Hugo_Symbol	Entrez_Gene_Id	Center	NCBI_Build	Chromosome	Start_position	End_position	Strand	Variant_Classification	Variant_Type	Reference_Allele	Tumor_Seq_Allele1	Tumor_Seq_Allele2	dbSNP_RS	dbSNP_Val_Status	Tumor_Sample_Barcode	Matched_Norm_Sample_Barcode	Match_Norm_Seq_Allele1	Match_Norm_Seq_Allele2	Tumor_Validation_Allele1	Tumor_Validation_Allele2	Match_Norm_Validation_Allele1	Match_Norm_Validation_Allele2	Verification_Status	Validation_Status	Mutation_Status	Sequencing_Phase	Sequence_Source	Validation_Method	Score	BAM_file	Sequencer	Tumor_Sample_UUID	Matched_Norm_Sample_UUID	Genome_Change	Annotation_Transcript	Transcript_Strand	Transcript_Exon	Transcript_Position	cDNA_Change	Codon_Change	Protein_Change	Other_Transcripts	Refseq_mRNA_Id	Refseq_prot_Id	SwissProt_acc_Id	SwissProt_entry_Id	Description	UniProt_AApos	UniProt_Region	UniProt_Site	UniProt_Natural_Variations	UniProt_Experimental_Info	GO_Biological_Process	GO_Cellular_Component	GO_Molecular_Function	COSMIC_overlapping_mutations	COSMIC_fusion_genes	COSMIC_tissue_types_affected	COSMIC_total_alterations_in_gene	Tumorscape_Amplification_Peaks	Tumorscape_Deletion_Peaks	TCGAscape_Amplification_Peaks	TCGAscape_Deletion_Peaks	DrugBank	ref_context	gc_content	CCLE_ONCOMAP_overlapping_mutations	CCLE_ONCOMAP_total_mutations_in_gene	CGC_Mutation_Type	CGC_Translocation_Partner	CGC_Tumor_Types_Somatic	CGC_Tumor_Types_Germline	CGC_Other_Diseases	DNARepairGenes_Role	FamilialCancerDatabase_Syndromes	MUTSIG_Published_Results	OREGANNO_ID	OREGANNO_Values	t_alt_count	t_ref_count	validation_status	validation_method	validation_tumor_sample	validation_alt_allele	pox	qox	pox_cutoff	isArtifactMode	oxoGCut
PLOD1	5351	broad.mit.edu	37	1	12024322	12024322	+	Silent	SNP	C	T	T			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr1:12024322C>T	uc001atm.2	+	12	1384	c.1293C>T	c.(1291-1293)TCC>TCT	p.S431S	PLOD1_uc010obb.1_Silent_p.S478S	NM_000302	NP_000293	Q02809	PLOD1_HUMAN	lysyl hydroxylase 1 precursor	431					epidermis development|hydroxylysine biosynthetic process|protein modification process|response to hypoxia	rough endoplasmic reticulum membrane	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-lysine 5-dioxygenase activity|protein homodimerization activity			ovary(2)|breast(1)	3	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.06e-06)|COAD - Colon adenocarcinoma(227;0.000273)|BRCA - Breast invasive adenocarcinoma(304;0.000311)|Kidney(185;0.000809)|KIRC - Kidney renal clear cell carcinoma(229;0.00267)|STAD - Stomach adenocarcinoma(313;0.00743)|READ - Rectum adenocarcinoma(331;0.0649)	Minoxidil(DB00350)|Succinic acid(DB00139)|Vitamin C(DB00126)	ATGCCCGTTCCGAGGACTACG	0.627000													8	213					0	0	0.038147	0	0
MST1P2	11209	broad.mit.edu	37	1	16975019	16975019	+	RNA	SNP	C	T	T			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr1:16975019C>T	uc010och.1	+	7		c.1479C>T			MST1P2_uc001azk.2_RNA|MST1P2_uc001azl.3_RNA|MST1P2_uc009vox.2_RNA|MST1P2_uc001azm.3_RNA	NR_027504				Homo sapiens cDNA FLJ43241 fis, clone HEART1000010, weakly  similar to Hepatocyte growth factor-like protein precursor.												0						CCCGCTCCCGCCTCGGTTCAC	0.617000													4	72					0	0	0.150653	0	0
ZNF683	257101	broad.mit.edu	37	1	26691676	26691676	+	Missense_Mutation	SNP	T	C	C			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr1:26691676T>C	uc001bmg.1	-	4	479	c.361A>G	c.(361-363)AAG>GAG	p.K121E	ZNF683_uc001bmh.1_Missense_Mutation_p.K121E|ZNF683_uc009vsj.1_Missense_Mutation_p.K121E	NM_173574	NP_775845	Q8IZ20	ZN683_HUMAN	zinc finger protein 683	121					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(24;2.39e-25)|Colorectal(325;3.46e-05)|all_lung(284;5.94e-05)|Lung NSC(340;7.26e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.00637)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;1.76e-26)|Colorectal(126;1.38e-08)|COAD - Colon adenocarcinoma(152;9.31e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.000751)|BRCA - Breast invasive adenocarcinoma(304;0.00099)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.00793)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.159)|LUSC - Lung squamous cell carcinoma(448;0.233)		GTGAATTTCTTGTCATCGGTG	0.577000													4	9					0	0	0.184627	0	0
ZNF642	339559	broad.mit.edu	37	1	40960602	40960602	+	Missense_Mutation	SNP	G	C	C			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr1:40960602G>C	uc001cfo.2	+	6	746	c.452G>C	c.(451-453)AGT>ACT	p.S151T	ZNF642_uc009vwb.2_Missense_Mutation_p.S151T|ZNF642_uc010ojk.1_Missense_Mutation_p.S152T	NM_198494	NP_940896	Q49AA0	ZN642_HUMAN	zinc finger protein 642	151					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;8.81e-19)			GACTTGAAGAGTAAAATAGAA	0.333000													3	81					0	0	0.115264	0	0
C8A	731	broad.mit.edu	37	1	57378109	57378109	+	Missense_Mutation	SNP	A	T	T			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr1:57378109A>T	uc001cyo.2	+	10	1546	c.1414A>T	c.(1414-1416)AGC>TGC	p.S472C		NM_000562	NP_000553	P07357	CO8A_HUMAN	complement component 8, alpha polypeptide	472	MACPF.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis	extracellular space|membrane attack complex				ovary(1)|central_nervous_system(1)|skin(1)	3						GCGGCACACAAGCCTGGGGCC	0.602000													36	70					0	0	0.214465	0	0
RPF1	80135	broad.mit.edu	37	1	84961976	84961976	+	Missense_Mutation	SNP	C	T	T			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr1:84961976C>T	uc001djv.3	+	8	976	c.931C>T	c.(931-933)CGT>TGT	p.R311C		NM_025065	NP_079341	Q9H9Y2	RPF1_HUMAN	RNA processing factor 1	311	RNA-binding (By similarity).|Brix.				rRNA processing|translation	nucleolus	aminoacyl-tRNA ligase activity|ATP binding|rRNA binding				0						ACTTGGACCACGTTTTACCTT	0.328000													34	40					0	0	0.163468	0	0
FLG2	388698	broad.mit.edu	37	1	152327811	152327811	+	Silent	SNP	G	A	A			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr1:152327811G>A	uc001ezw.3	-	3	2524	c.2451C>T	c.(2449-2451)TCC>TCT	p.S817S	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	817	Ser-rich.						calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CAAAGCCAGCGGACTGACCTG	0.522000													197	364					0	0	0.139131	0	0
ATP1A2	477	broad.mit.edu	37	1	160099056	160099056	+	Missense_Mutation	SNP	C	T	T			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr1:160099056C>T	uc001fvc.2	+	11	1459	c.1327C>T	c.(1327-1329)CGG>TGG	p.R443W	ATP1A2_uc001fvb.2_Missense_Mutation_p.R443W|ATP1A2_uc001fvd.2_Missense_Mutation_p.R179W|ATP1A2_uc009wtg.1_Missense_Mutation_p.R131W	NM_000702	NP_000693	P50993	AT1A2_HUMAN	Na+/K+ -ATPase alpha 2 subunit proprotein	443	Cytoplasmic (Potential).				ATP biosynthetic process		ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			central_nervous_system(3)|ovary(2)|skin(2)	7	all_cancers(52;1.11e-16)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)|LUSC - Lung squamous cell carcinoma(543;0.246)			CTTCTGGCAGCGGGACACAGC	0.557000													84	163					0	0	0.139131	0	0
FASLG	356	broad.mit.edu	37	1	172628551	172628551	+	Silent	SNP	C	A	A			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr1:172628551C>A	uc001gis.2	+	1	367	c.210C>A	c.(208-210)CCC>CCA	p.P70P	FASLG_uc001git.2_Silent_p.P70P	NM_000639	NP_000630	P48023	TNFL6_HUMAN	fas ligand	70	Pro-rich.|Cytoplasmic (Potential).				activation of caspase activity|activation of pro-apoptotic gene products|cell-cell signaling|immune response|induction of necroptosis by extracellular signals|induction of necroptosis of activated-T cells|necrotic cell death|negative regulation of angiogenesis|positive regulation of I-kappaB kinase/NF-kappaB cascade|signal transduction	extracellular space|integral to plasma membrane	cytokine activity			lung(2)|breast(1)	3						cgctgccaccCCTGAAGAAGA	0.333000													9	20					3.86212e-05	3.95335e-05	0.069234	1	0
MIA3	375056	broad.mit.edu	37	1	222835662	222835662	+	Silent	SNP	C	T	T			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr1:222835662C>T	uc001hnl.2	+	26	5259	c.5250C>T	c.(5248-5250)CTC>CTT	p.L1750L	MIA3_uc001hnm.2_Silent_p.L628L	NM_198551	NP_940953	Q5JRA6	MIA3_HUMAN	melanoma inhibitory activity family, member 3	1750	Pro-rich.|Cytoplasmic (Potential).				exocytosis|negative regulation of cell adhesion|negative regulation of cell migration|positive regulation of leukocyte migration|protein transport|wound healing	endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(4)|central_nervous_system(1)	5				GBM - Glioblastoma multiforme(131;0.0199)		CCAGGGTACTCGATGAAGGCA	0.423000													3	117					0	0	0.115264	0	0
OR2G6	391211	broad.mit.edu	37	1	248685544	248685544	+	Silent	SNP	C	T	T			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr1:248685544C>T	uc001ien.1	+	1	597	c.597C>T	c.(595-597)CTC>CTT	p.L199L		NM_001013355	NP_001013373	Q5TZ20	OR2G6_HUMAN	olfactory receptor, family 2, subfamily G,	199	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0156)	OV - Ovarian serous cystadenocarcinoma(106;0.0265)			AGGCAGAACTCTTTGTGGCCA	0.473000													29	70					0	0	0.125774	0	0
PTEN	5728	broad.mit.edu	37	10	89624301	89624301	+	Missense_Mutation	SNP	G	T	T			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr10:89624301G>T	uc001kfb.2	+	2	1106	c.75G>T	c.(73-75)TTG>TTT	p.L25F	KILLIN_uc009xti.2_5'Flank	NM_000314	NP_000305	P60484	PTEN_HUMAN	phosphatase and tensin homolog	25	Phosphatase tensin-type.				activation of mitotic anaphase-promoting complex activity|apoptosis|canonical Wnt receptor signaling pathway|cell proliferation|central nervous system development|induction of apoptosis|inositol phosphate dephosphorylation|negative regulation of cell migration|negative regulation of cyclin-dependent protein kinase activity involved in G1/S|negative regulation of focal adhesion assembly|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of protein kinase B signaling cascade|negative regulation of protein phosphorylation|nerve growth factor receptor signaling pathway|phosphatidylinositol dephosphorylation|phosphatidylinositol-mediated signaling|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|protein stabilization|regulation of neuron projection development|T cell receptor signaling pathway	cytosol|internal side of plasma membrane|PML body	anaphase-promoting complex binding|enzyme binding|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity|lipid binding|magnesium ion binding|PDZ domain binding|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity	p.?(13)|p.0?(12)|p.L25F(2)|p.D24_L25del(1)|p.L25fs*28(1)		endometrium(831)|central_nervous_system(657)|skin(121)|haematopoietic_and_lymphoid_tissue(101)|large_intestine(99)|prostate(97)|breast(73)|lung(65)|ovary(58)|thyroid(29)|stomach(29)|upper_aerodigestive_tract(25)|cervix(24)|liver(20)|vulva(17)|kidney(15)|NS(14)|soft_tissue(13)|urinary_tract(12)|eye(8)|pancreas(6)|salivary_gland(5)|bone(5)|biliary_tract(4)|autonomic_ganglia(2)|meninges(2)|testis(1)|oesophagus(1)	2334		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)		ACTTAGACTTGACCTGTATCC	0.458000		31	D|Mis|N|F|S		glioma| prostate|endometrial	harmartoma|glioma| prostate|endometrial			Proteus_syndrome|Cowden_syndrome|Juvenile_Polyposis|Hereditary_Mixed_Polyposis_Syndrome_type_1|Bannayan-Riley-Ruvalcaba_syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)			38	28					1.30015e-28	1.4085e-28	0.214465	1	0
DMBT1	1755	broad.mit.edu	37	10	124345695	124345695	+	Missense_Mutation	SNP	G	A	A			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr10:124345695G>A	uc001lgk.1	+	16	1685	c.1579G>A	c.(1579-1581)GAT>AAT	p.D527N	DMBT1_uc001lgl.1_Missense_Mutation_p.D517N|DMBT1_uc001lgm.1_Intron|DMBT1_uc009xzz.1_Missense_Mutation_p.D527N|DMBT1_uc010qtx.1_Intron|DMBT1_uc009yaa.1_Intron	NM_007329	NP_015568	Q9UGM3	DMBT1_HUMAN	deleted in malignant brain tumors 1 isoform b	527	SRCR 4.				epithelial cell differentiation|induction of bacterial agglutination|innate immune response|interspecies interaction between organisms|protein transport|response to virus	extrinsic to membrane|phagocytic vesicle membrane|zymogen granule membrane	calcium-dependent protein binding|Gram-negative bacterial cell surface binding|Gram-positive bacterial cell surface binding|pattern recognition receptor activity|scavenger receptor activity|zymogen binding			central_nervous_system(7)	7		all_neural(114;0.0765)|Lung NSC(174;0.132)|all_lung(145;0.163)|Breast(234;0.238)				GGACACCAATGATGCCAATGT	0.612000													6	323					0	0	0.021553	0	0
MUC6	4588	broad.mit.edu	37	11	1026378	1026378	+	Missense_Mutation	SNP	G	A	A			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr11:1026378G>A	uc001lsw.2	-	20	2546	c.2495C>T	c.(2494-2496)TCG>TTG	p.S832L		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	832					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)		GGAGACCCCCGAGAACTCACA	0.652000													17	22					0	0	0.146539	0	0
ST3GAL4	6484	broad.mit.edu	37	11	126278294	126278294	+	Missense_Mutation	SNP	C	G	G			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr11:126278294C>G	uc001qds.2	+	8	749	c.530C>G	c.(529-531)CCC>CGC	p.P177R	ST3GAL4_uc001qdt.2_Missense_Mutation_p.P173R|ST3GAL4_uc009zcc.2_Missense_Mutation_p.P13R|ST3GAL4_uc009zcd.2_Missense_Mutation_p.P166R|ST3GAL4_uc001qdu.2_Missense_Mutation_p.P173R|ST3GAL4_uc001qdv.2_Missense_Mutation_p.P177R|ST3GAL4_uc009zce.2_Missense_Mutation_p.P173R|ST3GAL4_uc001qdw.2_Missense_Mutation_p.P166R|ST3GAL4_uc001qdx.1_Missense_Mutation_p.P134R|ST3GAL4_uc001qdy.2_Missense_Mutation_p.P13R|ST3GAL4_uc001qdz.2_Missense_Mutation_p.P13R	NM_006278	NP_006269	Q11206	SIA4C_HUMAN	ST3 beta-galactoside alpha-2,3-sialyltransferase	177	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	extracellular region|Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,3-sialyltransferase activity				0	all_hematologic(175;0.145)	Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.0739)|all_lung(97;0.0798)|all_neural(223;0.138)		BRCA - Breast invasive adenocarcinoma(274;1.13e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0767)		CACTTCGACCCCAAAGTAGAA	0.532000													3	91					0	0	0.150653	0	0
CACNA2D4	93589	broad.mit.edu	37	12	1995491	1995491	+	Silent	SNP	G	A	A			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr12:1995491G>A	uc001qjp.2	-	8	1122	c.891C>T	c.(889-891)GAC>GAT	p.D297D	CACNA2D4_uc009zds.1_RNA|CACNA2D4_uc009zdt.1_Intron	NM_172364	NP_758952	Q7Z3S7	CA2D4_HUMAN	voltage-gated calcium channel alpha(2)delta-4	297	VWFA.|MIDAS-like motif.|Extracellular (Potential).	Divalent metal cation (By similarity).				integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			ovary(1)	1	Ovarian(42;0.107)	Myeloproliferative disorder(1001;0.206)	OV - Ovarian serous cystadenocarcinoma(31;0.00113)	Kidney(2;0.0205)|KIRC - Kidney renal clear cell carcinoma(2;0.0451)		TGCCGCTCACGTCCACCAAAA	0.488000													28	41					0	0	0.125774	0	0
DIP2B	57609	broad.mit.edu	37	12	51086786	51086786	+	Missense_Mutation	SNP	G	A	A			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr12:51086786G>A	uc001rwv.2	+	14	1865	c.1709G>A	c.(1708-1710)GGC>GAC	p.G570D	DIP2B_uc009zlt.2_5'UTR	NM_173602	NP_775873	Q9P265	DIP2B_HUMAN	DIP2 disco-interacting protein 2 homolog B	570						nucleus	catalytic activity|transcription factor binding			ovary(4)|breast(1)|pancreas(1)	6						CTGTGGCACGGCATGTTTGCG	0.388000													3	64					0	0	0.150653	0	0
TRHDE	29953	broad.mit.edu	37	12	72893328	72893328	+	Silent	SNP	C	T	T			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr12:72893328C>T	uc001sxa.2	+	6	1530	c.1500C>T	c.(1498-1500)GAC>GAT	p.D500D		NM_013381	NP_037513	Q9UKU6	TRHDE_HUMAN	thyrotropin-releasing hormone degrading enzyme	500	Extracellular (Potential).				cell-cell signaling|proteolysis|signal transduction	integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding	p.D500D(1)		ovary(2)|skin(1)	3						TGCTGCTGGACGGTTTGGCCA	0.458000													34	50					0	0	0.173368	0	0
CRY1	1407	broad.mit.edu	37	12	107393851	107393851	+	Missense_Mutation	SNP	C	T	T			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr12:107393851C>T	uc001tmi.3	-	6	1553	c.694G>A	c.(694-696)GCA>ACA	p.A232T		NM_004075	NP_004066	Q16526	CRY1_HUMAN	cryptochrome 1 (photolyase-like)	232	FAD-binding.				DNA repair|protein-chromophore linkage|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	blue light photoreceptor activity|DNA photolyase activity|double-stranded DNA binding|nucleotide binding|protein binding			ovary(3)	3						TCAAAATTTGCCACCCAAGCC	0.348000													4	75					0	0	0.184627	0	0
WSCD2	9671	broad.mit.edu	37	12	108589925	108589925	+	Missense_Mutation	SNP	G	A	A			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr12:108589925G>A	uc001tms.2	+	2	1060	c.316G>A	c.(316-318)GAC>AAC	p.D106N	WSCD2_uc001tmt.2_Missense_Mutation_p.D106N	NM_014653	NP_055468	Q2TBF2	WSCD2_HUMAN	WSC domain containing 2	106						integral to membrane				ovary(1)|large_intestine(1)|breast(1)	3						CAAGCTTGGCGACTACGGTGG	0.607000													31	54					0	0	0.144211	0	0
CUX2	23316	broad.mit.edu	37	12	111729243	111729243	+	Missense_Mutation	SNP	C	T	T			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr12:111729243C>T	uc001tsa.1	+	5	476	c.323C>T	c.(322-324)GCG>GTG	p.A108V	CUX2_uc001tsb.1_Missense_Mutation_p.A163V	NM_015267	NP_056082	O14529	CUX2_HUMAN	cut-like 2	108						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)|breast(1)	6						GTGTTTGAGGCGGCACGCAGC	0.652000													47	90					0	0	0.139131	0	0
FARP1	10160	broad.mit.edu	37	13	99083337	99083337	+	Missense_Mutation	SNP	A	G	G			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr13:99083337A>G	uc001vnj.2	+	18	2282	c.1946A>G	c.(1945-1947)GAG>GGG	p.E649G	FARP1_uc001vnh.2_Missense_Mutation_p.E649G	NM_005766	NP_005757	Q9Y4F1	FARP1_HUMAN	FERM, RhoGEF, and pleckstrin domain protein 1	649	DH.				regulation of Rho protein signal transduction	cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|Rho guanyl-nucleotide exchange factor activity			breast(2)	2	all_neural(89;0.0982)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.233)			GAGGCCTTGGAGGCCCTGGAG	0.582000													3	73					0	0	0.115264	0	0
ADCY4	196883	broad.mit.edu	37	14	24793338	24793338	+	Missense_Mutation	SNP	C	T	T			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr14:24793338C>T	uc001wov.2	-	16	1982	c.1976G>A	c.(1975-1977)CGA>CAA	p.R659Q	ADCY4_uc001wow.2_Missense_Mutation_p.R659Q|ADCY4_uc010toh.1_Missense_Mutation_p.R345Q|ADCY4_uc001wox.2_Missense_Mutation_p.R659Q|ADCY4_uc001woy.2_Missense_Mutation_p.R659Q	NM_139247	NP_640340	Q8NFM4	ADCY4_HUMAN	adenylate cyclase 4	659					activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding|protein binding			ovary(1)|lung(1)|pancreas(1)	3				GBM - Glioblastoma multiforme(265;0.0192)		CAGTCCTGGTCGTGTGGCCAC	0.622000													18	46					0	0	0.189662	0	0
ADAM6	8755	broad.mit.edu	37	14	106320535	106320535	+	RNA	SNP	G	A	A			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr14:106320535G>A	uc010tyt.1	-	3601		c.56439C>T			uc001yrs.2_Intron|uc001yrt.2_Intron|uc001yrw.1_Intron|uc001yrx.1_Intron|uc001yrz.1_Intron|uc001yse.2_Intron|uc001ysf.2_Intron|uc001ysj.2_Intron|uc001ysk.1_Intron|uc001ysl.1_Intron|uc001ysm.1_Intron|uc001ysn.1_Intron|uc001yso.1_Intron					Parts of antibodies, mostly variable regions.												0						CGGTCCTCTCGGTGACCCTGT	0.622000													46	71					0	0	0.139131	0	0
PML	5371	broad.mit.edu	37	15	74315324	74315324	+	Missense_Mutation	SNP	C	A	A			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr15:74315324C>A	uc002awv.2	+	3	898	c.758C>A	c.(757-759)GCC>GAC	p.A253D	PML_uc002awm.2_Missense_Mutation_p.A253D|PML_uc002awl.2_Missense_Mutation_p.A253D|PML_uc002awj.1_Missense_Mutation_p.A253D|PML_uc002awk.2_Missense_Mutation_p.A253D|PML_uc002awn.2_Missense_Mutation_p.A253D|PML_uc002awo.2_Missense_Mutation_p.A253D|PML_uc002awp.2_Missense_Mutation_p.A253D|PML_uc002awq.2_Missense_Mutation_p.A253D|PML_uc002awr.2_Missense_Mutation_p.A253D|PML_uc002aws.2_Missense_Mutation_p.A253D|PML_uc002awt.2_Missense_Mutation_p.A253D|PML_uc002awu.2_Missense_Mutation_p.A253D|PML_uc010ule.1_Intron|PML_uc002aww.1_Missense_Mutation_p.A168D|PML_uc002awx.2_Missense_Mutation_p.A11D|PML_uc002awy.2_5'Flank	NM_033238	NP_150241	P29590	PML_HUMAN	promyelocytic leukemia protein isoform 1	253	Potential.				cell cycle arrest|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 resulting in induction of apoptosis|endoplasmic reticulum calcium ion homeostasis|induction of apoptosis|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|maintenance of protein location in nucleus|negative regulation of angiogenesis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of mitotic cell cycle|negative regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|negative regulation of telomerase activity|negative regulation of telomere maintenance via telomerase|negative regulation of transcription, DNA-dependent|negative regulation of translation in response to oxidative stress|PML body organization|PML body organization|positive regulation of defense response to virus by host|positive regulation of histone deacetylation|protein complex assembly|protein stabilization|protein targeting|regulation of calcium ion transport into cytosol|regulation of protein phosphorylation|response to hypoxia|response to virus|transcription, DNA-dependent	cytoplasm|cytosol|early endosome membrane|extrinsic to endoplasmic reticulum membrane|insoluble fraction|nuclear matrix|nuclear membrane|nucleolus|nucleus|PML body	cobalt ion binding|DNA binding|protein binding|protein binding|protein heterodimerization activity|protein homodimerization activity|SUMO binding|transcription coactivator activity|ubiquitin protein ligase binding|zinc ion binding|zinc ion binding			central_nervous_system(2)|kidney(2)|breast(1)	5						CAGGATAGTGCCTTTGGCGCG	0.687000			T	RARA|PAX5	APL|ALL								13	20					4.3838e-07	4.55915e-07	0.105934	1	0
CYP1A2	1544	broad.mit.edu	37	15	75042332	75042332	+	Missense_Mutation	SNP	G	A	A			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr15:75042332G>A	uc002ayr.1	+	2	317	c.253G>A	c.(253-255)GTG>ATG	p.V85M		NM_000761	NP_000752	P05177	CP1A2_HUMAN	cytochrome P450, family 1, subfamily A,	85					alkaloid metabolic process|exogenous drug catabolic process|methylation|monocarboxylic acid metabolic process|monoterpenoid metabolic process|oxidative deethylation|oxidative demethylation|steroid catabolic process|toxin biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|caffeine oxidase activity|demethylase activity|electron carrier activity|enzyme binding|heme binding|oxygen binding			ovary(3)|breast(1)	4					Acenocoumarol(DB01418)|Acetaminophen(DB00316)|Aciclovir(DB00787)|Alosetron(DB00969)|Aminophenazone(DB01424)|Amitriptyline(DB00321)|Anagrelide(DB00261)|Azelastine(DB00972)|Bortezomib(DB00188)|Caffeine(DB00201)|Carmustine(DB00262)|Chlordiazepoxide(DB00475)|Chlorpromazine(DB00477)|Chlorzoxazone(DB00356)|Cimetidine(DB00501)|Cinacalcet(DB01012)|Ciprofloxacin(DB00537)|Clomipramine(DB01242)|Clotrimazole(DB00257)|Clozapine(DB00363)|Conjugated Estrogens(DB00286)|Cyclobenzaprine(DB00924)|Dacarbazine(DB00851)|Desloratadine(DB00967)|Diazepam(DB00829)|Dibucaine(DB00527)|Diclofenac(DB00586)|Duloxetine(DB00476)|Enoxacin(DB00467)|Esomeprazole(DB00736)|Estradiol(DB00783)|Estrone(DB00655)|Fluorouracil(DB00544)|Flutamide(DB00499)|Fluvoxamine(DB00176)|Frovatriptan(DB00998)|Grepafloxacin(DB00365)|Haloperidol(DB00502)|Hesperetin(DB01094)|Imipramine(DB00458)|Ketoconazole(DB01026)|Leflunomide(DB01097)|Levobupivacaine(DB01002)|Levofloxacin(DB01137)|Lidocaine(DB00281)|Lomefloxacin(DB00978)|Melatonin(DB01065)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mirtazapine(DB00370)|Norfloxacin(DB01059)|Nortriptyline(DB00540)|Ofloxacin(DB01165)|Olanzapine(DB00334)|Ondansetron(DB00904)|Palonosetron(DB00377)|Pantoprazole(DB00213)|Pefloxacin(DB00487)|Pimozide(DB01100)|Propafenone(DB01182)|Propranolol(DB00571)|Quinidine(DB00908)|Ramelteon(DB00980)|Ranitidine(DB00863)|Rasagiline(DB01367)|Rifampin(DB01045)|Riluzole(DB00740)|Rofecoxib(DB00533)|Ropinirole(DB00268)|Ropivacaine(DB00296)|Tacrine(DB00382)|Telithromycin(DB00976)|Terfenadine(DB00342)|Theophylline(DB00277)|Thiabendazole(DB00730)|Tizanidine(DB00697)|Tolbutamide(DB01124)|Verapamil(DB00661)|Warfarin(DB00682)|Zileuton(DB00744)|Zolmitriptan(DB00315)	CTCCACGCCCGTGCTGGTGCT	0.667000													30	57					0	0	0.116897	0	0
IREB2	3658	broad.mit.edu	37	15	78778046	78778046	+	Splice_Site	SNP	G	A	A			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr15:78778046G>A	uc002bdr.2	+	13	1736	c.1574_splice	c.e13-1	p.G525_splice	IREB2_uc010unb.1_Splice_Site_p.G275_splice	NM_004136	NP_004127	P48200	IREB2_HUMAN	iron-responsive element binding protein 2								4 iron, 4 sulfur cluster binding|metal ion binding|protein binding				0				UCEC - Uterine corpus endometrioid carcinoma (272;0.232)		TGGCTGTGCAGGTCTTTTGGC	0.363000													3	150					0	0	0.150653	0	0
ASB7	140460	broad.mit.edu	37	15	101170214	101170214	+	Nonsense_Mutation	SNP	C	T	T			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr15:101170214C>T	uc002bwk.2	+	5	1553	c.784C>T	c.(784-786)CGA>TGA	p.R262*	ASB7_uc002bwj.2_Nonsense_Mutation_p.R262*	NM_198243	NP_937886	Q9H672	ASB7_HUMAN	ankyrin repeat and SOCS box-containing protein 7	262					intracellular signal transduction					skin(1)	1	Lung NSC(78;0.00121)|all_lung(78;0.00152)|Melanoma(26;0.00852)		OV - Ovarian serous cystadenocarcinoma(32;0.00168)|LUSC - Lung squamous cell carcinoma(107;0.0766)|Lung(145;0.103)			TGGAAGTAGTCGACCATGTTT	0.358000													30	46					0	0	0.125774	0	0
IFT140	9742	broad.mit.edu	37	16	1568282	1568282	+	Missense_Mutation	SNP	T	C	C			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr16:1568282T>C	uc002cmb.2	-	30	4479	c.4117A>G	c.(4117-4119)ATC>GTC	p.I1373V	IFT140_uc002clz.2_Missense_Mutation_p.I986V	NM_014714	NP_055529	Q96RY7	IF140_HUMAN	intraflagellar transport 140	1373										ovary(3)|pancreas(1)|skin(1)	5		Hepatocellular(780;0.219)				CCGATGCGGATGGTGCTGTCC	0.602000													20	37					0	0	0.189662	0	0
MYH11	4629	broad.mit.edu	37	16	15820786	15820786	+	Silent	SNP	C	T	T			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr16:15820786C>T	uc002ddy.2	-	28	3884	c.3777G>A	c.(3775-3777)GCG>GCA	p.A1259A	MYH11_uc002ddv.2_Silent_p.A1266A|MYH11_uc002ddw.2_Silent_p.A1259A|MYH11_uc002ddx.2_Silent_p.A1266A|MYH11_uc010bvg.2_Silent_p.A1091A|MYH11_uc010bvh.2_5'Flank	NM_002474	NP_002465	P35749	MYH11_HUMAN	smooth muscle myosin heavy chain 11 isoform	1259	Potential.		Missing (in AAT4).		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						CCTGCACCTGCGCCTCCAGCT	0.642000			T	CBFB	AML								110	202					0	0	0.139131	0	0
DNAH3	55567	broad.mit.edu	37	16	21049263	21049263	+	Silent	SNP	C	T	T			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr16:21049263C>T	uc010vbe.1	-	34	4770	c.4770G>A	c.(4768-4770)TCG>TCA	p.S1590S		NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	1590	AAA 1 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		ACAGTTGTTCCGAGCACAGGC	0.547000													16	29					0	0	0.146539	0	0
HIRIP3	8479	broad.mit.edu	37	16	30006762	30006762	+	Missense_Mutation	SNP	G	A	A			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr16:30006762G>A	uc002dve.2	-	2	549	c.88C>T	c.(88-90)CGG>TGG	p.R30W	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|INO80E_uc002dvg.1_5'Flank|INO80E_uc002dvh.1_5'Flank|INO80E_uc002dvi.1_5'Flank|INO80E_uc002dvj.1_5'Flank|INO80E_uc002dvk.1_5'Flank|HIRIP3_uc002dvf.2_Missense_Mutation_p.R30W	NM_003609	NP_003600	Q9BW71	HIRP3_HUMAN	HIRA interacting protein 3	30					chromatin assembly or disassembly	nucleus	protein binding			central_nervous_system(1)	1						TACCTCCGCCGCACGATGGAA	0.652000													3	85					0	0	0.150653	0	0
AMFR	267	broad.mit.edu	37	16	56396893	56396893	+	Silent	SNP	G	A	A			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr16:56396893G>A	uc002eiy.2	-	14	2065	c.1860C>T	c.(1858-1860)GAC>GAT	p.D620D	AMFR_uc002eiw.2_RNA|AMFR_uc002eix.2_Silent_p.D254D	NM_001144	NP_001135	Q9UKV5	AMFR2_HUMAN	autocrine motility factor receptor	620					endoplasmic reticulum unfolded protein response|ER-associated protein catabolic process|protein oligomerization|protein polyubiquitination	integral to endoplasmic reticulum membrane|integral to membrane of membrane fraction	protein binding|protein binding|receptor activity|ubiquitin-protein ligase activity|zinc ion binding			breast(2)	2						GGGTCACGGGGTCAGAGGACG	0.567000													29	16					0	0	0.144211	0	0
MYH13	8735	broad.mit.edu	37	17	10223518	10223518	+	Silent	SNP	G	A	A			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr17:10223518G>A	uc002gmk.1	-	26	3390	c.3300C>T	c.(3298-3300)GAC>GAT	p.D1100D	MYH13_uc010vve.1_3'UTR	NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	1100	Potential.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						GGACTTGTTCGTCATCTATTT	0.388000													6	11					0	0	0.029380	0	0
MYH13	8735	broad.mit.edu	37	17	10258008	10258008	+	Silent	SNP	G	A	A			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr17:10258008G>A	uc002gmk.1	-	11	1084	c.994C>T	c.(994-996)CTG>TTG	p.L332L		NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	332	Myosin head-like.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						TCTGTCGCCAGCAGTTCTTCA	0.463000													18	51					0	0	0.189662	0	0
KRT16	3868	broad.mit.edu	37	17	39768742	39768742	+	Missense_Mutation	SNP	C	T	T	rs62066634	byFrequency	TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr17:39768742C>T	uc002hxg.3	-	1	338	c.199G>A	c.(199-201)GGC>AGC	p.G67S	JUP_uc010wfs.1_Intron	NM_005557	NP_005548	P08779	K1C16_HUMAN	keratin 16	67	Head.				cell proliferation|epidermis development	intermediate filament	protein binding|structural constituent of cytoskeleton			skin(1)	1		Breast(137;0.000307)				CCGCCATAGCCGCCCCCCAGC	0.483000													5	14					0	0	0.184627	0	0
ARHGAP28	79822	broad.mit.edu	37	18	6873483	6873483	+	Missense_Mutation	SNP	C	T	T			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr18:6873483C>T	uc010wzi.1	+	7	737	c.499C>T	c.(499-501)CGC>TGC	p.R167C	ARHGAP28_uc002knc.2_Missense_Mutation_p.R292C|ARHGAP28_uc002knd.2_Missense_Mutation_p.R185C|ARHGAP28_uc002kne.2_Missense_Mutation_p.R185C|ARHGAP28_uc002knf.2_Missense_Mutation_p.R176C			B4DXL2	B4DXL2_HUMAN	SubName: Full=Putative uncharacterized protein ARHGAP28;	167					signal transduction	intracellular				pancreas(1)	1		Colorectal(10;0.168)				GAAGAAAATCCGCCATCTCTC	0.368000													3	94					0	0	0.150653	0	0
GATA6	2627	broad.mit.edu	37	18	19751314	19751314	+	Missense_Mutation	SNP	C	A	A			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr18:19751314C>A	uc002ktt.1	+	2	474	c.209C>A	c.(208-210)GCG>GAG	p.A70E	GATA6_uc002ktu.1_Missense_Mutation_p.A70E	NM_005257	NP_005248	Q92908	GATA6_HUMAN	GATA binding protein 6	70					blood coagulation|cardiac vascular smooth muscle cell differentiation|cellular response to hypoxia|intestinal epithelial cell differentiation|male gonad development|negative regulation of apoptosis|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor-beta1 production|negative regulation of transforming growth factor-beta2 production|outflow tract septum morphogenesis|positive regulation of angiogenesis|positive regulation of cell cycle arrest|positive regulation of transcription from RNA polymerase II promoter|response to drug|response to growth factor stimulus		protein binding|protein kinase binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			central_nervous_system(3)	3	all_cancers(21;0.00271)|all_epithelial(16;7.31e-05)|Ovarian(2;0.116)|Lung NSC(20;0.123)|all_lung(20;0.246)		STAD - Stomach adenocarcinoma(5;0.106)			ACGGAGGCGGCGGCCGGACCC	0.761000													6	17					5.9392e-07	6.12775e-07	0.021553	1	0
MKNK2	2872	broad.mit.edu	37	19	2043519	2043519	+	Silent	SNP	G	A	A			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr19:2043519G>A	uc002lus.2	-	6	647	c.402C>T	c.(400-402)TAC>TAT	p.Y134Y	MKNK2_uc002luq.1_5'Flank|MKNK2_uc010xgu.1_5'UTR|MKNK2_uc010xgv.1_Silent_p.Y3Y|MKNK2_uc002lur.2_Silent_p.Y134Y|MKNK2_uc002lut.1_5'Flank	NM_199054	NP_951009	Q9HBH9	MKNK2_HUMAN	MAP kinase-interacting serine/threonine kinase 2	134	Protein kinase.				cell surface receptor linked signaling pathway|intracellular protein kinase cascade|regulation of translation		ATP binding|metal ion binding|protein serine/threonine kinase activity			lung(1)|breast(1)	2		Ovarian(11;2.11e-07)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCTGGCACTGGTACAGCATCT	0.587000													19	59					0	0	0.055883	0	0
RNASEH2A	10535	broad.mit.edu	37	19	12920991	12920991	+	Missense_Mutation	SNP	C	T	T			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr19:12920991C>T	uc002mvg.1	+	5	578	c.518C>T	c.(517-519)CCG>CTG	p.P173L	RNASEH2A_uc002mvf.1_Missense_Mutation_p.P91L	NM_006397	NP_006388	O75792	RNH2A_HUMAN	ribonuclease H2, large subunit	173					DNA replication|RNA catabolic process	nucleus|ribonuclease H2 complex	metal ion binding|ribonuclease H activity|RNA binding			breast(2)|central_nervous_system(1)	3						GCCCTCTACCCGGTGGTTAGT	0.582000													35	112					0	0	0.163468	0	0
Unknown	0	broad.mit.edu	37	19	29215151	29215151	+	RNA	SNP	G	A	A	rs151046529	by1000genomes	TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr19:29215151G>A	uc002nsa.1	-	4		c.391C>T								Homo sapiens cDNA clone IMAGE:5297319, with apparent retained intron.																		CAGACTGTCCGCCATCCAGAT	0.443000													10	39					0	0	0.069234	0	0
CYP2S1	29785	broad.mit.edu	37	19	41703792	41703792	+	Missense_Mutation	SNP	C	T	T	rs148695011		TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr19:41703792C>T	uc002opw.2	+	3	507	c.452C>T	c.(451-453)GCG>GTG	p.A151V	CYP2F1_uc010xvw.1_Intron|CYP2S1_uc010xvx.1_Intron	NM_030622	NP_085125	Q96SQ9	CP2S1_HUMAN	cytochrome P450, family 2, subfamily S,	151					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|retinoic acid 4-hydroxylase activity			skin(1)	1						CTGATCCAGGCGGAGGCCCGG	0.622000													9	44					0	0	0.058154	0	0
ZNF665	79788	broad.mit.edu	37	19	53668011	53668011	+	Missense_Mutation	SNP	C	G	G			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr19:53668011C>G	uc010eqm.1	-	4	1832	c.1732G>C	c.(1732-1734)GCA>CCA	p.A578P		NM_024733	NP_079009	Q9H7R5	ZN665_HUMAN	zinc finger protein 665	513	C2H2-type 15.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2				GBM - Glioblastoma multiforme(134;0.0196)		ACACTAAATGCTTTGCCGCAC	0.398000													24	164					0	0	0.076483	0	0
NLRP11	204801	broad.mit.edu	37	19	56320376	56320377	+	Missense_Mutation	DNP	GG	TT	TT	rs115243845	by1000genomes	TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr19:56320376_56320377GG>TT	uc010ygf.1	-	5	2310_2311	c.1599_1600CC>AA	c.(1597-1602)GACCGT>GAAAGT	p.533_534DR>ES	NLRP11_uc002qlz.2_Missense_Mutation_p.434_435DR>ES|NLRP11_uc002qmb.2_Missense_Mutation_p.434_435DR>ES|NLRP11_uc002qmc.2_RNA|NLRP11_uc010ete.1_RNA	NM_145007	NP_659444	P59045	NAL11_HUMAN	NLR family, pyrin domain containing 11	533_534							ATP binding	p.R534C(1)		ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6		Colorectal(82;0.0002)		GBM - Glioblastoma multiforme(193;0.0325)		TCCGGGTCACGGTCCAAATGTT	0.446000													4	312					0	0	0.115264	0	0
NLRP11	204801	broad.mit.edu	37	19	56321356	56321356	+	Missense_Mutation	SNP	C	G	G			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr19:56321356C>G	uc010ygf.1	-	5	1331	c.620G>C	c.(619-621)TGG>TCG	p.W207S	NLRP11_uc002qlz.2_Missense_Mutation_p.W108S|NLRP11_uc002qmb.2_Missense_Mutation_p.W108S|NLRP11_uc002qmc.2_RNA|NLRP11_uc010ete.1_RNA	NM_145007	NP_659444	P59045	NAL11_HUMAN	NLR family, pyrin domain containing 11	207	NACHT.						ATP binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6		Colorectal(82;0.0002)		GBM - Glioblastoma multiforme(193;0.0325)		GCCGTCAGGCCAGTCCTTGGC	0.498000													44	66					0	0	0.124865	0	0
TTC27	55622	broad.mit.edu	37	2	32858959	32858959	+	Missense_Mutation	SNP	C	G	G			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr2:32858959C>G	uc002rom.2	+	3	514	c.283C>G	c.(283-285)CTA>GTA	p.L95V	TTC27_uc010ymx.1_Missense_Mutation_p.L45V	NM_017735	NP_060205	Q6P3X3	TTC27_HUMAN	tetratricopeptide repeat domain 27	95							protein binding			central_nervous_system(1)	1						GTTGATATTTCTACTTGGTGT	0.368000													22	97					0	0	0.055883	0	0
RGPD5	84220	broad.mit.edu	37	2	113127775	113127775	+	Missense_Mutation	SNP	G	C	C			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr2:113127775G>C	uc002ths.1	-	23	5355	c.5278C>G	c.(5278-5280)CCT>GCT	p.P1760A	RGPD8_uc010fkk.1_Missense_Mutation_p.P1620A	NM_005054	NP_005045	Q99666	RGPD5_HUMAN	RANBP2-like and GRIP domain containing 5 isoform	1760					intracellular transport	cytoplasm	binding				0						GAACGGGAAGGATTTTCTTCC	0.308000													4	48					0	0	0.150653	0	0
THSD7B	80731	broad.mit.edu	37	2	138378230	138378230	+	Missense_Mutation	SNP	G	A	A			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr2:138378230G>A	uc002tva.1	+	19	3646	c.3646G>A	c.(3646-3648)GTG>ATG	p.V1216M	THSD7B_uc010zbj.1_Intron	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		GGTGGAATGCGTGGTCAACTG	0.468000													59	104					0	0	0.139131	0	0
LRP1B	53353	broad.mit.edu	37	2	141072598	141072598	+	Missense_Mutation	SNP	A	C	C			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr2:141072598A>C	uc002tvj.1	-	83	13683	c.12711T>G	c.(12709-12711)TGT>TGG	p.C4237W		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	4237	Extracellular (Potential).|EGF-like 10.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		GCCAACAGTGACACCTCAAAT	0.383000										TSP Lung(27;0.18)			3	85					0	0	0.115264	0	0
EPC2	26122	broad.mit.edu	37	2	149528637	149528637	+	Silent	SNP	A	G	G			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr2:149528637A>G	uc010zbt.1	+	10	1428	c.1401A>G	c.(1399-1401)ACA>ACG	p.T467T		NM_015630	NP_056445	Q52LR7	EPC2_HUMAN	enhancer of polycomb homolog 2	467					chromatin modification|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(1)|breast(1)|pancreas(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.0516)		GAATATCCACAGAACATGACC	0.383000													18	22					0	0	0.160694	0	0
LRP2	4036	broad.mit.edu	37	2	170038807	170038807	+	Missense_Mutation	SNP	G	A	A	rs144973875		TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr2:170038807G>A	uc002ues.2	-	51	10081	c.9868C>T	c.(9868-9870)CGC>TGC	p.R3290C		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	3290	LDL-receptor class B 31.|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)	CCATCCAGGCGGGCATCCAAC	0.502000													30	104					0	0	0.125774	0	0
SF3B1	23451	broad.mit.edu	37	2	198267364	198267364	+	Missense_Mutation	SNP	T	A	A			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr2:198267364T>A	uc002uue.2	-	14	2041	c.1993A>T	c.(1993-1995)ATT>TTT	p.I665F		NM_012433	NP_036565	O75533	SF3B1_HUMAN	splicing factor 3b, subunit 1 isoform 1	665	HEAT 4.				nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome|nuclear speck|U12-type spliceosomal complex	protein binding			pancreas(3)|ovary(1)|breast(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.246)			ACAATCTTAATACCAGTGTGT	0.408000													13	68					0	0	0.105934	0	0
MAP2	4133	broad.mit.edu	37	2	210558554	210558554	+	Missense_Mutation	SNP	A	G	G			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr2:210558554A>G	uc002vde.1	+	7	1908	c.1660A>G	c.(1660-1662)ACA>GCA	p.T554A	MAP2_uc002vdc.1_Missense_Mutation_p.T554A|MAP2_uc002vdd.1_Intron|MAP2_uc002vdf.1_Intron|MAP2_uc002vdg.1_Intron|MAP2_uc002vdh.1_Intron|MAP2_uc002vdi.1_Missense_Mutation_p.T550A	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	554					central nervous system neuron development|dendrite morphogenesis|negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	beta-dystroglycan binding|calmodulin binding|structural molecule activity			ovary(9)|upper_aerodigestive_tract(2)|large_intestine(2)|pancreas(2)|central_nervous_system(1)|skin(1)	17		Hepatocellular(293;0.137)|Lung NSC(271;0.163)|Renal(323;0.202)		UCEC - Uterine corpus endometrioid carcinoma (47;6.64e-05)|Epithelial(149;3.12e-100)|all cancers(144;6.88e-91)|Lung(261;0.0624)|LUSC - Lung squamous cell carcinoma(261;0.0662)|STAD - Stomach adenocarcinoma(1183;0.18)	Estramustine(DB01196)	TGGAGCTGCAACATCAGCTGA	0.368000													5	142					0	0	0.029380	0	0
ERBB4	2066	broad.mit.edu	37	2	212288907	212288907	+	Missense_Mutation	SNP	T	C	C			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr2:212288907T>C	uc002veg.1	-	23	2937	c.2839A>G	c.(2839-2841)ATT>GTT	p.I947V	ERBB4_uc002veh.1_Missense_Mutation_p.I947V|ERBB4_uc010zji.1_Missense_Mutation_p.I937V|ERBB4_uc010zjj.1_Missense_Mutation_p.I937V	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	947	Protein kinase.|Cytoplasmic (Potential).			I->R: Constitutively autophosphorylated.	cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		TAAACGTCAATAGTGCAGATG	0.393000										TSP Lung(8;0.080)			58	81					0	0	0.139131	0	0
AP1S3	130340	broad.mit.edu	37	2	224629906	224629906	+	Missense_Mutation	SNP	C	T	T			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr2:224629906C>T	uc010fwx.1	-	4	605	c.453G>A	c.(451-453)ATG>ATA	p.M151I	AP1S3_uc002vnn.2_Intron|AP1S3_uc010fww.2_Intron|AP1S3_uc002vno.2_Intron	NM_001039569	NP_001034658	Q96PC3	AP1S3_HUMAN	adaptor-related protein complex 1, sigma 3	151					endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport|regulation of defense response to virus by virus|viral reproduction	coated pit|cytoplasmic vesicle membrane|cytosol|Golgi membrane|lysosomal membrane|membrane coat	protein transporter activity				0		Renal(207;0.0112)|Lung NSC(271;0.0186)|all_lung(227;0.0272)		Epithelial(121;7.6e-10)|all cancers(144;3.62e-07)|Lung(261;0.0086)|LUSC - Lung squamous cell carcinoma(224;0.00902)		atcTTTCTCCCATGGTTTGGG	0.224000													30	52					0	0	0.134883	0	0
IQCA1	79781	broad.mit.edu	37	2	237308067	237308067	+	Missense_Mutation	SNP	T	C	C			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr2:237308067T>C	uc002vvz.1	-	9	1381	c.1199A>G	c.(1198-1200)AAC>AGC	p.N400S	IQCA1_uc002vwb.2_Missense_Mutation_p.N407S|IQCA1_uc002vwa.1_RNA|IQCA1_uc010zni.1_Missense_Mutation_p.N359S	NM_024726	NP_079002	Q86XH1	IQCA1_HUMAN	IQ motif containing with AAA domain 1	400	Lys-rich.						ATP binding			ovary(1)	1						TTTGTATGCGTTACATCCTTC	0.463000													5	109					0	0	0.184627	0	0
COL6A3	1293	broad.mit.edu	37	2	238274357	238274357	+	Missense_Mutation	SNP	G	A	A			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr2:238274357G>A	uc002vwl.2	-	12	6107	c.5822C>T	c.(5821-5823)TCG>TTG	p.S1941L	COL6A3_uc002vwo.2_Missense_Mutation_p.S1735L|COL6A3_uc010znj.1_Missense_Mutation_p.S1334L	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	1941	VWFA 10.|Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		GCTGTCCGGCGAGGACTGTCT	0.552000													31	52					0	0	0.203993	0	0
HDLBP	3069	broad.mit.edu	37	2	242194885	242194885	+	Silent	SNP	G	A	A			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr2:242194885G>A	uc002waz.2	-	8	1212	c.984C>T	c.(982-984)TCC>TCT	p.S328S	HDLBP_uc002wba.2_Silent_p.S328S|HDLBP_uc002wbb.2_Intron|HDLBP_uc010fzn.1_Silent_p.S57S	NM_203346	NP_976221	Q00341	VIGLN_HUMAN	high density lipoprotein binding protein	328	KH 3.				cholesterol metabolic process|lipid transport	cytoplasm|high-density lipoprotein particle|nucleus|plasma membrane	lipid binding|protein binding|RNA binding			breast(3)|skin(1)	4		all_cancers(19;7.77e-41)|all_epithelial(40;1.74e-18)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00338)|Ovarian(221;0.00556)|Lung NSC(271;0.0121)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;8.13e-34)|all cancers(36;4.71e-31)|OV - Ovarian serous cystadenocarcinoma(60;2.34e-15)|Kidney(56;3.72e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.76e-08)|BRCA - Breast invasive adenocarcinoma(100;3.38e-06)|Lung(119;0.000109)|LUSC - Lung squamous cell carcinoma(224;0.000964)|Colorectal(34;0.0132)|COAD - Colon adenocarcinoma(134;0.0928)		GGATCTCAACGGAAACTCCAG	0.473000													4	150					0	0	0.150653	0	0
AHCY	191	broad.mit.edu	37	20	32873405	32873405	+	Silent	SNP	G	A	A	rs139344907	byFrequency	TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr20:32873405G>A	uc002xai.2	-	9	1147	c.1008C>T	c.(1006-1008)ATC>ATT	p.I336I	AHCY_uc002xaj.2_Silent_p.I308I	NM_000687	NP_000678	P23526	SAHH_HUMAN	adenosylhomocysteinase isoform 1	336					methylation|xenobiotic metabolic process	cytosol|melanosome	adenosylhomocysteinase activity|protein binding				0						CCAGCAGGATGATGCGGCGCC	0.632000													9	134					0	0	0.058154	0	0
TRPM2	7226	broad.mit.edu	37	21	45846577	45846577	+	Missense_Mutation	SNP	C	T	T	rs113563173	byFrequency	TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr21:45846577C>T	uc002zet.1	+	27	4043	c.3830C>T	c.(3829-3831)ACG>ATG	p.T1277M	TRPM2_uc002zeu.1_Missense_Mutation_p.T1277M|TRPM2_uc002zew.1_Missense_Mutation_p.T1277M|TRPM2_uc010gpt.1_Missense_Mutation_p.T1327M|TRPM2_uc002zex.1_Missense_Mutation_p.T1063M|TRPM2_uc002zey.1_Missense_Mutation_p.T790M|uc011afe.1_5'Flank|TRPM2_uc011aff.1_Intron	NM_003307	NP_003298	O94759	TRPM2_HUMAN	transient receptor potential cation channel,	1277	Cytoplasmic (Potential).					integral to plasma membrane	ADP-ribose diphosphatase activity|calcium channel activity|sodium channel activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3						CCCTTTTACACGGCAGAGAGG	0.602000													18	107					0	0	0.189662	0	0
psiTPTE22	387590	broad.mit.edu	37	22	17178700	17178700	+	RNA	SNP	G	A	A			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr22:17178700G>A	uc002zls.1	+	3		c.782G>A								Homo sapiens cDNA FLJ10437 fis, clone NT2RP1000581.												0						GCAACGCGCCGCAGCTCTGAC	0.622000													15	25					0	0	0.189662	0	0
LOC96610	96610	broad.mit.edu	37	22	22664186	22664186	+	RNA	SNP	A	G	G			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr22:22664186A>G	uc011aim.1	+	30		c.2043A>G			LOC96610_uc011aiq.1_RNA					Parts of antibodies, mostly variable regions.												0						CAGATCAAGAAAGCACTCTGA	0.498000													4	95					0	0	0.021553	0	0
L3MBTL2	83746	broad.mit.edu	37	22	41620063	41620063	+	Missense_Mutation	SNP	C	T	T			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr22:41620063C>T	uc003azo.2	+	9	1036	c.982C>T	c.(982-984)CGG>TGG	p.R328W	L3MBTL2_uc010gyi.1_Missense_Mutation_p.R237W|L3MBTL2_uc003azn.2_RNA	NM_031488	NP_113676	Q969R5	LMBL2_HUMAN	l(3)mbt-like 2	328	MBT 2.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	methylated histone residue binding|transcription corepressor activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3						GCAGGGCATGCGGCTGGAAGT	0.597000													3	76					0	0	0.150653	0	0
TUBGCP6	85378	broad.mit.edu	37	22	50656813	50656813	+	Missense_Mutation	SNP	G	A	A			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr22:50656813G>A	uc003bkb.1	-	23	5485	c.4973C>T	c.(4972-4974)GCC>GTC	p.A1658V	TUBGCP6_uc003bka.1_Intron|TUBGCP6_uc010har.1_Missense_Mutation_p.A1650V|TUBGCP6_uc010has.1_RNA	NM_020461	NP_065194	Q96RT7	GCP6_HUMAN	tubulin, gamma complex associated protein 6	1658					G2/M transition of mitotic cell cycle|microtubule nucleation	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	microtubule binding			ovary(2)|central_nervous_system(2)	4		all_cancers(38;5.79e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		LUAD - Lung adenocarcinoma(64;0.109)|BRCA - Breast invasive adenocarcinoma(115;0.21)		CACAGAGCCGGCCATGTGGCT	0.662000													3	81					0	0	0.115264	0	0
GRK7	131890	broad.mit.edu	37	3	141497220	141497220	+	Missense_Mutation	SNP	C	T	T			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr3:141497220C>T	uc011bnd.1	+	1	178	c.94C>T	c.(94-96)CGG>TGG	p.R32W		NM_139209	NP_631948	Q8WTQ7	GRK7_HUMAN	G-protein-coupled receptor kinase 7 precursor	32					visual perception	membrane	ATP binding|G-protein coupled receptor kinase activity|signal transducer activity			lung(2)|stomach(1)|ovary(1)|skin(1)	5						AGAGCTGCAGCGGCGGCGGCG	0.682000													15	47					0	0	0.175082	0	0
MCF2L2	23101	broad.mit.edu	37	3	183107495	183107495	+	Missense_Mutation	SNP	G	A	A			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr3:183107495G>A	uc003fli.1	-	2	239	c.149C>T	c.(148-150)GCC>GTC	p.A50V	MCF2L2_uc003flj.1_Missense_Mutation_p.A50V|MCF2L2_uc003flp.1_Missense_Mutation_p.A85V	NM_015078	NP_055893	Q86YR7	MF2L2_HUMAN	Rho family guanine-nucleotide exchange factor	50	CRAL-TRIO.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)|large_intestine(2)|breast(1)	5	all_cancers(143;1.26e-12)|Ovarian(172;0.0355)		all cancers(12;3.35e-44)|Epithelial(37;6.48e-38)|LUSC - Lung squamous cell carcinoma(7;7.12e-25)|Lung(8;6.39e-23)|OV - Ovarian serous cystadenocarcinoma(80;6.75e-21)			TGAAAGAATGGCAAATTGTCT	0.433000													3	93					0	0	0.115264	0	0
LOC348926	348926	broad.mit.edu	37	4	3952918	3952918	+	RNA	SNP	T	G	G			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr4:3952918T>G	uc011bvu.1	-	3		c.190A>C			LOC348926_uc003ghn.2_Intron	NR_024253				Homo sapiens hypothetical protein LOC348926, mRNA (cDNA clone IMAGE:4546485), partial cds.												0						TGACGGCGGGTGCTTCACACA	0.522000													4	47					0	0	0.047766	0	0
KIAA0232	9778	broad.mit.edu	37	4	6865324	6865324	+	Missense_Mutation	SNP	C	T	T			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr4:6865324C>T	uc003gjr.3	+	7	3678	c.3215C>T	c.(3214-3216)CCG>CTG	p.P1072L	KIAA0232_uc003gjq.3_Missense_Mutation_p.P1072L	NM_014743	NP_055558	Q92628	K0232_HUMAN	hypothetical protein LOC9778	1072							ATP binding			ovary(2)	2						AGTTTTAAACCGAAATCAATC	0.418000													38	100					0	0	0.203993	0	0
BOD1L	259282	broad.mit.edu	37	4	13605416	13605416	+	Silent	SNP	G	A	A			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr4:13605416G>A	uc003gmz.1	-	10	3225	c.3108C>T	c.(3106-3108)GAC>GAT	p.D1036D	BOD1L_uc010idr.1_Silent_p.D373D	NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	1036	Lys-rich.						DNA binding			ovary(5)|breast(1)	6						ATTTATTTTCGTCCTTCTTTT	0.378000													66	104					0	0	0.139131	0	0
GABRA4	2557	broad.mit.edu	37	4	46995377	46995377	+	Missense_Mutation	SNP	C	T	T			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr4:46995377C>T	uc003gxg.2	-	1	204	c.65G>A	c.(64-66)CGC>CAC	p.R22H		NM_000809	NP_000800	P48169	GBRA4_HUMAN	gamma-aminobutyric acid A receptor, alpha 4	22					gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|upper_aerodigestive_tract(1)|breast(1)	4					Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	GCACAGGAAGCGCAGGAGGGC	0.592000													51	85					0	0	0.139131	0	0
LNX1	84708	broad.mit.edu	37	4	54327127	54327127	+	Missense_Mutation	SNP	G	A	A			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr4:54327127G>A	uc003hag.3	-	11	2390	c.2134C>T	c.(2134-2136)CTT>TTT	p.L712F	PDGFRA_uc003haa.2_Intron|LNX1_uc003haf.3_Missense_Mutation_p.L616F|LNX1_uc003hah.3_RNA	NM_001126328	NP_001119800	Q8TBB1	LNX1_HUMAN	ligand of numb-protein X 1 isoform a	712	PDZ 4.					cytoplasm	zinc ion binding			ovary(2)|central_nervous_system(2)	4	all_neural(26;0.153)		GBM - Glioblastoma multiforme(3;8.2e-46)|LUSC - Lung squamous cell carcinoma(32;0.0134)			CTTCCTTTAAGTTCTTTCAGC	0.343000													33	54					0	0	0.153744	0	0
KDR	3791	broad.mit.edu	37	4	55961110	55961110	+	Nonsense_Mutation	SNP	G	A	A			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr4:55961110G>A	uc003has.2	-	21	3132	c.2830C>T	c.(2830-2832)CGA>TGA	p.R944*	KDR_uc003hat.1_Nonsense_Mutation_p.R944*	NM_002253	NP_002244	P35968	VGFR2_HUMAN	kinase insert domain receptor precursor	944	Protein kinase.|Cytoplasmic (Potential).				angiogenesis|cell differentiation|interspecies interaction between organisms|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of focal adhesion assembly|positive regulation of positive chemotaxis|regulation of cell shape	integral to plasma membrane	ATP binding|growth factor binding|Hsp90 protein binding|integrin binding|receptor signaling protein tyrosine kinase activity|vascular endothelial growth factor receptor activity			lung(16)|soft_tissue(4)|central_nervous_system(4)|large_intestine(2)|stomach(2)|skin(2)|ovary(2)|kidney(1)	33	all_cancers(7;0.0255)|all_lung(4;0.00175)|Lung NSC(11;0.00384)|all_epithelial(27;0.034)|Glioma(25;0.08)|all_neural(26;0.101)		Epithelial(7;0.189)		Sorafenib(DB00398)|Sunitinib(DB01268)	TGACGGAATCGTGCCCCTTTG	0.433000			Mis		NSCLC|angiosarcoma				Familial_Infantile_Hemangioma	TSP Lung(20;0.16)			31	61					0	0	0.153744	0	0
ADH1B	125	broad.mit.edu	37	4	100237088	100237088	+	Silent	SNP	C	T	T	rs142861273		TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr4:100237088C>T	uc003hus.3	-	5	618	c.534G>A	c.(532-534)TCG>TCA	p.S178S	ADH1A_uc011ceg.1_Intron|ADH1B_uc003hut.3_Silent_p.S138S|ADH1B_uc011ceh.1_Silent_p.S23S|ADH1B_uc011cei.1_Silent_p.S138S	NM_000668	NP_000659	P00325	ADH1B_HUMAN	class I alcohol dehydrogenase, beta subunit	178					ethanol oxidation|xenobiotic metabolic process	cytosol	alcohol dehydrogenase activity, zinc-dependent|zinc ion binding			ovary(1)|breast(1)	2				OV - Ovarian serous cystadenocarcinoma(123;1.02e-07)	Fomepizole(DB01213)|NADH(DB00157)	CATAACCAGTCGAGAATCCAC	0.498000													4	152					0	0	0.150653	0	0
FAM92A3	403315	broad.mit.edu	37	4	183959372	183959372	+	RNA	SNP	G	A	A			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr4:183959372G>A	uc003ivi.3	+	1		c.555G>A				NR_003612				Homo sapiens family with sequence similarity 92, member A3, mRNA (cDNA clone IMAGE:4822144).												0						TTTGAATTTCGACCTTTAAAA	0.234000													4	12					0	0	0.150653	0	0
ADAMTS12	81792	broad.mit.edu	37	5	33683148	33683148	+	Missense_Mutation	SNP	C	T	T	rs61754760		TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr5:33683148C>T	uc003jia.1	-	5	1053	c.890G>A	c.(889-891)CGG>CAG	p.R297Q	ADAMTS12_uc010iuq.1_Missense_Mutation_p.R297Q	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	297	Peptidase M12B.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						TAGAATGAGCCGAACCACAAC	0.433000										HNSCC(64;0.19)			21	49					0	0	0.055883	0	0
SPEF2	79925	broad.mit.edu	37	5	35646854	35646854	+	Missense_Mutation	SNP	G	A	A			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr5:35646854G>A	uc003jjo.2	+	5	782	c.671G>A	c.(670-672)CGT>CAT	p.R224H	SPEF2_uc003jjn.1_Missense_Mutation_p.R224H|SPEF2_uc003jjq.3_Missense_Mutation_p.R224H	NM_024867	NP_079143	Q9C093	SPEF2_HUMAN	KPL2 protein isoform 1	224					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|protein dimerization activity			skin(2)|ovary(1)|central_nervous_system(1)	4	all_lung(31;7.56e-05)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			GCATCAAATCGTACTTTGAAA	0.333000													42	81					0	0	0.098360	0	0
GZMK	3003	broad.mit.edu	37	5	54329739	54329739	+	Silent	SNP	G	A	A			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr5:54329739G>A	uc003jpl.1	+	5	824	c.780G>A	c.(778-780)CCG>CCA	p.P260P		NM_002104	NP_002095	P49863	GRAK_HUMAN	granzyme K precursor	260					proteolysis	extracellular region	serine-type endopeptidase activity				0		Lung NSC(810;4.08e-05)|Breast(144;0.0433)|Prostate(74;0.183)				ACCTTGTCCCGCCTCATACAA	0.408000													17	47					0	0	0.160694	0	0
GPR98	84059	broad.mit.edu	37	5	89954001	89954001	+	Missense_Mutation	SNP	G	C	C			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr5:89954001G>C	uc003kju.2	+	21	4754	c.4658G>C	c.(4657-4659)CGT>CCT	p.R1553P	GPR98_uc003kjt.2_5'UTR	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	1553	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		GGAGGAGCTCGTATTTCGGAA	0.348000													37	83					0	0	0.214465	0	0
FBN2	2201	broad.mit.edu	37	5	127714467	127714467	+	Missense_Mutation	SNP	T	A	A			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr5:127714467T>A	uc003kuu.2	-	12	2159	c.1720A>T	c.(1720-1722)ATT>TTT	p.I574F	FBN2_uc003kuv.2_Missense_Mutation_p.I541F	NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	574	EGF-like 7; calcium-binding.				bone trabecula formation|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	microfibril	calcium ion binding|extracellular matrix structural constituent			ovary(8)|large_intestine(4)|pancreas(1)|kidney(1)|skin(1)	15		all_cancers(142;0.0216)|Prostate(80;0.0551)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0821)|Epithelial(69;0.146)		GCCTTACCAATGCATGCTTGC	0.363000													4	139					0	0	0.184627	0	0
NDST1	3340	broad.mit.edu	37	5	149914501	149914501	+	Missense_Mutation	SNP	T	C	C			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr5:149914501T>C	uc003lsk.3	+	5	1671	c.1169T>C	c.(1168-1170)ATG>ACG	p.M390T	NDST1_uc011dcj.1_Missense_Mutation_p.M390T|NDST1_uc003lsl.2_Missense_Mutation_p.M390T	NM_001543	NP_001534	P52848	NDST1_HUMAN	N-deacetylase/N-sulfotransferase (heparan	390	Heparan sulfate N-deacetylase 1.|Lumenal (Potential).				heparan sulfate proteoglycan biosynthetic process|inflammatory response	Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			breast(1)|skin(1)	2		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TTCCCCCACATGTGGAGCCAC	0.552000													31	52					0	0	0.144211	0	0
FAT2	2196	broad.mit.edu	37	5	150924339	150924339	+	Nonsense_Mutation	SNP	G	A	A			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr5:150924339G>A	uc003lue.3	-	9	6362	c.6349C>T	c.(6349-6351)CGA>TGA	p.R2117*	GM2A_uc011dcs.1_Intron	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	2117	Extracellular (Potential).|Cadherin 18.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GGGTCAATTCGGAAATATGTG	0.428000													62	139					0	0	0.139131	0	0
KIF4B	285643	broad.mit.edu	37	5	154393909	154393909	+	Missense_Mutation	SNP	C	T	T			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr5:154393909C>T	uc010jih.1	+	1	650	c.490C>T	c.(490-492)CGG>TGG	p.R164W		NM_001099293	NP_001092763	Q2VIQ3	KIF4B_HUMAN	kinesin family member 4B	164	Kinesin-motor.				axon guidance|blood coagulation|microtubule-based movement	cytosol|microtubule|nuclear matrix	ATP binding|DNA binding|microtubule motor activity			ovary(1)	1	Renal(175;0.00488)	Medulloblastoma(196;0.0523)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			AATAAATATACGGGAGGATCC	0.393000													90	149					0	0	0.139131	0	0
FAM71B	153745	broad.mit.edu	37	5	156590151	156590151	+	Silent	SNP	C	T	T			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr5:156590151C>T	uc003lwn.2	-	2	1225	c.1125G>A	c.(1123-1125)GCG>GCA	p.A375A		NM_130899	NP_570969	Q8TC56	FA71B_HUMAN	family with sequence similarity 71, member B	375						nucleus				ovary(4)|pancreas(1)|skin(1)	6	Renal(175;0.00212)	Medulloblastoma(196;0.0523)|all_neural(177;0.21)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			TGCCTGCAAACGCCGCACTCA	0.582000													21	54					0	0	0.062417	0	0
EBF1	1879	broad.mit.edu	37	5	158158158	158158158	+	Silent	SNP	G	A	A	rs146276323		TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr5:158158158G>A	uc010jip.2	-	11	1346	c.1044C>T	c.(1042-1044)AAC>AAT	p.N348N	EBF1_uc011ddw.1_Silent_p.N216N|EBF1_uc011ddx.1_Silent_p.N349N|EBF1_uc003lxl.3_Silent_p.N317N	NM_024007	NP_076870	Q9UH73	COE1_HUMAN	early B-cell factor	348					multicellular organismal development	nucleus	DNA binding|metal ion binding		HMGA2/EBF1(2)	soft_tissue(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Acute lymphoblastic leukemia(3;2.99e-06)|all_hematologic(3;0.000772)|Medulloblastoma(196;0.037)|all_neural(177;0.143)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TGGTGGGTTCGTTGAGCGCTG	0.448000			T	HMGA2	lipoma								10	32					0	0	0.069234	0	0
TLX3	30012	broad.mit.edu	37	5	170738554	170738554	+	Missense_Mutation	SNP	C	A	A			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr5:170738554C>A	uc003mbf.2	+	3	909	c.827C>A	c.(826-828)CCC>CAC	p.P276H	uc003mbe.1_5'Flank	NM_021025	NP_066305	O43711	TLX3_HUMAN	T-cell leukemia homeobox 3	276						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1	Renal(175;0.000159)|Lung NSC(126;0.00576)|all_lung(126;0.00963)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			AATCTGCAGCCCTGGGAGGAG	0.637000			T	BCL11B	T-ALL								11	15					4.3838e-07	4.55915e-07	0.105934	1	0
KHDRBS2	202559	broad.mit.edu	37	6	62611199	62611199	+	Silent	SNP	G	A	A			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr6:62611199G>A	uc003peg.2	-	5	808	c.561C>T	c.(559-561)GGC>GGT	p.G187G		NM_152688	NP_689901	Q5VWX1	KHDR2_HUMAN	KH domain-containing, RNA-binding, signal	187					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	SH3 domain binding			skin(7)|ovary(3)|liver(1)	11				BRCA - Breast invasive adenocarcinoma(397;0.149)		TAATACCTCTGCCACGACCAG	0.403000													4	121					0	0	0.150653	0	0
RNGTT	8732	broad.mit.edu	37	6	89511325	89511325	+	Missense_Mutation	SNP	T	G	G			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr6:89511325T>G	uc003pmr.2	-	12	1516	c.1296A>C	c.(1294-1296)GAA>GAC	p.E432D	RNGTT_uc003pms.2_Intron|RNGTT_uc011dzu.1_Intron|RNGTT_uc003pmt.2_Missense_Mutation_p.E432D	NM_003800	NP_003791	O60942	MCE1_HUMAN	RNA guanylyltransferase and 5'-phosphatase	432	GTase.				interspecies interaction between organisms|mRNA capping|transcription from RNA polymerase II promoter|viral reproduction	nucleoplasm	GTP binding|mRNA guanylyltransferase activity|polynucleotide 5'-phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			upper_aerodigestive_tract(1)	1		all_cancers(76;4.07e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.49e-10)|all_hematologic(105;7.79e-07)|all_epithelial(107;6.86e-05)		BRCA - Breast invasive adenocarcinoma(108;0.151)		CATGGCTCACTTCTTTGGCAA	0.229000													3	57					0	0	0.115264	0	0
NMBR	4829	broad.mit.edu	37	6	142397176	142397176	+	Missense_Mutation	SNP	C	T	T			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr6:142397176C>T	uc003qiu.2	-	3	923	c.782G>A	c.(781-783)CGG>CAG	p.R261Q		NM_002511	NP_002502	P28336	NMBR_HUMAN	neuromedin B receptor	261	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger	cytoplasm|integral to plasma membrane	bombesin receptor activity			central_nervous_system(3)|breast(1)	4	Breast(32;0.155)			OV - Ovarian serous cystadenocarcinoma(155;9.93e-06)|GBM - Glioblastoma multiforme(68;0.0013)		CAGGCGTTTCCGTGTTTCCAT	0.378000													24	50					0	0	0.076483	0	0
ANLN	54443	broad.mit.edu	37	7	36492182	36492182	+	Silent	SNP	T	C	C			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr7:36492182T>C	uc003tff.2	+	24	3552	c.3348T>C	c.(3346-3348)GCT>GCC	p.A1116A	ANLN_uc011kaz.1_Silent_p.A1028A|ANLN_uc003tfg.2_Silent_p.A1079A|ANLN_uc010kxe.2_Silent_p.A1078A	NM_018685	NP_061155	Q9NQW6	ANLN_HUMAN	anillin, actin binding protein	1116	Localization to the cleavage furrow.				cytokinesis|mitosis|regulation of exit from mitosis|septin ring assembly	actomyosin contractile ring|nucleus	actin binding			ovary(2)|skin(1)	3						AACCTGATGCTTGCTACAAAC	0.408000													141	489					0	0	0.139131	0	0
Unknown	0	broad.mit.edu	37	7	96251918	96251918	+	RNA	SNP	A	G	G			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr7:96251918A>G	uc010lfm.1	-	5		c.628T>C								Homo sapiens cDNA, FLJ17342.																		AGTATTGGCAATTCTCCCCGC	0.433000													11	31					0	0	0.069234	0	0
ZC3HAV1L	92092	broad.mit.edu	37	7	138713589	138713589	+	Missense_Mutation	SNP	A	T	T			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr7:138713589A>T	uc003vum.1	-	3	631	c.619T>A	c.(619-621)TGC>AGC	p.C207S		NM_080660	NP_542391	Q96H79	ZCCHL_HUMAN	zinc finger CCCH-type, antiviral 1-like	207											0						GACCGTTTGCAGGTCTGAAGT	0.433000													3	87					0	0	0.115264	0	0
RP1	6101	broad.mit.edu	37	8	55534023	55534023	+	Missense_Mutation	SNP	C	T	T			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr8:55534023C>T	uc003xsd.1	+	2	645	c.497C>T	c.(496-498)ACG>ATG	p.T166M	RP1_uc011ldy.1_Missense_Mutation_p.T166M	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	166	Doublecortin 2.				axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			GACCCGAAGACGAGGCGTGCG	0.642000													48	98					0	0	0.139131	0	0
CA13	377677	broad.mit.edu	37	8	86180769	86180769	+	Silent	SNP	A	G	G	rs143754749		TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr8:86180769A>G	uc003ydg.2	+	6	924	c.582A>G	c.(580-582)ACA>ACG	p.T194T	CA13_uc003ydf.1_RNA	NM_198584	NP_940986	Q8N1Q1	CAH13_HUMAN	carbonic anhydrase XIII	194					one-carbon metabolic process		carbonate dehydratase activity|zinc ion binding				0						ACTACTGGACATATCCTGGTT	0.403000													7	137					0	0	0.029380	0	0
PARP10	84875	broad.mit.edu	37	8	145057683	145057683	+	Missense_Mutation	SNP	G	A	A	rs146697146	byFrequency	TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr8:145057683G>A	uc003zal.3	-	8	2182	c.2074C>T	c.(2074-2076)CCG>TCG	p.P692S	PARP10_uc003zak.3_Missense_Mutation_p.P389S|PARP10_uc011lku.1_Missense_Mutation_p.P704S|PARP10_uc011lkv.1_RNA|PARP10_uc003zam.2_Missense_Mutation_p.P683S	NM_032789	NP_116178	Q53GL7	PAR10_HUMAN	poly (ADP-ribose) polymerase family, member 10	692	Glu-rich.					Golgi apparatus|nucleolus	NAD+ ADP-ribosyltransferase activity|nucleotide binding			ovary(2)|upper_aerodigestive_tract(1)|lung(1)|breast(1)|pancreas(1)	6	all_cancers(97;8.2e-11)|all_epithelial(106;1.1e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.31e-40)|Epithelial(56;1.16e-39)|all cancers(56;6.43e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			GCCTCCAACGGGGGCTGCTCC	0.677000													6	23					0	0	0.021553	0	0
GPR172A	79581	broad.mit.edu	37	8	145583729	145583729	+	Missense_Mutation	SNP	G	A	A			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr8:145583729G>A	uc003zcc.1	+	3	734	c.577G>A	c.(577-579)GCC>ACC	p.A193T	FBXL6_uc003zbz.2_5'Flank|FBXL6_uc003zca.2_5'Flank|FBXL6_uc003zcb.2_5'Flank|FBXL6_uc010mfx.2_5'Flank|GPR172A_uc003zcd.1_Missense_Mutation_p.A193T|GPR172A_uc003zce.1_Missense_Mutation_p.A193T|GPR172A_uc010mfy.1_Missense_Mutation_p.A193T|GPR172A_uc003zcf.1_Missense_Mutation_p.A193T|GPR172A_uc011llc.1_Missense_Mutation_p.A105T	NM_024531	NP_078807	Q9HAB3	RFT3_HUMAN	G protein-coupled receptor 172A precursor	193						integral to plasma membrane	receptor activity|riboflavin transporter activity				0	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;4.43e-40)|Epithelial(56;1.48e-39)|all cancers(56;1.49e-34)|BRCA - Breast invasive adenocarcinoma(115;0.0441)|Colorectal(110;0.055)			GCGTTTTCCCGCCAGCACCTT	0.662000													8	138					0	0	0.038147	0	0
PGM5	5239	broad.mit.edu	37	9	70993121	70993121	+	Nonsense_Mutation	SNP	C	T	T			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr9:70993121C>T	uc004agr.2	+	2	497	c.268C>T	c.(268-270)CGA>TGA	p.R90*		NM_021965	NP_068800	Q15124	PGM5_HUMAN	phosphoglucomutase 5	90					cell adhesion|cellular calcium ion homeostasis|glucose metabolic process	costamere|dystrophin-associated glycoprotein complex|focal adhesion|intercalated disc|internal side of plasma membrane|sarcolemma|spot adherens junction|stress fiber|Z disc	intramolecular transferase activity, phosphotransferases|magnesium ion binding|structural molecule activity			ovary(1)|pancreas(1)	2						TTAGATTGGACGACTGATTAT	0.443000													20	56					0	0	0.091800	0	0
ZBTB6	10773	broad.mit.edu	37	9	125674357	125674357	+	Translation_Start_Site	SNP	C	T	T			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr9:125674357C>T	uc004bnh.2	-	2	84	c.-5G>A	c.(-7--3)TTGTG>TTATG			NM_006626	NP_006617	Q15916	ZBTB6_HUMAN	zinc finger and BTB domain containing 6						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GCCATGATCACAATCTAAGCA	0.373000													36	54					0	0	0.173368	0	0
SFRS17A	8227	broad.mit.edu	37	X	1720261	1720261	+	Missense_Mutation	SNP	G	A	A			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chrX:1720261G>A	uc004cqa.2	+	5	2058	c.1862G>A	c.(1861-1863)CGG>CAG	p.R621Q	SFRS17A_uc004cqb.2_RNA|ASMT_uc004cqd.2_Intron	NM_005088	NP_005079	Q02040	AK17A_HUMAN	DNA segment on chromosome X and Y (unique) 155	621	Arg-rich.				B cell activation|mRNA processing|regulation of transcription, DNA-dependent|RNA splicing|signal transduction	nuclear speck|spliceosomal complex	nucleotide binding|protein binding|RNA binding				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				CGCAAGGAGCGGCGGCCCCAC	0.731000													4	18					0	0	0.150653	0	0
APEX2	27301	broad.mit.edu	37	X	55033742	55033742	+	Silent	SNP	G	T	T			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chrX:55033742G>T	uc004dtz.2	+	6	1507	c.1431G>T	c.(1429-1431)GTG>GTT	p.V477V	APEX2_uc011mom.1_Silent_p.V306V	NM_014481	NP_055296	Q9UBZ4	APEX2_HUMAN	apurinic/apyrimidinic endonuclease 2	477					cell cycle|DNA recombination|DNA repair	nucleus	DNA binding|DNA-(apurinic or apyrimidinic site) lyase activity|endonuclease activity|exonuclease activity|zinc ion binding			breast(1)	1						AGCCATGTGTGATGCGTACTG	0.622000								Other_BER_factors					21	37					2.37509e-13	2.53084e-13	0.055883	1	0
ZMYM3	9203	broad.mit.edu	37	X	70464671	70464671	+	Missense_Mutation	SNP	G	C	C			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chrX:70464671G>C	uc004dzh.1	-	19	3167	c.3080C>G	c.(3079-3081)ACT>AGT	p.T1027S	BCYRN1_uc011mpt.1_Intron|ZMYM3_uc004dzi.1_Missense_Mutation_p.T1027S|ZMYM3_uc004dzj.1_Missense_Mutation_p.T1015S	NM_201599	NP_963893	Q14202	ZMYM3_HUMAN	zinc finger protein 261	1027					multicellular organismal development	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Renal(35;0.156)					GTCTTGTTCAGTAGACACATC	0.478000													8	27					0	0	0.038147	0	0
RPS4X	6191	broad.mit.edu	37	X	71493768	71493768	+	Missense_Mutation	SNP	G	T	T			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chrX:71493768G>T	uc004ear.2	-	5	511	c.415C>A	c.(415-417)CTG>ATG	p.L139M	RPS4X_uc011mqb.1_3'UTR	NM_001007	NP_000998	P62701	RS4X_HUMAN	ribosomal protein S4, X-linked X isoform	139					endocrine pancreas development|positive regulation of cell proliferation|positive regulation of translation|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit|polysome	rRNA binding|structural constituent of ribosome				0	Renal(35;0.156)					TGAGTCACCAGATGAGGGATT	0.438000													24	48					1.96895e-08	2.081e-08	0.076483	1	0
Unknown	0	broad.mit.edu	37	X	80185799	80185799	+	Missense_Mutation	SNP	T	C	C			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chrX:80185799T>C	uc004eec.1	+	1	872	c.698T>C	c.(697-699)GTC>GCC	p.V233A						SubName: Full=cDNA FLJ16670 fis, clone THYMU3001133, highly similar to Voltage-dependent anion-selective channel protein 1; SubName: Full=Voltage-dependent anion channel 1, isoform CRA_a;																		GGCAAGAACGTCAATGCTGGT	0.413000													3	106					0	0	0.115264	0	0
CYLC1	1538	broad.mit.edu	37	X	83129576	83129576	+	Missense_Mutation	SNP	G	T	T			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chrX:83129576G>T	uc004eei.1	+	4	1881	c.1860G>T	c.(1858-1860)AAG>AAT	p.K620N	CYLC1_uc004eeh.1_Missense_Mutation_p.K619N	NM_021118	NP_066941	P35663	CYLC1_HUMAN	cylicin, basic protein of sperm head	620	Pro-rich.				cell differentiation|multicellular organismal development|spermatogenesis	acrosomal matrix|cytoskeletal calyx	structural molecule activity			ovary(4)|skin(1)	5						CATCACCAAAGGTCAGACGTC	0.433000													32	51					3.86903e-22	4.15681e-22	0.173368	1	0
CPXCR1	53336	broad.mit.edu	37	X	88009269	88009269	+	Missense_Mutation	SNP	T	A	A			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chrX:88009269T>A	uc004efd.3	+	3	1113	c.854T>A	c.(853-855)TTT>TAT	p.F285Y	CPXCR1_uc004efc.3_Missense_Mutation_p.F285Y	NM_033048	NP_149037	Q8N123	CPXCR_HUMAN	CPX chromosome region, candidate 1	285						intracellular	zinc ion binding			ovary(3)	3						GGAAGGCTTTTTAACACTTAC	0.303000													26	37					0	0	0.134883	0	0
ZMAT1	84460	broad.mit.edu	37	X	101139070	101139070	+	Missense_Mutation	SNP	C	A	A			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chrX:101139070C>A	uc004eim.2	-	2	4314	c.816G>T	c.(814-816)AAG>AAT	p.K272N	ZMAT1_uc011mrl.1_Missense_Mutation_p.K443N|ZMAT1_uc004ein.2_Missense_Mutation_p.K272N|ZMAT1_uc011mrm.1_Missense_Mutation_p.K272N	NM_032441	NP_115817	Q5H9K5	ZMAT1_HUMAN	zinc finger, matrin type 1 isoform 3	272						nucleus	zinc ion binding			ovary(1)	1						CACATGGGAGCTTTTGCTCCA	0.408000													112	204					1.12765e-66	1.23188e-66	0.139131	1	0
NKRF	55922	broad.mit.edu	37	X	118724016	118724016	+	Missense_Mutation	SNP	T	C	C			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chrX:118724016T>C	uc004erq.2	-	2	2025	c.1372A>G	c.(1372-1374)ACA>GCA	p.T458A	NKRF_uc004err.2_Missense_Mutation_p.T458A	NM_017544	NP_060014	O15226	NKRF_HUMAN	transcription factor NRF	458					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|double-stranded RNA binding			ovary(1)|central_nervous_system(1)	2						AACTGAGCTGTGTCGTTCAGC	0.428000													52	138					0	0	0.139131	0	0
BCORL1	63035	broad.mit.edu	37	X	129147463	129147463	+	Missense_Mutation	SNP	G	A	A			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chrX:129147463G>A	uc004evb.1	+	4	829	c.715G>A	c.(715-717)GTC>ATC	p.V239I	BCORL1_uc010nrd.1_Missense_Mutation_p.V141I	NM_021946	NP_068765	Q5H9F3	BCORL_HUMAN	BCL6 co-repressor-like 1	239	Pro-rich.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				ovary(4)|breast(2)|lung(1)	7						GCTTGTTCCAGTCCAAGTTGC	0.637000													92	163					0	0	0.139131	0	0
SLC25A14	9016	broad.mit.edu	37	X	129498601	129498601	+	Splice_Site	SNP	G	A	A			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chrX:129498601G>A	uc004evn.1	+	8	808	c.595_splice	c.e8-1	p.G199_splice	SLC25A14_uc011mut.1_Splice_Site_p.G135_splice|SLC25A14_uc011muu.1_Splice_Site_p.G199_splice|SLC25A14_uc010nrg.2_Splice_Site_p.G196_splice|SLC25A14_uc004evo.1_Splice_Site_p.G20_splice|SLC25A14_uc004evp.1_Splice_Site_p.G199_splice|SLC25A14_uc004evq.1_Splice_Site_p.G196_splice|SLC25A14_uc004evr.1_Splice_Site_p.G227_splice	NM_003951	NP_003942	O95258	UCP5_HUMAN	solute carrier family 25, member 14 isoform						aerobic respiration|mitochondrial transport	integral to plasma membrane|mitochondrial inner membrane	binding			ovary(1)	1						GTGTTTCGTAGGGTGTGGTTC	0.408000													36	89					0	0	0.092188	0	0
IGSF1	3547	broad.mit.edu	37	X	130413285	130413285	+	Silent	SNP	C	T	T			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chrX:130413285C>T	uc004ewd.2	-	10	1915	c.1677G>A	c.(1675-1677)GGG>GGA	p.G559G	IGSF1_uc004ewe.3_Silent_p.G548G|IGSF1_uc004ewf.2_Silent_p.G539G	NM_001555	NP_001546	Q8N6C5	IGSF1_HUMAN	immunoglobulin superfamily, member 1 isoform 1	559	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	extracellular region|integral to membrane	inhibin beta-A binding|inhibin beta-B binding			ovary(3)|lung(1)|central_nervous_system(1)	5						GCATGGTGACCCCTTGAGCTG	0.617000													25	56					0	0	0.108266	0	0
IGSF1	3547	broad.mit.edu	37	X	130415782	130415782	+	Missense_Mutation	SNP	T	G	G			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chrX:130415782T>G	uc004ewd.2	-	8	1621	c.1383A>C	c.(1381-1383)CAA>CAC	p.Q461H	IGSF1_uc004ewe.3_Missense_Mutation_p.Q450H|IGSF1_uc004ewf.2_Missense_Mutation_p.Q441H	NM_001555	NP_001546	Q8N6C5	IGSF1_HUMAN	immunoglobulin superfamily, member 1 isoform 1	461	Extracellular (Potential).|Ig-like C2-type 5.				regulation of transcription, DNA-dependent	extracellular region|integral to membrane	inhibin beta-A binding|inhibin beta-B binding			ovary(3)|lung(1)|central_nervous_system(1)	5						CTGAGAATTTTTGGAATGTTT	0.453000													41	51					0	0	0.086207	0	0
MYH13	8735	broad.mit.edu	37	17	10248554	10248554	+	Frame_Shift_Del	DEL	T	-	-			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr17:10248554delT	uc002gmk.1	-	15	1639	c.1549delA	c.(1549-1551)ATGfs	p.M517fs	MYH13_uc010vvf.1_Frame_Shift_Del_p.M192fs	NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	517	Myosin head-like.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						GCCAGGTCCATTCCGAAGTCA	0.522													13	181	---	---	---	---					
GOLGA2	2801	broad.mit.edu	37	9	131019389	131019390	+	Frame_Shift_Ins	INS	-	A	A			TCGA-HT-8104-01A-11D-2395-08	TCGA-HT-8104-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	42c28a52-8073-48ea-9d4b-48ecea6c5c22	e3c0bcc6-7cb4-47f8-ade2-ac60e960ca09	g.chr9:131019389_131019390insA	uc011maw.1	-	26	2978_2979	c.2965_2966insT	c.(2965-2967)TACfs	p.Y989fs	GOLGA2_uc010mxw.2_Frame_Shift_Ins_p.Y312fs|GOLGA2_uc004buh.2_Frame_Shift_Ins_p.Y339fs	NM_004486	NP_004477	Q08379	GOGA2_HUMAN	Golgi autoantigen, golgin subfamily a, 2	989						Golgi cisterna membrane	protein binding			ovary(1)	1						GTCAGCCCGGTAAAAAAAAGGA	0.564													7	221	---	---	---	---					
