.				cell division|interspecies interaction between organisms|mitosis|negative regulation of chromatin binding|negative regulation of DNA replication|negative regulation of sister chromatid cohesion|protein localization to chromatin|regulation of cohesin localization to chromatin	chromatin|cohesin complex|cytoplasm	protein binding			ovary(1)	1						TGCTGCGTTCCATAGTATCCT	0.438													4	19	---	---	---	---	PASS
ANO9	338440	broad.mit.edu	37	11	418531	418531	+	Nonsense_Mutation	SNP	G	T	T	rs144928396	byFrequency	TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr11:418531G>T	uc001lpi.2	-	23	2274	c.2189C>A	c.(2188-2190)TCG>TAG	p.S730*	SIGIRR_uc001lpf.2_5'Flank|SIGIRR_uc001lpe.1_5'Flank|ANO9_uc001lph.2_Nonsense_Mutation_p.S423*|ANO9_uc010qvv.1_Nonsense_Mutation_p.S586*	NM_001012302	NP_001012302	A1A5B4	ANO9_HUMAN	tumor protein p53 inducible protein 5	730	Cytoplasmic (Potential).					chloride channel complex	chloride channel activity			central_nervous_system(2)|ovary(1)|skin(1)	4						GTTCTTCACCGACTGAGGGAT	0.637													5	78	---	---	---	---	PASS
MUC6	4588	broad.mit.edu	37	11	1015965	1015965	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr11:1015965C>A	uc001lsw.2	-	31	6887	c.6836G>T	c.(6835-6837)CGA>CTA	p.R2279L		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	2279	Thr-rich.				maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		TGTGGGAACTCGGGTGGTGAG	0.627													6	94	---	---	---	---	PASS
MUC5B	727897	broad.mit.edu	37	11	1256581	1256581	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr11:1256581G>A	uc009ycr.1	+	39	4921	c.4795G>A	c.(4795-4797)GAG>AAG	p.E1599K	MUC5B_uc009yct.1_Missense_Mutation_p.E940K|MUC5B_uc001ltb.2_Missense_Mutation_p.E943K|MUC5B_uc001lta.2_Missense_Mutation_p.E608K	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	940	VWFD 3.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CATCGTCACCGAGAACATCCC	0.657													5	17	---	---	---	---	PASS
NUCB2	4925	broad.mit.edu	37	11	17332440	17332440	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr11:17332440G>T	uc001mmw.2	+	7	797	c.552G>T	c.(550-552)AAG>AAT	p.K184N	NUCB2_uc001mms.1_Missense_Mutation_p.K185N|NUCB2_uc001mmt.1_Missense_Mutation_p.K184N|NUCB2_uc001mmv.1_Missense_Mutation_p.K184N|NUCB2_uc009ygz.2_Missense_Mutation_p.K184N	NM_005013	NP_005004	P80303	NUCB2_HUMAN	nucleobindin 2 precursor	184	By similarity.					cytosol|ER-Golgi intermediate compartment|extracellular space|Golgi apparatus|plasma membrane	calcium ion binding|DNA binding				0						AAATGATGAAGGAACATGAAA	0.289													5	57	---	---	---	---	PASS
NELL1	4745	broad.mit.edu	37	11	21581914	21581914	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr11:21581914G>C	uc001mqe.2	+	17	2119	c.1966G>C	c.(1966-1968)GTC>CTC	p.V656L	NELL1_uc001mqf.2_Missense_Mutation_p.V609L|NELL1_uc009yid.2_Missense_Mutation_p.V684L|NELL1_uc010rdo.1_Missense_Mutation_p.V599L|NELL1_uc010rdp.1_Missense_Mutation_p.V369L|NELL1_uc001mqh.2_Intron	NM_006157	NP_006148	Q92832	NELL1_HUMAN	nel-like 1 isoform 1 precursor	656	VWFC 3.				cell adhesion|nervous system development	extracellular region	calcium ion binding|structural molecule activity			ovary(2)|large_intestine(1)	3						CAGGTGTTCTGTCTGCTCCTG	0.542													5	11	---	---	---	---	PASS
LRP4	4038	broad.mit.edu	37	11	46896436	46896436	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr11:46896436G>A	uc001ndn.3	-	28	4290	c.4144C>T	c.(4144-4146)CCT>TCT	p.P1382S		NM_002334	NP_002325	O75096	LRP4_HUMAN	low density lipoprotein receptor-related protein	1382	Extracellular (Potential).				endocytosis|negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to membrane	calcium ion binding|receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4				Lung(87;0.159)		TTGAGCTCAGGAACAGGGACA	0.522													13	60	---	---	---	---	PASS
DDB2	1643	broad.mit.edu	37	11	47254483	47254483	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr11:47254483G>T	uc001neb.2	+	4	770	c.575G>T	c.(574-576)CGA>CTA	p.R192L	DDB2_uc001nec.2_RNA|DDB2_uc009yli.1_Missense_Mutation_p.R128L|DDB2_uc001ned.2_Intron|DDB2_uc001nee.2_Intron|DDB2_uc001nef.2_Intron|DDB2_uc001neg.2_Missense_Mutation_p.R56L|DDB2_uc001neh.2_RNA	NM_000107	NP_000098	Q92466	DDB2_HUMAN	damage-specific DNA binding protein 2	192	WD 2.				nucleotide-excision repair, DNA damage removal|protein autoubiquitination|protein polyubiquitination|response to UV	nucleoplasm|protein complex	damaged DNA binding|protein binding			kidney(2)|ovary(1)	3						AACATTCTACGAGTTTTTGCC	0.468			Mis|N			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				5	140	---	---	---	---	PASS
TMEM135	65084	broad.mit.edu	37	11	87016979	87016979	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr11:87016979T>A	uc001pch.2	+	9	723	c.700T>A	c.(700-702)TGC>AGC	p.C234S	TMEM135_uc010rtt.1_Missense_Mutation_p.C95S|TMEM135_uc001pci.2_Missense_Mutation_p.C212S	NM_022918	NP_075069	Q86UB9	TM135_HUMAN	transmembrane protein 135	234						integral to membrane					0		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)				CAATTTCAGATGCAAACATGG	0.284													5	26	---	---	---	---	PASS
ATF7IP	55729	broad.mit.edu	37	12	14613749	14613749	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr12:14613749G>T	uc001rbw.2	+	9	2637	c.2479G>T	c.(2479-2481)GGT>TGT	p.G827C	ATF7IP_uc010shs.1_3'UTR|ATF7IP_uc001rbu.2_Missense_Mutation_p.G827C|ATF7IP_uc001rbv.1_Missense_Mutation_p.G826C|ATF7IP_uc001rbx.2_Missense_Mutation_p.G826C|ATF7IP_uc010sht.1_3'UTR|ATF7IP_uc001rby.3_Missense_Mutation_p.G827C|ATF7IP_uc001rca.2_Missense_Mutation_p.G827C	NM_018179	NP_060649	Q6VMQ6	MCAF1_HUMAN	activating transcription factor 7 interacting	827					DNA methylation|interspecies interaction between organisms|positive regulation of transcription, DNA-dependent|regulation of RNA polymerase II transcriptional preinitiation complex assembly|transcription, DNA-dependent		protein binding			lung(3)|ovary(1)|skin(1)	5						TACAGTGAGTGGTCTTACCAA	0.468													4	27	---	---	---	---	PASS
SFRS2IP	9169	broad.mit.edu	37	12	46321720	46321720	+	Silent	SNP	G	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr12:46321720G>T	uc001rox.2	-	11	2051	c.1764C>A	c.(1762-1764)TCC>TCA	p.S588S	SFRS2IP_uc001row.2_Silent_p.S273S|SFRS2IP_uc001roy.1_Silent_p.S662S	NM_004719	NP_004710	Q99590	SCAFB_HUMAN	splicing factor, arginine/serine-rich 2,	588					spliceosome assembly	nucleus	protein binding|zinc ion binding				0	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.209)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.1)		TTTCTACTAGGGAACTCTCTG	0.368													5	34	---	---	---	---	PASS
KRT73	319101	broad.mit.edu	37	12	53004546	53004546	+	Missense_Mutation	SNP	T	G	G			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr12:53004546T>G	uc001sas.2	-	7	1219	c.1184A>C	c.(1183-1185)AAG>ACG	p.K395T		NM_175068	NP_778238	Q86Y46	K2C73_HUMAN	keratin 73	395	Rod.|Coil 2.					keratin filament	structural molecule activity			large_intestine(2)|ovary(2)|skin(2)	6				BRCA - Breast invasive adenocarcinoma(357;0.189)		CTCATCCAGCTTGGCCCTGGC	0.642													5	32	---	---	---	---	PASS
HCFC2	29915	broad.mit.edu	37	12	104481815	104481815	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr12:104481815G>C	uc001tkj.3	+	9	1386	c.1283G>C	c.(1282-1284)AGT>ACT	p.S428T	HCFC2_uc009zul.2_Intron	NM_013320	NP_037452	Q9Y5Z7	HCFC2_HUMAN	host cell factor C2	428	Fibronectin type-III 1.				regulation of transcription from RNA polymerase II promoter|viral reproduction	cytoplasm|nucleus	transcription coactivator activity			ovary(2)|central_nervous_system(1)	3						GTTCCTAACAGTGTAAGTAAA	0.343													6	14	---	---	---	---	PASS
PRKD1	5587	broad.mit.edu	37	14	30135343	30135343	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr14:30135343A>G	uc001wqh.2	-	3	656	c.475T>C	c.(475-477)TTC>CTC	p.F159L		NM_002742	NP_002733	Q15139	KPCD1_HUMAN	protein kinase D1	159	Phorbol-ester/DAG-type 1.				cell proliferation|intracellular signal transduction|sphingolipid metabolic process	cytosol|integral to plasma membrane	ATP binding|metal ion binding|protein binding|protein kinase C activity			lung(3)|large_intestine(2)|ovary(2)|skin(1)	8	Hepatocellular(127;0.0604)		LUAD - Lung adenocarcinoma(48;0.00527)|Lung(238;0.0252)	GBM - Glioblastoma multiforme(265;0.00888)		TGATCACAGAAAGCTGGAGCT	0.418													17	48	---	---	---	---	PASS
FMN1	342184	broad.mit.edu	37	15	33256413	33256413	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr15:33256413G>T	uc001zhf.3	-	5	2364	c.2364C>A	c.(2362-2364)GAC>GAA	p.D788E		NM_001103184	NP_001096654	Q68DA7	FMN1_HUMAN	formin 1	1011	FH2.				actin cytoskeleton organization	actin cytoskeleton|adherens junction|cytoplasm|nucleus	actin binding			ovary(1)	1		all_lung(180;1.14e-07)		all cancers(64;3.05e-15)|Epithelial(43;1.67e-10)|GBM - Glioblastoma multiforme(186;4.95e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0262)		GGTCCCGAATGTCAGGTTCTT	0.378													7	60	---	---	---	---	PASS
AQR	9716	broad.mit.edu	37	15	35210573	35210573	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr15:35210573G>T	uc001ziv.2	-	15	1409	c.1228C>A	c.(1228-1230)CGT>AGT	p.R410S		NM_014691	NP_055506	O60306	AQR_HUMAN	aquarius	410						catalytic step 2 spliceosome	RNA binding			large_intestine(1)	1		Lung NSC(122;8.7e-10)|all_lung(180;1.47e-08)		all cancers(64;4.34e-18)|GBM - Glioblastoma multiforme(113;4.59e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0283)		CGTTCATGACGAGATACCTAA	0.338													4	37	---	---	---	---	PASS
KIF7	374654	broad.mit.edu	37	15	90171694	90171694	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr15:90171694G>A	uc002bof.2	-	19	4065	c.3988C>T	c.(3988-3990)CGA>TGA	p.R1330*	KIF7_uc010upw.1_Nonsense_Mutation_p.R816*|C15orf42_uc010upv.1_Intron	NM_198525	NP_940927	Q2M1P5	KIF7_HUMAN	kinesin family member 7	1330					microtubule-based movement|negative regulation of smoothened signaling pathway|positive regulation of smoothened signaling pathway	cilium	ATP binding|microtubule motor activity|protein binding			ovary(2)|lung(1)	3	Lung NSC(78;0.0237)|all_lung(78;0.0478)		BRCA - Breast invasive adenocarcinoma(143;0.128)			GGGCTGGCTCGTCGCAGTTCC	0.672													9	35	---	---	---	---	PASS
PCSK6	5046	broad.mit.edu	37	15	101933582	101933582	+	Silent	SNP	G	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr15:101933582G>A	uc002bwy.2	-	9	1358	c.1044C>T	c.(1042-1044)GGC>GGT	p.G348G	PCSK6_uc010bpd.2_Silent_p.G218G|PCSK6_uc010bpe.2_Silent_p.G348G|PCSK6_uc002bxa.2_Silent_p.G348G|PCSK6_uc002bxb.2_Silent_p.G348G|PCSK6_uc002bxc.1_Silent_p.G348G|PCSK6_uc002bxd.1_Silent_p.G348G|PCSK6_uc002bxe.2_Silent_p.G348G|PCSK6_uc002bxg.1_Silent_p.G348G	NM_002570	NP_002561	P29122	PCSK6_HUMAN	paired basic amino acid cleaving system 4	348	Catalytic.				glycoprotein metabolic process|nerve growth factor processing|nerve growth factor production|nerve growth factor receptor signaling pathway|regulation of BMP signaling pathway|secretion by cell	cell surface|endomembrane system|endoplasmic reticulum|extracellular matrix|extracellular space|Golgi lumen|membrane|soluble fraction	eukaryotic cell surface binding|heparin binding|nerve growth factor binding|serine-type endopeptidase activity			pancreas(2)	2	Lung NSC(78;0.00102)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.000803)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			CCTCTCTCCCGCCATTCCCAG	0.617													8	33	---	---	---	---	PASS
BAIAP3	8938	broad.mit.edu	37	16	1388906	1388906	+	Missense_Mutation	SNP	A	C	C			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr16:1388906A>C	uc002clk.1	+	3	240	c.240A>C	c.(238-240)AAA>AAC	p.K80N	BAIAP3_uc002clj.2_Missense_Mutation_p.K45N|BAIAP3_uc010uuz.1_Missense_Mutation_p.K45N|BAIAP3_uc010uva.1_Missense_Mutation_p.K45N|BAIAP3_uc010uvb.1_Missense_Mutation_p.K80N|BAIAP3_uc010uvc.1_Missense_Mutation_p.K45N	NM_003933	NP_003924	O94812	BAIP3_HUMAN	BAI1-associated protein 3	80					G-protein coupled receptor protein signaling pathway|neurotransmitter secretion		protein C-terminus binding			pancreas(1)	1		Hepatocellular(780;0.0893)				TCTCCAGGAAACCCGGGGATG	0.642													8	89	---	---	---	---	PASS
CREBBP	1387	broad.mit.edu	37	16	3789636	3789636	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr16:3789636C>T	uc002cvv.2	-	25	4427	c.4223G>A	c.(4222-4224)TGC>TAC	p.C1408Y	CREBBP_uc002cvw.2_Missense_Mutation_p.C1370Y	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	1408	Cys/His-rich.				cellular lipid metabolic process|homeostatic process|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|protein complex assembly|response to hypoxia	cytoplasm|nuclear body	histone acetyltransferase activity|MyoD binding|p53 binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity|zinc ion binding	p.C1408Y(1)		haematopoietic_and_lymphoid_tissue(97)|ovary(14)|lung(6)|skin(6)|breast(2)|NS(1)|pancreas(1)	127		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)		TCCAAAAAAGCAGACATCCAC	0.478			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				6	55	---	---	---	---	PASS
A2BP1	54715	broad.mit.edu	37	16	7629902	7629902	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr16:7629902G>A	uc002cys.2	+	6	1382	c.394G>A	c.(394-396)GAC>AAC	p.D132N	A2BP1_uc010buf.1_Missense_Mutation_p.D132N|A2BP1_uc002cyr.1_Missense_Mutation_p.D131N|A2BP1_uc002cyt.2_Missense_Mutation_p.D132N|A2BP1_uc010uxz.1_Missense_Mutation_p.D175N|A2BP1_uc010uya.1_Intron|A2BP1_uc002cyv.1_Missense_Mutation_p.D132N|A2BP1_uc010uyb.1_Missense_Mutation_p.D132N|A2BP1_uc002cyw.2_Missense_Mutation_p.D152N|A2BP1_uc002cyy.2_Missense_Mutation_p.D152N|A2BP1_uc002cyx.2_Missense_Mutation_p.D152N|A2BP1_uc010uyc.1_Missense_Mutation_p.D152N	NM_018723	NP_061193	Q9NWB1	RFOX1_HUMAN	ataxin 2-binding protein 1 isoform 4	132	RRM.				mRNA processing|RNA splicing|RNA transport	nucleus|trans-Golgi network	nucleotide binding|protein C-terminus binding|RNA binding				0		all_cancers(2;4.54e-52)|Colorectal(2;6.95e-44)|all_epithelial(2;1.15e-37)|Lung NSC(2;0.000289)|all_lung(2;0.00148)|Myeloproliferative disorder(2;0.0122)|Medulloblastoma(2;0.0354)|all_neural(2;0.0381)|all_hematologic(2;0.0749)|Renal(2;0.0758)|Melanoma(2;0.211)		Colorectal(1;3.55e-51)|COAD - Colon adenocarcinoma(2;1.92e-46)|all cancers(1;5.36e-16)|Epithelial(1;3.98e-15)|READ - Rectum adenocarcinoma(2;3.71e-05)|GBM - Glioblastoma multiforme(1;0.0499)		CCGGGATCCGGACCTCAGACA	0.532													7	36	---	---	---	---	PASS
MYH11	4629	broad.mit.edu	37	16	15865568	15865568	+	Silent	SNP	A	G	G			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr16:15865568A>G	uc002ddy.2	-	9	998	c.891T>C	c.(889-891)AGT>AGC	p.S297S	MYH11_uc002ddv.2_Silent_p.S304S|MYH11_uc002ddw.2_Silent_p.S297S|MYH11_uc002ddx.2_Silent_p.S304S|MYH11_uc010bvg.2_Silent_p.S129S|MYH11_uc002dea.1_Silent_p.S3S	NM_002474	NP_002465	P35749	MYH11_HUMAN	smooth muscle myosin heavy chain 11 isoform	297	Myosin head-like.				axon guidance|cardiac muscle fiber development|elastic fiber assembly|skeletal muscle myosin thick filament assembly|smooth muscle contraction	cytosol|melanosome|muscle myosin complex|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			ovary(6)|skin(3)|lung(2)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)	15						AAAGCAAGTCACCTAGAAGGA	0.488			T	CBFB	AML								11	56	---	---	---	---	PASS
ZKSCAN2	342357	broad.mit.edu	37	16	25264319	25264319	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr16:25264319C>A	uc002dod.3	-	3	1033	c.626G>T	c.(625-627)TGG>TTG	p.W209L	ZKSCAN2_uc010vcl.1_Missense_Mutation_p.M1I|ZKSCAN2_uc002doe.2_Missense_Mutation_p.W209L	NM_001012981	NP_001012999	Q63HK3	ZKSC2_HUMAN	zinc finger with KRAB and SCAN domains 2	209					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)|breast(1)	4				GBM - Glioblastoma multiforme(48;0.0378)		TAGGGTATTCCATTCATCAGC	0.398													9	195	---	---	---	---	PASS
NETO2	81831	broad.mit.edu	37	16	47162370	47162370	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr16:47162370G>T	uc002eer.1	-	4	732	c.347C>A	c.(346-348)CCT>CAT	p.P116H	NETO2_uc010vgf.1_5'UTR|NETO2_uc002ees.1_Missense_Mutation_p.P116H	NM_018092	NP_060562	Q8NC67	NETO2_HUMAN	neuropilin- and tolloid-like protein 2	116	Extracellular (Potential).|CUB 1.					integral to membrane	receptor activity				0		all_cancers(37;0.00114)|all_lung(18;0.00432)|Lung NSC(13;0.0384)|Breast(268;0.174)				ATCTATAAGAGGAGAGAAACC	0.388										HNSCC(25;0.065)			6	102	---	---	---	---	PASS
FTO	79068	broad.mit.edu	37	16	53922817	53922817	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr16:53922817A>T	uc002ehr.2	+	7	1415	c.1193A>T	c.(1192-1194)CAA>CTA	p.Q398L	FTO_uc010vha.1_Missense_Mutation_p.Q102L|FTO_uc010cbz.2_5'UTR	NM_001080432	NP_001073901	Q9C0B1	FTO_HUMAN	fat mass and obesity associated	398					DNA dealkylation involved in DNA repair|oxidative single-stranded DNA demethylation|oxidative single-stranded RNA demethylation|RNA repair	nucleus	DNA-N1-methyladenine dioxygenase activity|ferrous iron binding|oxidative DNA demethylase activity|oxidative RNA demethylase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						TGGTGGTGTCAACCCATGGCT	0.498													8	57	---	---	---	---	PASS
GPR56	9289	broad.mit.edu	37	16	57689812	57689812	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr16:57689812G>T	uc002emb.2	+	8	1217	c.925G>T	c.(925-927)GGT>TGT	p.G309C	GPR56_uc002elz.1_Missense_Mutation_p.G139C|GPR56_uc002ema.1_Missense_Mutation_p.G134C|GPR56_uc002emc.2_Missense_Mutation_p.G309C|GPR56_uc002emf.2_Missense_Mutation_p.G309C|GPR56_uc010vhs.1_Missense_Mutation_p.G309C|GPR56_uc002emd.2_Missense_Mutation_p.G309C|GPR56_uc002eme.2_Missense_Mutation_p.G309C|GPR56_uc010vht.1_Missense_Mutation_p.G314C|GPR56_uc002emg.3_Missense_Mutation_p.G309C|GPR56_uc010vhu.1_Missense_Mutation_p.G134C	NM_005682	NP_005673	Q9Y653	GPR56_HUMAN	G protein-coupled receptor 56 isoform a	309	Extracellular (Potential).				brain development|cell adhesion|cell-cell signaling|neuropeptide signaling pathway	integral to plasma membrane	G-protein coupled receptor activity				0						CCAAGTCCTGGGTGAGAAGGT	0.557													7	127	---	---	---	---	PASS
NFATC3	4775	broad.mit.edu	37	16	68156951	68156951	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr16:68156951G>T	uc002evo.1	+	2	1375	c.1165G>T	c.(1165-1167)GGT>TGT	p.G389C	NFATC3_uc010vkl.1_5'UTR|NFATC3_uc010vkm.1_5'UTR|NFATC3_uc010vkn.1_5'UTR|NFATC3_uc010vko.1_5'UTR|NFATC3_uc010vkp.1_5'UTR|NFATC3_uc010vkq.1_5'UTR|NFATC3_uc002evl.2_Intron|NFATC3_uc002evk.2_Missense_Mutation_p.G389C|NFATC3_uc002evm.1_Missense_Mutation_p.G389C|NFATC3_uc002evn.1_Missense_Mutation_p.G389C|NFATC3_uc010vkr.1_5'UTR|NFATC3_uc010vks.1_5'UTR|NFATC3_uc010vkt.1_5'UTR|NFATC3_uc010vku.1_5'UTR|NFATC3_uc010vkv.1_5'UTR|NFATC3_uc010vkw.1_5'UTR|NFATC3_uc010vkx.1_5'UTR|NFATC3_uc010vky.1_5'UTR|NFATC3_uc010vkz.1_5'UTR|NFATC3_uc010vla.1_5'UTR|NFATC3_uc010vlb.1_5'UTR|NFATC3_uc010vlc.1_5'UTR	NM_173165	NP_775188	Q12968	NFAC3_HUMAN	nuclear factor of activated T-cells,	389					inflammatory response|transcription from RNA polymerase II promoter	nucleolus|plasma membrane	DNA binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0119)|Epithelial(162;0.0452)|all cancers(182;0.24)		AGATTCATGTGGTGATCAGTT	0.468													6	93	---	---	---	---	PASS
SMG6	23293	broad.mit.edu	37	17	2202732	2202732	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr17:2202732C>A	uc002fub.1	-	2	1370	c.1315G>T	c.(1315-1317)GGT>TGT	p.G439C	SMG6_uc002fud.1_Missense_Mutation_p.G408C	NM_017575	NP_060045	Q86US8	EST1A_HUMAN	Smg-6 homolog, nonsense mediated mRNA decay	439	Interaction with telomeric DNA.				mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation|telomere maintenance	chromosome, telomeric region|cytosol|nucleolus|telomerase holoenzyme complex	endoribonuclease activity|metal ion binding|protein binding|telomeric DNA binding			central_nervous_system(2)|lung(1)|kidney(1)	4						CCCTTACTACCAGATCCAAAC	0.542													6	115	---	---	---	---	PASS
OR1A1	8383	broad.mit.edu	37	17	3118956	3118956	+	Silent	SNP	C	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr17:3118956C>A	uc010vrc.1	+	1	42	c.42C>A	c.(40-42)CTC>CTA	p.L14L		NM_014565	NP_055380	Q9P1Q5	OR1A1_HUMAN	olfactory receptor, family 1, subfamily A,	14	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						AATTCATCCTCCTGGGAGTTA	0.418													5	34	---	---	---	---	PASS
DLG4	1742	broad.mit.edu	37	17	7094078	7094078	+	Silent	SNP	G	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr17:7094078G>A	uc002get.3	-	22	3454	c.2253C>T	c.(2251-2253)ATC>ATT	p.I751I	DLG4_uc010vtm.1_RNA|DLG4_uc010vtn.1_Silent_p.I648I|DLG4_uc010cly.2_Silent_p.I705I|DLG4_uc010vto.1_Silent_p.I748I	NM_001365	NP_001356	P78352	DLG4_HUMAN	post-synaptic density protein 95 isoform 1	708	Guanylate kinase-like.				axon guidance|learning|protein complex assembly|protein localization to synapse|signal transduction|synaptic transmission	cell junction|cortical cytoskeleton|endocytic vesicle membrane|neuron spine|postsynaptic density|postsynaptic membrane|synaptosome	protein binding|protein C-terminus binding			ovary(1)|breast(1)	2						AGAGGTCCTCGATGACACGCT	0.622													13	69	---	---	---	---	PASS
DNAH2	146754	broad.mit.edu	37	17	7696493	7696493	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr17:7696493C>A	uc002giu.1	+	47	7553	c.7539C>A	c.(7537-7539)GAC>GAA	p.D2513E		NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	2513	AAA 3 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				TCTGGTATGACCGTACGAAGC	0.532													4	39	---	---	---	---	PASS
SLFN11	91607	broad.mit.edu	37	17	33690294	33690294	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr17:33690294G>C	uc010ctp.2	-	4	975	c.533C>G	c.(532-534)CCT>CGT	p.P178R	SLFN11_uc010ctq.2_Missense_Mutation_p.P178R|SLFN11_uc002hjh.3_Missense_Mutation_p.P178R|SLFN11_uc002hjg.3_Missense_Mutation_p.P178R|SLFN11_uc010ctr.2_Missense_Mutation_p.P178R	NM_001104588	NP_001098058	Q7Z7L1	SLN11_HUMAN	schlafen family member 11	178						nucleus	ATP binding			large_intestine(1)|ovary(1)|skin(1)	3		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		ATCCGAGTTAGGGAGCTCTTG	0.433													7	98	---	---	---	---	PASS
CWC25	54883	broad.mit.edu	37	17	36958422	36958422	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr17:36958422C>A	uc002hqu.2	-	10	1354	c.1201G>T	c.(1201-1203)GAG>TAG	p.E401*	CWC25_uc010wdv.1_Nonsense_Mutation_p.E338*|PIP4K2B_uc002hqs.2_5'Flank|PIP4K2B_uc010wdt.1_5'Flank	NM_017748	NP_060218	Q9NXE8	CWC25_HUMAN	coiled-coil domain containing 49	401											0						ACCCGATCCTCCAGGGAGGAA	0.438													5	47	---	---	---	---	PASS
KRT39	390792	broad.mit.edu	37	17	39122796	39122796	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr17:39122796C>A	uc002hvo.1	-	1	349	c.313G>T	c.(313-315)GAG>TAG	p.E105*	KRT39_uc010wfm.1_5'UTR	NM_213656	NP_998821	Q6A163	K1C39_HUMAN	type I hair keratin KA35	105	Coil 1A.|Rod.					intermediate filament	structural molecule activity				0		Breast(137;0.00043)|Ovarian(249;0.15)				GCAAGGCGCTCGTTCAAGATT	0.448													5	159	---	---	---	---	PASS
EFTUD2	9343	broad.mit.edu	37	17	42937901	42937901	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr17:42937901C>A	uc002ihn.2	-	17	1879	c.1618G>T	c.(1618-1620)GAG>TAG	p.E540*	EFTUD2_uc010wje.1_Nonsense_Mutation_p.E505*|EFTUD2_uc010wjf.1_Nonsense_Mutation_p.E530*	NM_004247	NP_004238	Q15029	U5S1_HUMAN	elongation factor Tu GTP binding domain	540						Cajal body|catalytic step 2 spliceosome|cytoplasm|nuclear speck	GTP binding|GTPase activity|protein binding			ovary(1)	1		Prostate(33;0.109)				CGGTTCACCTCGATGTGGTAC	0.393													4	57	---	---	---	---	PASS
MYST2	11143	broad.mit.edu	37	17	47886480	47886480	+	Splice_Site	SNP	G	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr17:47886480G>T	uc002ipm.2	+	6	790	c.664_splice	c.e6-1	p.V222_splice	MYST2_uc002ipl.1_Intron|MYST2_uc010wma.1_Splice_Site_p.V83_splice|MYST2_uc010wmb.1_Intron|MYST2_uc010wmc.1_Intron|MYST2_uc010wmd.1_Splice_Site_p.V66_splice|MYST2_uc010wme.1_Intron	NM_007067	NP_008998	O95251	MYST2_HUMAN	MYST histone acetyltransferase 2						DNA replication|histone H3 acetylation|histone H4-K12 acetylation|histone H4-K5 acetylation|histone H4-K8 acetylation	histone acetyltransferase complex	histone acetyltransferase activity|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|lung(1)|skin(1)	3						GATGGTTGCAGGTGAGAGCAC	0.388													5	47	---	---	---	---	PASS
CA10	56934	broad.mit.edu	37	17	50008434	50008434	+	Silent	SNP	C	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr17:50008434C>T	uc002itw.3	-	3	1181	c.195G>A	c.(193-195)CGG>CGA	p.R65R	CA10_uc002itv.3_Silent_p.R71R|CA10_uc002itx.3_Silent_p.R65R|CA10_uc002ity.3_Silent_p.R65R|CA10_uc002itz.2_Silent_p.R65R	NM_020178	NP_064563	Q9NS85	CAH10_HUMAN	carbonic anhydrase X	65					brain development					ovary(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(22;4.74e-06)			CTGGCGACTGCCGTTTCCCCA	0.478													7	83	---	---	---	---	PASS
TOM1L1	10040	broad.mit.edu	37	17	52993166	52993166	+	Silent	SNP	C	T	T	rs141567240		TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr17:52993166C>T	uc002iud.2	+	7	838	c.663C>T	c.(661-663)GCC>GCT	p.A221A	TOM1L1_uc002iub.2_Silent_p.A186A|TOM1L1_uc002iuc.2_Silent_p.A221A|TOM1L1_uc010dca.1_Silent_p.A221A|TOM1L1_uc010wnb.1_Silent_p.A214A|TOM1L1_uc010wnc.1_Silent_p.A144A|TOM1L1_uc010dbz.2_Silent_p.A144A|TOM1L1_uc010wnd.1_Silent_p.A109A|TOM1L1_uc010dcb.1_RNA	NM_005486	NP_005477	O75674	TM1L1_HUMAN	target of myb1-like 1	221	GAT.				intracellular protein transport|ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway	cytosol|endosome membrane|Golgi stack|lysosome	SH3 domain binding|ubiquitin binding			ovary(1)	1						TGATGTCCGCCATATTGATGG	0.433													4	31	---	---	---	---	PASS
SSTR2	6752	broad.mit.edu	37	17	71166359	71166359	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr17:71166359A>T	uc002jje.2	+	2	1261	c.901A>T	c.(901-903)ACC>TCC	p.T301S		NM_001050	NP_001041	P30874	SSR2_HUMAN	somatostatin receptor 2	301	Helical; Name=7; (Potential).				digestion|negative regulation of cell proliferation|response to nutrient	integral to plasma membrane	PDZ domain binding|somatostatin receptor activity				0			LUSC - Lung squamous cell carcinoma(166;0.197)			GGTGGTCCTCACCTATGCTAA	0.507													26	77	---	---	---	---	PASS
SEC14L1	6397	broad.mit.edu	37	17	75208270	75208270	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr17:75208270G>A	uc002jto.2	+	15	2117	c.1850G>A	c.(1849-1851)GGA>GAA	p.G617E	SEC14L1_uc010dhc.2_Missense_Mutation_p.G617E|SEC14L1_uc010wth.1_Missense_Mutation_p.G617E|SEC14L1_uc002jtm.2_Missense_Mutation_p.G617E|SEC14L1_uc010wti.1_Missense_Mutation_p.G583E|SEC14L1_uc010wtj.1_Silent_p.R105R|SEC14L1_uc002jtr.2_Missense_Mutation_p.G11E	NM_003003	NP_002994	Q92503	S14L1_HUMAN	SEC14 (S. cerevisiae)-like 1 isoform a	617	GOLD.				transport	Golgi apparatus|integral to membrane	binding			ovary(2)	2						TGCAAAGAAGGAGAAAGCGTG	0.537													39	170	---	---	---	---	PASS
CCDC40	55036	broad.mit.edu	37	17	78039299	78039299	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr17:78039299G>A	uc010dht.2	+	10	1483	c.1456G>A	c.(1456-1458)GAC>AAC	p.D486N	CCDC40_uc010wub.1_Intron|CCDC40_uc002jxm.3_Missense_Mutation_p.D269N	NM_017950	NP_060420	Q4G0X9	CCD40_HUMAN	coiled-coil domain containing 40	486					axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium|cytoplasm				ovary(3)	3	all_neural(118;0.167)		OV - Ovarian serous cystadenocarcinoma(97;0.0292)|BRCA - Breast invasive adenocarcinoma(99;0.149)			CACCGAGATCGACGCCATCAG	0.627													18	67	---	---	---	---	PASS
ASXL3	80816	broad.mit.edu	37	18	31324284	31324284	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr18:31324284T>C	uc010dmg.1	+	12	4527	c.4472T>C	c.(4471-4473)GTT>GCT	p.V1491A	ASXL3_uc002kxq.2_Missense_Mutation_p.V1198A	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	1491					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						ACTGTCTCCGTTGAAAGCTCA	0.562											OREG0024911	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	34	---	---	---	---	PASS
MYO5B	4645	broad.mit.edu	37	18	47500812	47500812	+	Silent	SNP	G	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr18:47500812G>T	uc002leb.2	-	10	1518	c.1230C>A	c.(1228-1230)GCC>GCA	p.A410A	MYO5B_uc002lec.1_Silent_p.A409A	NM_001080467	NP_001073936	Q9ULV0	MYO5B_HUMAN	myosin VB	410	Myosin head-like.				protein transport	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(2)|central_nervous_system(1)	5				READ - Rectum adenocarcinoma(32;0.103)		CGAACAACTGGGCATAGATGT	0.582													6	86	---	---	---	---	PASS
ANKRD24	170961	broad.mit.edu	37	19	4217104	4217104	+	Silent	SNP	A	G	G			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr19:4217104A>G	uc010dtt.1	+	18	2223	c.1947A>G	c.(1945-1947)GAA>GAG	p.E649E	ANKRD24_uc002lzs.2_Silent_p.E620E|ANKRD24_uc002lzt.2_Silent_p.E621E	NM_133475	NP_597732	Q8TF21	ANR24_HUMAN	ankyrin repeat domain 24	649											0				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0233)|STAD - Stomach adenocarcinoma(1328;0.181)		AAGCAGAGGAAGCAGAAATGC	0.597													5	79	---	---	---	---	PASS
SH3GL1	6455	broad.mit.edu	37	19	4366964	4366964	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr19:4366964C>A	uc002maj.2	-	2	179	c.73G>T	c.(73-75)GAG>TAG	p.E25*	SH3GL1_uc002mak.2_Nonsense_Mutation_p.E25*|SH3GL1_uc010xig.1_Nonsense_Mutation_p.E25*	NM_003025	NP_003016	Q99961	SH3G1_HUMAN	SH3-domain GRB2-like 1	25	BAR.				central nervous system development|endocytosis|signal transduction	early endosome membrane	lipid binding|protein binding			ovary(2)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0152)|STAD - Stomach adenocarcinoma(1328;0.182)		TTGGTCCCCTCGGCCCCTCCG	0.602			T	MLL	AL								7	541	---	---	---	---	PASS
SEMA6B	10501	broad.mit.edu	37	19	4548318	4548318	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr19:4548318G>T	uc010duc.1	-	12	1449	c.1411C>A	c.(1411-1413)CTC>ATC	p.L471I	SEMA6B_uc010dud.2_Missense_Mutation_p.L471I|SEMA6B_uc010xih.1_Missense_Mutation_p.L471I	NM_032108	NP_115484	Q9H3T3	SEM6B_HUMAN	semaphorin 6B precursor	471	Extracellular (Potential).|Sema.				cell differentiation|nervous system development	integral to membrane	receptor activity			skin(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0149)|STAD - Stomach adenocarcinoma(1328;0.18)		AAGACACTGAGCCCAGACGTC	0.632													5	84	---	---	---	---	PASS
SAFB	6294	broad.mit.edu	37	19	5641789	5641789	+	Silent	SNP	C	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr19:5641789C>T	uc002mcf.2	+	4	431	c.378C>T	c.(376-378)ATC>ATT	p.I126I	SAFB_uc010xiq.1_Silent_p.I126I|SAFB_uc002mcg.2_Silent_p.I126I|SAFB_uc002mce.3_Silent_p.I126I|SAFB_uc010xir.1_Silent_p.I126I|SAFB_uc010xis.1_Intron|SAFB_uc010xit.1_Intron|SAFB_uc010xiu.1_Intron	NM_002967	NP_002958	Q15424	SAFB1_HUMAN	scaffold attachment factor B	126					chromatin organization|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	double-stranded DNA binding|nucleotide binding|protein binding|RNA binding			ovary(1)|liver(1)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (162;0.000222)		TGCAGGACATCGACATCATGG	0.498													13	107	---	---	---	---	PASS
MUC16	94025	broad.mit.edu	37	19	9056521	9056521	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr19:9056521C>A	uc002mkp.2	-	3	31129	c.30925G>T	c.(30925-30927)GAG>TAG	p.E10309*		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	10311	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GGGCCTGACTCTGTCCTAGAG	0.527													7	114	---	---	---	---	PASS
CDC37	11140	broad.mit.edu	37	19	10506132	10506132	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr19:10506132C>A	uc002mof.1	-	3	582	c.466G>T	c.(466-468)GAG>TAG	p.E156*	CDC37_uc002moe.1_Nonsense_Mutation_p.E111*|CDC37_uc010dxf.1_5'UTR|CDC37_uc002mog.1_Nonsense_Mutation_p.E156*|CDC37_uc002moh.2_Nonsense_Mutation_p.E156*	NM_007065	NP_008996	Q16543	CDC37_HUMAN	cell division cycle 37 protein	156					protein targeting|regulation of cyclin-dependent protein kinase activity|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway		unfolded protein binding				0			OV - Ovarian serous cystadenocarcinoma(20;4.65e-10)|Epithelial(33;6.48e-07)|all cancers(31;2.31e-06)	GBM - Glioblastoma multiforme(1328;0.0318)		ATCTGTTTCTCGTATTTTTCC	0.567													9	431	---	---	---	---	PASS
KEAP1	9817	broad.mit.edu	37	19	10610247	10610247	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr19:10610247C>A	uc002moq.1	-	2	619	c.463G>T	c.(463-465)GTC>TTC	p.V155F	KEAP1_uc002mor.1_Missense_Mutation_p.V155F	NM_012289	NP_036421	Q14145	KEAP1_HUMAN	kelch-like ECH-associated protein 1	155					regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|midbody|nucleus	protein binding			lung(12)|breast(3)|ovary(1)|pancreas(1)	17			OV - Ovarian serous cystadenocarcinoma(20;2.71e-09)|Epithelial(33;2.32e-06)|all cancers(31;1.42e-05)			CCGTTCATGACGTGGAGGACA	0.587													25	49	---	---	---	---	PASS
SIN3B	23309	broad.mit.edu	37	19	16962230	16962230	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr19:16962230G>C	uc002ney.1	+	6	748	c.734G>C	c.(733-735)GGA>GCA	p.G245A	SIN3B_uc002new.2_Missense_Mutation_p.G245A|SIN3B_uc002nex.2_Missense_Mutation_p.G177A|SIN3B_uc002nez.1_Missense_Mutation_p.G245A	NM_015260	NP_056075	O75182	SIN3B_HUMAN	SIN3 homolog B, transcription regulator	245					cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	protein binding			ovary(2)	2						TAGTTCACAGGAAACGGGCCG	0.647													12	49	---	---	---	---	PASS
ZNF493	284443	broad.mit.edu	37	19	21605993	21605993	+	Nonsense_Mutation	SNP	G	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr19:21605993G>T	uc002npx.2	+	2	428	c.148G>T	c.(148-150)GGA>TGA	p.G50*	ZNF493_uc002npw.2_Nonsense_Mutation_p.G178*|ZNF493_uc002npy.2_Nonsense_Mutation_p.G50*	NM_175910	NP_787106	Q6ZR52	ZN493_HUMAN	zinc finger protein 493 isoform 1	50					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						AAAACATACTGGAAAGAAACC	0.289													14	24	---	---	---	---	PASS
ZNF260	339324	broad.mit.edu	37	19	37005242	37005242	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr19:37005242C>A	uc002oee.1	-	4	1743	c.899G>T	c.(898-900)GGA>GTA	p.G300V	ZNF260_uc002oed.1_Missense_Mutation_p.G297V|ZNF260_uc010eey.1_Missense_Mutation_p.G297V|ZNF260_uc002oef.1_Missense_Mutation_p.G297V	NM_001012756	NP_001012774	Q3ZCT1	ZN260_HUMAN	zinc finger protein 260	300					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.162)					GGGTTTCTCTCCTGTATGAAT	0.353													4	26	---	---	---	---	PASS
RYR1	6261	broad.mit.edu	37	19	39002950	39002950	+	Nonsense_Mutation	SNP	C	A	A	rs148412985		TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr19:39002950C>A	uc002oit.2	+	63	9429	c.9299C>A	c.(9298-9300)TCG>TAG	p.S3100*	RYR1_uc002oiu.2_Nonsense_Mutation_p.S3100*|RYR1_uc002oiv.1_Nonsense_Mutation_p.S20*|RYR1_uc010xuf.1_Nonsense_Mutation_p.S20*	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	3100	Cytoplasmic.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	GAGAGTGCCTCGGAGGACATC	0.607													4	45	---	---	---	---	PASS
ZFP36	7538	broad.mit.edu	37	19	39898388	39898388	+	Silent	SNP	C	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr19:39898388C>A	uc002olh.1	+	2	88	c.30C>A	c.(28-30)CTC>CTA	p.L10L	ZFP36_uc010egn.1_5'UTR	NM_003407	NP_003398	P26651	TTP_HUMAN	zinc finger protein 36, C3H type, homolog	10					positive regulation of nuclear-transcribed mRNA poly(A) tail shortening	cytosol|nucleus	AU-rich element binding|DNA binding|mRNA binding|protein binding|single-stranded RNA binding|zinc ion binding			pancreas(1)	1	all_cancers(60;6.54e-07)|all_lung(34;4.03e-08)|Lung NSC(34;4.66e-08)|all_epithelial(25;1.53e-06)|Ovarian(47;0.0512)		Epithelial(26;2.92e-26)|all cancers(26;2.01e-23)|Lung(45;0.000499)|LUSC - Lung squamous cell carcinoma(53;0.000657)			CGCAGAGCCTCCTGTCGCTGA	0.667													8	159	---	---	---	---	PASS
PLD3	23646	broad.mit.edu	37	19	40872569	40872569	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr19:40872569A>T	uc002onm.3	+	4	478	c.80A>T	c.(79-81)GAG>GTG	p.E27V	PLD3_uc002onj.3_Missense_Mutation_p.E27V|PLD3_uc002onk.3_Missense_Mutation_p.E27V|PLD3_uc002onl.3_Missense_Mutation_p.E27V|PLD3_uc002onn.2_Missense_Mutation_p.E27V|PLD3_uc002ono.2_Missense_Mutation_p.E27V	NM_001031696	NP_001026866	Q8IV08	PLD3_HUMAN	phospholipase D3	27	Cytoplasmic (Potential).				lipid catabolic process	endoplasmic reticulum membrane|integral to membrane	NAPE-specific phospholipase D activity|phospholipase D activity|protein binding			skin(2)|ovary(1)	3			Lung(22;0.000636)|LUSC - Lung squamous cell carcinoma(20;0.00248)			AATGAGATTGAGGCGTGGAAG	0.647													10	42	---	---	---	---	PASS
CYP2A6	1548	broad.mit.edu	37	19	41351983	41351983	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr19:41351983G>A	uc002opl.3	-	6	872	c.851C>T	c.(850-852)ACG>ATG	p.T284M	CYP2A6_uc010ehe.1_Missense_Mutation_p.T80M|CYP2A6_uc010ehf.1_RNA	NM_000762	NP_000753	P11509	CP2A6_HUMAN	cytochrome P450, family 2, subfamily A,	284					coumarin catabolic process|exogenous drug catabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|coumarin 7-hydroxylase activity|electron carrier activity|enzyme binding|heme binding			ovary(2)	2			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)		Chlorzoxazone(DB00356)|Diethylstilbestrol(DB00255)|Estradiol(DB00783)|Ethinyl Estradiol(DB00977)|Formoterol(DB00983)|Halothane(DB01159)|Letrozole(DB01006)|Methoxsalen(DB00553)|Metyrapone(DB01011)|Nicotine(DB00184)|Pilocarpine(DB01085)|Tolbutamide(DB01124)|Tranylcypromine(DB00752)	GTAGAACTCCGTGTTGGGGTT	0.562													10	51	---	---	---	---	PASS
TMEM91	641649	broad.mit.edu	37	19	41888702	41888702	+	Nonsense_Mutation	SNP	C	A	A	rs140231326	by1000genomes	TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr19:41888702C>A	uc002oqk.3	+	3	587	c.236C>A	c.(235-237)TCG>TAG	p.S79*	CYP2F1_uc010xvw.1_Intron|TMEM91_uc002oqi.2_Nonsense_Mutation_p.S79*|TMEM91_uc010ehq.2_Nonsense_Mutation_p.S79*|TMEM91_uc002oql.2_Nonsense_Mutation_p.S79*|TMEM91_uc010ehr.2_Nonsense_Mutation_p.S79*|TMEM91_uc010ehs.2_Nonsense_Mutation_p.S79*|TMEM91_uc010eht.2_Nonsense_Mutation_p.S79*|BCKDHA_uc002oqm.3_Intron|TMEM91_uc002oqn.2_Nonsense_Mutation_p.S79*	NM_001098821	NP_001092291	Q6ZNR0	TMM91_HUMAN	transmembrane protein 91 isoform a	79					response to biotic stimulus	integral to membrane					0						GACAGTGACTCGGACTGGGAT	0.572													9	321	---	---	---	---	PASS
B3GNT8	374907	broad.mit.edu	37	19	41932031	41932031	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr19:41932031G>C	uc002oqs.2	-	3	1107	c.653C>G	c.(652-654)CCA>CGA	p.P218R	CYP2F1_uc010xvw.1_Intron|B3GNT8_uc002oqt.1_Intron	NM_198540	NP_940942	Q7Z7M8	B3GN8_HUMAN	UDP-GlcNAc:betaGal	218	Lumenal (Potential).				poly-N-acetyllactosamine biosynthetic process|protein glycosylation	Golgi membrane|integral to membrane	galactosyltransferase activity|protein N-acetylglucosaminyltransferase activity				0						CTGGTTGAATGGGACGTCGAG	0.627													4	27	---	---	---	---	PASS
PSG2	5670	broad.mit.edu	37	19	43575959	43575959	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr19:43575959A>T	uc002ovr.2	-	4	950	c.857T>A	c.(856-858)CTG>CAG	p.L286Q	PSG6_uc002ovi.2_Intron|PSG6_uc010xwk.1_Intron|PSG2_uc002ovq.3_Missense_Mutation_p.L286Q|PSG2_uc010eiq.1_Missense_Mutation_p.L286Q|PSG2_uc002ovs.3_Missense_Mutation_p.L286Q|PSG2_uc002ovt.3_Missense_Mutation_p.L286Q	NM_031246	NP_112536	P11465	PSG2_HUMAN	pregnancy specific beta-1-glycoprotein 2	286	Ig-like C2-type 2.				cell migration|female pregnancy	extracellular region					0		Prostate(69;0.00682)				GGGGATAAACAGATTTTGTCC	0.453													19	228	---	---	---	---	PASS
ZNF225	7768	broad.mit.edu	37	19	44622462	44622462	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr19:44622462C>A	uc002oyj.1	+	3	380	c.137C>A	c.(136-138)TCA>TAA	p.S46*	ZNF225_uc010eje.1_5'UTR|ZNF225_uc010ejf.1_Nonsense_Mutation_p.S46*	NM_013362	NP_037494	Q9UK10	ZN225_HUMAN	zinc finger protein 225	46	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0352)|all_neural(266;0.202)				AACCTGCTCTCAGTGGGTGAG	0.517													7	156	---	---	---	---	PASS
IGFL3	388555	broad.mit.edu	37	19	46627192	46627192	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr19:46627192C>A	uc002pea.1	-	3	326	c.301G>T	c.(301-303)GGT>TGT	p.G101C		NM_207393	NP_997276	Q6UXB1	IGFL3_HUMAN	IGF-like family member 3 precursor	101						extracellular region	protein binding				0		Ovarian(192;0.0175)|all_neural(266;0.0476)		OV - Ovarian serous cystadenocarcinoma(262;0.00473)|GBM - Glioblastoma multiforme(486;0.0149)|Epithelial(262;0.239)		GACTTCATACCCAGAACCCTC	0.542													7	194	---	---	---	---	PASS
VSTM1	284415	broad.mit.edu	37	19	54545432	54545432	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr19:54545432G>T	uc002qcw.3	-	6	682	c.506C>A	c.(505-507)TCC>TAC	p.S169Y	VSTM1_uc010erb.2_Intron|VSTM1_uc002qcx.3_Missense_Mutation_p.S138Y	NM_198481	NP_940883	Q6UX27	VSTM1_HUMAN	V-set and transmembrane domain containing 1	169						integral to membrane					0	all_cancers(19;0.0128)|all_epithelial(19;0.00564)|all_lung(19;0.031)|Lung NSC(19;0.0358)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.165)		CCTCTTGGTGGATTCCTCAGA	0.502													36	104	---	---	---	---	PASS
NLRP13	126204	broad.mit.edu	37	19	56436016	56436016	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr19:56436016G>T	uc010ygg.1	-	3	422	c.397C>A	c.(397-399)CAG>AAG	p.Q133K		NM_176810	NP_789780	Q86W25	NAL13_HUMAN	NACHT, leucine rich repeat and PYD containing	133							ATP binding			skin(4)|ovary(3)|pancreas(1)|lung(1)	9		Colorectal(82;3.48e-05)|Ovarian(87;0.0481)|Renal(1328;0.218)		GBM - Glioblastoma multiforme(193;0.0642)		CCCTGGGTCTGCATATTCCCT	0.418													9	45	---	---	---	---	PASS
ZNF749	388567	broad.mit.edu	37	19	57956622	57956622	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr19:57956622G>T	uc002qoq.2	+	3	2360	c.2106G>T	c.(2104-2106)AGG>AGT	p.R702S	ZNF547_uc002qpm.3_Intron	NM_001023561	NP_001018855	O43361	ZN749_HUMAN	zinc finger protein 749	702	C2H2-type 18.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0264)|Lung(386;0.177)		GTAAATGTAGGGAATTGTTTA	0.393													6	66	---	---	---	---	PASS
ZNF329	79673	broad.mit.edu	37	19	58639458	58639458	+	Silent	SNP	G	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr19:58639458G>T	uc002qrn.2	-	4	1650	c.1413C>A	c.(1411-1413)ACC>ACA	p.T471T	ZNF329_uc010euk.1_RNA|ZNF329_uc002qro.1_RNA|ZNF329_uc002qrp.1_RNA	NM_024620	NP_078896	Q86UD4	ZN329_HUMAN	zinc finger protein 329	471	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Breast(46;0.029)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.017)|Lung(386;0.216)		TCTGGTGCTTGGTCAGACAGG	0.507													9	75	---	---	---	---	PASS
SLC4A11	83959	broad.mit.edu	37	20	3211213	3211213	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr20:3211213G>T	uc002wig.2	-	11	1459	c.1411C>A	c.(1411-1413)CTT>ATT	p.L471I	SLC4A11_uc010zqe.1_Missense_Mutation_p.L498I|SLC4A11_uc002wih.2_RNA|SLC4A11_uc010zqf.1_Missense_Mutation_p.L455I	NM_032034	NP_114423	Q8NBS3	S4A11_HUMAN	solute carrier family 4 member 11	471	Helical; (Potential).|Membrane (bicarbonate transporter).				cellular cation homeostasis|fluid transport|phosphoenolpyruvate-dependent sugar phosphotransferase system	basolateral plasma membrane|integral to membrane	bicarbonate transmembrane transporter activity|borate transmembrane transporter activity|hydrogen ion channel activity|inorganic anion exchanger activity|sodium channel activity|sugar:hydrogen symporter activity			ovary(1)	1						TAAAGCGCAAGGAAGAAACTA	0.542													6	136	---	---	---	---	PASS
RALGAPA2	57186	broad.mit.edu	37	20	20505105	20505105	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr20:20505105G>A	uc002wrz.2	-	30	3988	c.3845C>T	c.(3844-3846)GCA>GTA	p.A1282V	RALGAPA2_uc010gcx.2_Missense_Mutation_p.A986V|RALGAPA2_uc010zsg.1_Missense_Mutation_p.A730V|RALGAPA2_uc002wsa.1_Missense_Mutation_p.A54V	NM_020343	NP_065076	Q2PPJ7	RGPA2_HUMAN	akt substrate AS250	1282					activation of Ral GTPase activity	cytosol|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(1)	1						CTCTAGGACTGCTGTGGACAC	0.542													6	48	---	---	---	---	PASS
ZNF831	128611	broad.mit.edu	37	20	57829592	57829592	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr20:57829592A>T	uc002yan.2	+	5	4828	c.4828A>T	c.(4828-4830)AGT>TGT	p.S1610C		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	1610						intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					CTCTTTAGGAAGTGACGGTAG	0.498													10	56	---	---	---	---	PASS
PDGFB	5155	broad.mit.edu	37	22	39631864	39631864	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr22:39631864C>A	uc003axf.2	-	2	1068	c.79G>T	c.(79-81)GAG>TAG	p.E27*	PDGFB_uc003axe.2_Nonsense_Mutation_p.E12*	NM_002608	NP_002599	P01127	PDGFB_HUMAN	platelet-derived growth factor beta isoform 1	27					activation of protein kinase B activity|cellular response to mycophenolic acid|embryonic placenta development|heart development|hemopoiesis|metanephric glomerular mesangial cell development|monocyte chemotaxis|negative regulation of phosphatidylinositol biosynthetic process|negative regulation of platelet activation|negative regulation of transcription, DNA-dependent|paracrine signaling|peptidyl-serine phosphorylation|peptidyl-tyrosine phosphorylation|platelet activation|platelet degranulation|positive regulation of blood vessel endothelial cell migration|positive regulation of calcium ion import|positive regulation of cell division|positive regulation of chemotaxis|positive regulation of cyclin-dependent protein kinase activity|positive regulation of DNA biosynthetic process|positive regulation of DNA replication|positive regulation of endothelial cell proliferation|positive regulation of ERK1 and ERK2 cascade|positive regulation of fibroblast proliferation|positive regulation of glomerular filtration|positive regulation of glomerular mesangial cell proliferation|positive regulation of MAP kinase activity|positive regulation of metanephric mesenchymal cell migration by platelet-derived growth factor receptor-beta signaling pathway|positive regulation of mitosis|positive regulation of phosphatidylinositol 3-kinase activity|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein autophosphorylation|positive regulation of protein tyrosine kinase activity|positive regulation of reactive oxygen species metabolic process|positive regulation of smooth muscle cell migration|positive regulation of smooth muscle cell proliferation|positive regulation of transcription, DNA-dependent|reactive oxygen species metabolic process|transforming growth factor beta receptor signaling pathway	basolateral plasma membrane|cell surface|endoplasmic reticulum lumen|extracellular region|Golgi membrane|platelet alpha granule lumen	collagen binding|eukaryotic cell surface binding|growth factor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein heterodimerization activity|protein homodimerization activity|superoxide-generating NADPH oxidase activator activity		COL1A1/PDGFB(372)	soft_tissue(372)|central_nervous_system(1)	373	Melanoma(58;0.04)				Becaplermin(DB00102)	TAAAGCTCCTCGGGAATGGGG	0.607			T	COL1A1	DFSP								3	17	---	---	---	---	PASS
PMM1	5372	broad.mit.edu	37	22	41980049	41980049	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr22:41980049C>A	uc003bal.2	-	5	450	c.388G>T	c.(388-390)GAG>TAG	p.E130*		NM_002676	NP_002667	Q92871	PMM1_HUMAN	phosphomannomutase 1	130					dolichol-linked oligosaccharide biosynthetic process|GDP-mannose biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	cytosol	metal ion binding|phosphomannomutase activity			ovary(1)	1						TTCCGGAACTCGATGAAGGTT	0.577													4	57	---	---	---	---	PASS
TTLL12	23170	broad.mit.edu	37	22	43575988	43575988	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr22:43575988G>A	uc003bdq.2	-	4	597	c.565C>T	c.(565-567)CCG>TCG	p.P189S	TTLL12_uc003bdr.1_Missense_Mutation_p.P189S	NM_015140	NP_055955	Q14166	TTL12_HUMAN	tubulin tyrosine ligase-like family, member 12	189					protein modification process		tubulin-tyrosine ligase activity			central_nervous_system(1)	1		Ovarian(80;0.221)|Glioma(61;0.222)				TACCACACCGGCATCTTCTCC	0.612													12	111	---	---	---	---	PASS
PARVG	64098	broad.mit.edu	37	22	44583692	44583692	+	Nonsense_Mutation	SNP	G	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr22:44583692G>T	uc011aqe.1	+	5	605	c.181G>T	c.(181-183)GAG>TAG	p.E61*	PARVG_uc010gzo.2_3'UTR|PARVG_uc010gzp.2_RNA|PARVG_uc003bep.2_Nonsense_Mutation_p.E61*|PARVG_uc010gzr.1_RNA|PARVG_uc011aqf.1_Nonsense_Mutation_p.E61*|PARVG_uc003beq.2_RNA|PARVG_uc003ber.2_RNA	NM_001137605	NP_001131077	Q9HBI0	PARVG_HUMAN	parvin, gamma	61	CH 1.				cell-matrix adhesion	cytoplasm|cytoskeleton|focal adhesion	actin binding				0		Ovarian(80;0.024)|all_neural(38;0.0299)				TCTTCTCCCCGAGCACATTGT	0.502													4	41	---	---	---	---	PASS
PKDREJ	10343	broad.mit.edu	37	22	46652800	46652800	+	Silent	SNP	T	C	C			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr22:46652800T>C	uc003bhh.2	-	1	6420	c.6420A>G	c.(6418-6420)GAA>GAG	p.E2140E		NM_006071	NP_006062	Q9NTG1	PKDRE_HUMAN	receptor for egg jelly-like protein precursor	2140	Extracellular (Potential).				acrosome reaction|neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity			breast(3)|ovary(2)	5		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00459)		TATTGGAAAATTCAGTGTTCT	0.418													10	51	---	---	---	---	PASS
GTSE1	51512	broad.mit.edu	37	22	46712232	46712232	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr22:46712232G>T	uc011aqy.1	+	7	1567	c.1355G>T	c.(1354-1356)CGA>CTA	p.R452L	GTSE1_uc011aqz.1_Missense_Mutation_p.R299L|GTSE1_uc003bhl.1_Missense_Mutation_p.R77L|GTSE1_uc003bhm.1_Missense_Mutation_p.R77L	NM_016426	NP_057510	Q9NYZ3	GTSE1_HUMAN	G-2 and S-phase expressed 1	433					DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G2 phase of mitotic cell cycle|microtubule-based process	cytoplasmic microtubule				ovary(1)	1		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00462)		ATCAGACGGCGAGATTCCTGT	0.413													6	185	---	---	---	---	PASS
PIM3	415116	broad.mit.edu	37	22	50356382	50356382	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr22:50356382A>G	uc003bjb.2	+	5	1115	c.662A>G	c.(661-663)TAC>TGC	p.Y221C	PIM3_uc011arj.1_5'UTR	NM_001001852	NP_001001852	Q86V86	PIM3_HUMAN	serine/threonine protein kinase pim-3	221	Protein kinase.				cell cycle|negative regulation of apoptosis|regulation of mitotic cell cycle		ATP binding|protein binding|protein serine/threonine kinase activity				0		all_cancers(38;5.53e-07)|all_epithelial(38;3.84e-06)|all_lung(38;0.00208)|Breast(42;0.0104)|Lung NSC(38;0.0199)|Ovarian(80;0.0907)|Lung SC(80;0.236)		BRCA - Breast invasive adenocarcinoma(115;0.196)|LUAD - Lung adenocarcinoma(64;0.247)		TACCACCGCTACCACGGGCGC	0.652													7	26	---	---	---	---	PASS
IQSEC2	23096	broad.mit.edu	37	X	53279723	53279723	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chrX:53279723G>A	uc004dsd.2	-	5	2236	c.2035C>T	c.(2035-2037)CGG>TGG	p.R679W	IQSEC2_uc004dsc.2_Missense_Mutation_p.R474W	NM_001111125	NP_001104595	Q5JU85	IQEC2_HUMAN	IQ motif and Sec7 domain 2 isoform1	669					regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity			ovary(3)	3						CCCAACCTCCGACCCCCAGCC	0.433													8	8	---	---	---	---	PASS
TEX11	56159	broad.mit.edu	37	X	69898679	69898679	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chrX:69898679C>G	uc004dyl.2	-	16	1424	c.1262G>C	c.(1261-1263)TGG>TCG	p.W421S	TEX11_uc004dyk.2_Missense_Mutation_p.W96S|TEX11_uc004dym.2_Missense_Mutation_p.W406S	NM_001003811	NP_001003811	Q8IYF3	TEX11_HUMAN	testis expressed sequence 11 isoform 1	421							protein binding			ovary(3)|breast(1)|skin(1)	5	Renal(35;0.156)					AGCTTGTCTCCACAGAATGTT	0.343													4	14	---	---	---	---	PASS
TCEAL2	140597	broad.mit.edu	37	X	101381881	101381881	+	Nonsense_Mutation	SNP	G	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chrX:101381881G>T	uc004eip.2	+	3	298	c.79G>T	c.(79-81)GAG>TAG	p.E27*		NM_080390	NP_525129	Q9H3H9	TCAL2_HUMAN	transcription elongation factor A (SII)-like 2	27					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0						GCCACCGCACGAGGGAAAGCC	0.433													4	85	---	---	---	---	PASS
PLXNB3	5365	broad.mit.edu	37	X	153036446	153036446	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chrX:153036446G>T	uc004fii.2	+	12	2337	c.2163G>T	c.(2161-2163)TGG>TGT	p.W721C	PLXNB3_uc011mzb.1_Missense_Mutation_p.G177V|PLXNB3_uc011mzc.1_Missense_Mutation_p.W403C|PLXNB3_uc010nuk.2_Missense_Mutation_p.W744C|PLXNB3_uc011mzd.1_Missense_Mutation_p.W360C	NM_005393	NP_005384	Q9ULL4	PLXB3_HUMAN	plexin B3 isoform 1	721	Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	protein binding|receptor activity			lung(1)	1	all_hematologic(71;4.25e-06)|all_lung(58;3.83e-05)|Lung NSC(58;5.54e-05)|Acute lymphoblastic leukemia(192;6.56e-05)					TCCACTGCTGGCTGGAGCTGC	0.652													21	19	---	---	---	---	PASS
NFE2L3	9603	broad.mit.edu	37	7	26192226	26192228	+	In_Frame_Del	DEL	GCC	-	-			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr7:26192226_26192228delGCC	uc003sxq.2	+	1	380_382	c.108_110delGCC	c.(106-111)CTGCCG>CTG	p.P39del		NM_004289	NP_004280	Q9Y4A8	NF2L3_HUMAN	nuclear factor erythroid 2-like 3	39	Leu-rich.				transcription from RNA polymerase II promoter	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			skin(3)|ovary(1)	4						ACCTGCTGCTGCCGCCGCCCACC	0.724													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	132903768	132903768	+	RNA	DEL	A	-	-	rs11299315		TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr9:132903768delA	uc004bzh.1	-	2		c.2379delT								Homo sapiens cDNA FLJ46836 fis, clone UTERU2029660.																		actctgtcttaaaaaaaaaaa	0.204													4	2	---	---	---	---	
TP53	7157	broad.mit.edu	37	17	7578213	7578214	+	Frame_Shift_Del	DEL	AA	-	-			TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr17:7578213_7578214delAA	uc002gim.2	-	6	829_830	c.635_636delTT	c.(634-636)TTTfs	p.F212fs	TP53_uc002gig.1_Frame_Shift_Del_p.F212fs|TP53_uc002gih.2_Frame_Shift_Del_p.F212fs|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Frame_Shift_Del_p.F80fs|TP53_uc010cng.1_Frame_Shift_Del_p.F80fs|TP53_uc002gii.1_Frame_Shift_Del_p.F80fs|TP53_uc010cnh.1_Frame_Shift_Del_p.F212fs|TP53_uc010cni.1_Frame_Shift_Del_p.F212fs|TP53_uc002gij.2_Frame_Shift_Del_p.F212fs|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_Frame_Shift_Del_p.F119fs|TP53_uc002gio.2_Frame_Shift_Del_p.F80fs|TP53_uc010vug.1_Frame_Shift_Del_p.F173fs	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	212	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		F -> S (in sporadic cancers; somatic mutation).|F -> L (in sporadic cancers; somatic mutation).|F -> I (in sporadic cancers; somatic mutation).|F -> Y (in sporadic cancers; somatic mutation).|F -> V (in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.F212fs*3(7)|p.0?(7)|p.F212L(3)|p.F212S(2)|p.F212I(2)|p.D208fs*1(1)|p.T211_F212insX(1)|p.R209_R213delRNTFR(1)|p.D207_R213delDDRNTFR(1)|p.T211fs*28(1)|p.T211_S215delTFRHS(1)|p.K164_P219del(1)|p.D207_V216del10(1)|p.F212fs*4(1)|p.F212Y(1)|p.R209fs*6(1)|p.D208_V216delDRNTFRHSV(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		CACTATGTCGAAAAGTGTTTCT	0.535		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			29	13	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	47141196	47141197	+	RNA	INS	-	CTGT	CTGT	rs144076797	by1000genomes	TCGA-18-3407-01A-01D-0983-08	TCGA-18-3407-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	c5b09119-0237-4804-a4f9-b67d676b8674	09e5f5f4-5e35-4b88-a266-25649c08bb77	g.chr19:47141196_47141197insCTGT	uc002pez.1	-	1		c.1222_1223insACAG								Homo sapiens cDNA FLJ10148 fis, clone HEMBA1003370.																		GCCAACACAGACTGACACTCAC	0.426													3	4	---	---	---	---	
