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
WASH7P	653635	broad.mit.edu	37	1	14976	14976	+	RNA	SNP	G	A	A			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr1:14976G>A	uc009vis.2	-	3		c.369C>T			WASH7P_uc009vit.2_RNA|WASH7P_uc001aae.3_RNA|WASH7P_uc009viu.2_RNA|WASH7P_uc001aab.3_RNA|WASH7P_uc001aah.3_RNA|WASH7P_uc009vir.2_RNA|WASH7P_uc009viq.2_Intron|WASH7P_uc001aac.3_RNA|WASH7P_uc009viv.2_RNA|WASH7P_uc009viw.2_RNA					Homo sapiens cDNA FLJ31670 fis, clone NT2RI2004984.												0						CTACCCTTGCGCCTCATGACC	0.582000													5	24					0	0	0.411799	0	0
SRRM1	10250	broad.mit.edu	37	1	24995840	24995840	+	Silent	SNP	T	C	C			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr1:24995840T>C	uc001bjm.2	+	14	2190	c.1966T>C	c.(1966-1968)TTA>CTA	p.L656L	SRRM1_uc010oel.1_Silent_p.L668L|SRRM1_uc009vrh.1_Silent_p.L629L|SRRM1_uc009vri.1_Silent_p.L585L	NM_005839	NP_005830	Q8IYB3	SRRM1_HUMAN	serine/arginine repetitive matrix 1	656	Pro-rich.|Necessary for speckles and matrix localization.|Arg-rich.|Ser-rich.				mRNA 3'-end processing|mRNA export from nucleus|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|cytosol|nuclear matrix|nuclear speck	DNA binding|protein binding|RNA binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3		Colorectal(325;3.46e-05)|Renal(390;0.0007)|Lung NSC(340;0.000946)|all_lung(284;0.00125)|Ovarian(437;0.00764)|Breast(348;0.0148)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.19)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0422)|OV - Ovarian serous cystadenocarcinoma(117;1.01e-24)|Colorectal(126;5.95e-08)|COAD - Colon adenocarcinoma(152;3.24e-06)|GBM - Glioblastoma multiforme(114;0.000148)|BRCA - Breast invasive adenocarcinoma(304;0.00177)|KIRC - Kidney renal clear cell carcinoma(1967;0.00348)|STAD - Stomach adenocarcinoma(196;0.00483)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.138)		TTCACCTTCATTATCATCCAA	0.567000													3	53					0	0	0.115264	0	0
AMIGO1	57463	broad.mit.edu	37	1	110050585	110050585	+	Missense_Mutation	SNP	G	C	C			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr1:110050585G>C	uc001dxx.3	-	2	1332	c.950C>G	c.(949-951)ACA>AGA	p.T317R		NM_020703	NP_065754	Q86WK6	AMGO1_HUMAN	AMIGO protein precursor	317	Ig-like C2-type.|Extracellular (Potential).				axonal fasciculation|heterophilic cell-cell adhesion|homophilic cell adhesion|myelination|positive regulation of axonogenesis	axon|integral to membrane				ovary(1)|breast(1)	2		all_epithelial(167;2.83e-05)|all_lung(203;0.00016)|Lung NSC(277;0.000318)|Breast(1374;0.244)		Colorectal(144;0.0129)|Lung(183;0.0182)|Epithelial(280;0.046)|all cancers(265;0.0492)|READ - Rectum adenocarcinoma(129;0.0689)|LUSC - Lung squamous cell carcinoma(189;0.227)		CACACTCACTGTGCCATTGGT	0.512000													7	158					0	0	0.307466	0	0
AMPD1	270	broad.mit.edu	37	1	115216305	115216305	+	Silent	SNP	G	A	A			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr1:115216305G>A	uc001efe.1	-	15	2124	c.2040C>T	c.(2038-2040)TGC>TGT	p.C680C	AMPD1_uc001eff.1_Silent_p.C676C	NM_000036	NP_000027	P23109	AMPD1_HUMAN	adenosine monophosphate deaminase 1 (isoform M)	680					purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			ovary(2)|large_intestine(1)|skin(1)	4	all_epithelial(7;7.83e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;4.64e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)	Adenosine monophosphate(DB00131)	TTGCCACTTCGCACATATCAC	0.438000													36	33					0	0	0.853193	0	0
TCHH	7062	broad.mit.edu	37	1	152084077	152084077	+	Missense_Mutation	SNP	C	G	G			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr1:152084077C>G	uc001ezp.2	-	2	1616	c.1616G>C	c.(1615-1617)AGA>ACA	p.R539T	TCHH_uc009wne.1_Missense_Mutation_p.R539T	NM_007113	NP_009044	Q07283	TRHY_HUMAN	trichohyalin	539	9 X 28 AA approximate tandem repeats.				keratinization	cytoskeleton	calcium ion binding			ovary(3)|kidney(1)|central_nervous_system(1)	5	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CTGCTCGCGTCTTAGTTGTTG	0.652000													15	241					0	0	0.575678	0	0
LAMC1	3915	broad.mit.edu	37	1	183086809	183086809	+	Missense_Mutation	SNP	G	A	A			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr1:183086809G>A	uc001gpy.3	+	10	2085	c.1828G>A	c.(1828-1830)GCT>ACT	p.A610T		NM_002293	NP_002284	P11047	LAMC1_HUMAN	laminin, gamma 1 precursor	610	Laminin IV type A.				axon guidance|cell migration|endoderm development|extracellular matrix disassembly|hemidesmosome assembly|positive regulation of epithelial cell proliferation|protein complex assembly|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	extracellular matrix structural constituent			ovary(3)|large_intestine(1)|kidney(1)	5					Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	ACCCTTGATCGCTCAGGGCAA	0.483000													4	77					0	0	0.217242	0	0
MIA3	375056	broad.mit.edu	37	1	222803484	222803484	+	Silent	SNP	C	G	G			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr1:222803484C>G	uc001hnl.2	+	4	2931	c.2922C>G	c.(2920-2922)GTC>GTG	p.V974V	MIA3_uc009xea.1_Silent_p.V810V	NM_198551	NP_940953	Q5JRA6	MIA3_HUMAN	melanoma inhibitory activity family, member 3	974	Extracellular (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)		TGGAAAAAGTCCTAGATAAGG	0.428000													19	24					0	0	0.624587	0	0
ADARB2	105	broad.mit.edu	37	10	1779285	1779285	+	Missense_Mutation	SNP	G	C	C			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr10:1779285G>C	uc009xhq.2	-	1	434	c.60C>G	c.(58-60)TGC>TGG	p.C20W		NM_018702	NP_061172	Q9NS39	RED2_HUMAN	adenosine deaminase, RNA-specific, B2	20					mRNA processing	mitochondrion|nucleus	adenosine deaminase activity|double-stranded RNA binding|metal ion binding|single-stranded RNA binding			large_intestine(2)|central_nervous_system(1)	3		all_epithelial(10;0.059)|Colorectal(49;0.0815)		all cancers(11;0.0224)|GBM - Glioblastoma multiforme(2;0.0414)|Epithelial(11;0.165)		TCTTGGACTTGCATTTGAGTT	0.701000													44	231					0	0	0.870114	0	0
SLC17A6	57084	broad.mit.edu	37	11	22360149	22360149	+	Missense_Mutation	SNP	C	G	G			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr11:22360149C>G	uc001mqk.2	+	1	483	c.70C>G	c.(70-72)CTC>GTC	p.L24V		NM_020346	NP_065079	Q9P2U8	VGLU2_HUMAN	solute carrier family 17 (sodium-dependent	24	Cytoplasmic (Potential).				sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)|breast(1)	4						TGGAAAATCACTCGGCCAGAT	0.473000													9	26					0	0	0.335167	0	0
OR5D14	219436	broad.mit.edu	37	11	55563737	55563737	+	Missense_Mutation	SNP	C	T	T	rs145440752	byFrequency	TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr11:55563737C>T	uc010rim.1	+	1	706	c.706C>T	c.(706-708)CGC>TGC	p.R236C		NM_001004735	NP_001004735	Q8NGL3	OR5DE_HUMAN	olfactory receptor, family 5, subfamily D,	236	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3		all_epithelial(135;0.196)				TGTTAGTGGGCGCCACAAAGC	0.463000													32	52					0	0	0.788014	0	0
MMP20	9313	broad.mit.edu	37	11	102465488	102465488	+	Silent	SNP	C	G	G			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr11:102465488C>G	uc001phc.2	-	7	967	c.954G>C	c.(952-954)CGG>CGC	p.R318R		NM_004771	NP_004762	O60882	MMP20_HUMAN	matrix metalloproteinase 20 preproprotein	318	Hemopexin-like 1.				proteolysis|regulation of enamel mineralization	extracellular space|proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|protein binding|zinc ion binding			urinary_tract(1)|skin(1)	2	all_cancers(8;8.95e-05)|all_epithelial(12;0.00227)|Lung NSC(15;0.139)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0033)	Epithelial(9;0.0216)|Lung(13;0.0711)|all cancers(10;0.0889)|LUSC - Lung squamous cell carcinoma(19;0.13)	BRCA - Breast invasive adenocarcinoma(274;0.0161)		TCCAGAAAATCCTATGGGACA	0.418000													15	18					0	0	0.500413	0	0
MDM2	4193	broad.mit.edu	37	12	69230521	69230521	+	Missense_Mutation	SNP	T	C	C			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr12:69230521T>C	uc001sui.2	+	10	1197	c.910T>C	c.(910-912)TCC>CCC	p.S304P	MDM2_uc009zri.2_Missense_Mutation_p.S259P|MDM2_uc009zqx.2_Missense_Mutation_p.S249P|MDM2_uc009zqw.2_Intron|MDM2_uc001suk.2_Intron|MDM2_uc001sun.3_Missense_Mutation_p.S123P|MDM2_uc009zqz.2_Missense_Mutation_p.S251P|MDM2_uc009zra.2_Intron|MDM2_uc001sum.1_Intron|MDM2_uc009zrd.2_5'UTR|MDM2_uc009zrc.2_Intron|MDM2_uc009zre.2_Intron|MDM2_uc009zrf.2_Intron|MDM2_uc001suo.2_Missense_Mutation_p.S98P|MDM2_uc009zrg.2_Intron|MDM2_uc009zrh.2_Intron	NM_002392	NP_002383	Q00987	MDM2_HUMAN	mouse double minute 2 homolog isoform MDM2	298	Necessary for interaction with USP2.|ARF-binding.|Asp/Glu-rich (acidic).|Interaction with MTBP (By similarity).|Region II.				cellular response to hypoxia|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|establishment of protein localization|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell cycle arrest|negative regulation of DNA damage response, signal transduction by p53 class mediator|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of cell proliferation|positive regulation of mitotic cell cycle|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|protein complex assembly|protein destabilization|protein localization to nucleus|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to antibiotic|synaptic transmission	cytosol|endocytic vesicle membrane|insoluble fraction|nucleolus|nucleoplasm|plasma membrane|protein complex	enzyme binding|identical protein binding|p53 binding|ubiquitin-protein ligase activity|zinc ion binding			lung(2)|central_nervous_system(1)	3	all_cancers(1;8.46e-121)|all_epithelial(5;3.21e-36)|Lung NSC(4;2.16e-33)|all_lung(4;3.03e-31)|Glioma(1;1.9e-09)|Breast(13;1.59e-06)|all_neural(1;1.03e-05)|Melanoma(1;0.0171)|Renal(347;0.0684)		all cancers(2;8.67e-65)|GBM - Glioblastoma multiforme(2;8.89e-62)|BRCA - Breast invasive adenocarcinoma(5;2.43e-08)|Lung(24;1.5e-05)|LUAD - Lung adenocarcinoma(15;8.5e-05)|STAD - Stomach adenocarcinoma(21;0.00372)|Kidney(9;0.143)			TCCTGAAATTTCCTTAGCTGT	0.308000			A		sarcoma|glioma|colorectal|other								26	41					0	0	0.717897	0	0
PTPRB	5787	broad.mit.edu	37	12	71002871	71002871	+	Silent	SNP	C	T	T			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr12:71002871C>T	uc001swb.3	-	2	333	c.303G>A	c.(301-303)GAG>GAA	p.E101E	PTPRB_uc010sto.1_Silent_p.E101E|PTPRB_uc010stp.1_Silent_p.E101E|PTPRB_uc001swc.3_Silent_p.E319E|PTPRB_uc001swa.3_Silent_p.E319E|PTPRB_uc001swd.3_Silent_p.E318E|PTPRB_uc009zrr.1_Silent_p.E198E|PTPRB_uc001swe.2_Silent_p.E319E	NM_002837	NP_002828	P23467	PTPRB_HUMAN	protein tyrosine phosphatase, receptor type, B	101	Fibronectin type-III 1.|Extracellular (Potential).				angiogenesis	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(2)|skin(1)	3	Renal(347;0.236)		GBM - Glioblastoma multiforme(2;2.17e-05)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00306)|STAD - Stomach adenocarcinoma(21;0.149)			CCACTGTTCTCTCTTCATCCA	0.463000													5	120					0	0	0.248553	0	0
LOC284232	284232	broad.mit.edu	37	13	19419969	19419969	+	RNA	SNP	T	C	C	rs76149397		TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr13:19419969T>C	uc010tcj.1	-	1		c.26141A>G				NR_027995				Homo sapiens ankyrin repeat domain 20 family, member A2 pseudogene (LOC284232), non-coding RNA.												0						GACAAATTCATTGGTTTAGTT	0.303000													4	26					0	0	0.248553	0	0
LOC284232	284232	broad.mit.edu	37	13	19419995	19419995	+	RNA	SNP	C	G	G	rs78291036	by1000genomes	TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr13:19419995C>G	uc010tcj.1	-	1		c.26115G>C				NR_027995				Homo sapiens ankyrin repeat domain 20 family, member A2 pseudogene (LOC284232), non-coding RNA.												0						GAACTAAGAACAGTTAGATAA	0.294000													3	15					0	0	0.184627	0	0
GALNTL1	57452	broad.mit.edu	37	14	69813836	69813836	+	Missense_Mutation	SNP	G	A	A			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr14:69813836G>A	uc010aqu.1	+	13	1444	c.1351G>A	c.(1351-1353)GGT>AGT	p.G451S	GALNTL1_uc001xla.1_Missense_Mutation_p.G451S|GALNTL1_uc001xlb.1_Missense_Mutation_p.G451S	NM_020692	NP_065743	Q8N428	GLTL1_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	451	Ricin B-type lectin.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(1)|central_nervous_system(1)	2				all cancers(60;0.00793)|BRCA - Breast invasive adenocarcinoma(234;0.0174)|OV - Ovarian serous cystadenocarcinoma(108;0.0656)		GAACACAGCTGGTGACTTCCT	0.587000											OREG0022763	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	81					0	0	0.115264	0	0
GALC	2581	broad.mit.edu	37	14	88454494	88454494	+	Missense_Mutation	SNP	T	A	A			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr14:88454494T>A	uc001xvt.2	-	3	721	c.322A>T	c.(322-324)ACA>TCA	p.T108S	GALC_uc010tvx.1_Missense_Mutation_p.T82S|GALC_uc010tvy.1_Missense_Mutation_p.T85S|GALC_uc010tvz.1_Missense_Mutation_p.T52S|GALC_uc001xvu.1_Missense_Mutation_p.T108S	NM_000153	NP_000144	P54803	GALC_HUMAN	galactosylceramidase isoform a precursor	108					carbohydrate metabolic process|galactosylceramide catabolic process	lysosome	cation binding|galactosylceramidase activity				0						CTACCTGTTGTCTGCCCATCA	0.358000													15	30					0	0	0.520397	0	0
LIPC	3990	broad.mit.edu	37	15	58855814	58855814	+	Missense_Mutation	SNP	C	T	T			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr15:58855814C>T	uc010bga.1	+	10	1888	c.1280C>T	c.(1279-1281)GCC>GTC	p.A427V	LIPC_uc010bfz.1_Missense_Mutation_p.A427V|LIPC_uc002afa.1_Missense_Mutation_p.A427V|LIPC_uc010bgb.1_Missense_Mutation_p.A325V|LIPC_uc010ugy.1_Missense_Mutation_p.A366V	NM_000236	NP_000227	P11150	LIPC_HUMAN	lipase C precursor	427	PLAT.				cholesterol homeostasis|chylomicron remnant clearance|fatty acid biosynthetic process|high-density lipoprotein particle remodeling|intermediate-density lipoprotein particle remodeling|low-density lipoprotein particle remodeling|phosphatidylcholine catabolic process|triglyceride catabolic process|triglyceride homeostasis|very-low-density lipoprotein particle remodeling	high-density lipoprotein particle	apolipoprotein binding|heparin binding|low-density lipoprotein particle binding|phospholipase activity|triglyceride lipase activity			ovary(1)	1		Colorectal(260;0.215)		GBM - Glioblastoma multiforme(80;0.00213)|all cancers(107;0.00548)		GCAGTGTGGGCCAATGTCTGG	0.507000													6	83					0	0	0.278610	0	0
LINS1	55180	broad.mit.edu	37	15	101109585	101109585	+	Missense_Mutation	SNP	C	G	G	rs148450316		TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr15:101109585C>G	uc002bwe.2	-	8	2423	c.2132G>C	c.(2131-2133)AGA>ACA	p.R711T	LINS1_uc002bwd.2_Missense_Mutation_p.R298T|LINS1_uc002bwf.2_Missense_Mutation_p.R711T|LINS1_uc002bwg.2_Missense_Mutation_p.R711T|LINS1_uc002bwh.2_Missense_Mutation_p.R711T	NM_001040614	NP_001035704	Q8NG48	LINES_HUMAN	lines homolog 1	711											0	Lung NSC(78;0.0018)|all_lung(78;0.00223)|Melanoma(26;0.00852)		OV - Ovarian serous cystadenocarcinoma(32;0.00095)|LUSC - Lung squamous cell carcinoma(107;0.0766)|Lung(145;0.103)			TTTTACTATTCTGTAAAATAT	0.383000													6	80					0	0	0.248553	0	0
FAM192A	80011	broad.mit.edu	37	16	57206707	57206707	+	Silent	SNP	G	A	A			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr16:57206707G>A	uc010vhk.1	-	3	466	c.207C>T	c.(205-207)TAC>TAT	p.Y69Y	FAM192A_uc002ekz.3_Silent_p.Y69Y|FAM192A_uc002ekv.3_Translation_Start_Site|FAM192A_uc002ekw.3_Silent_p.Y69Y|FAM192A_uc002ekx.3_Silent_p.Y69Y|FAM192A_uc002eky.3_Silent_p.Y69Y|FAM192A_uc010ccx.2_Silent_p.Y69Y	NM_024946	NP_079222	Q9GZU8	F192A_HUMAN	NEFA-interacting nuclear protein NIP30	69						nucleus					0						ACTGTTCCTCGTACTCCTGCT	0.468000													42	46					0	0	0.870114	0	0
ANKRD11	29123	broad.mit.edu	37	16	89351668	89351668	+	Missense_Mutation	SNP	G	C	C			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr16:89351668G>C	uc002fmx.1	-	9	1743	c.1282C>G	c.(1282-1284)CTC>GTC	p.L428V	ANKRD11_uc002fmy.1_Missense_Mutation_p.L428V|ANKRD11_uc002fnc.1_Missense_Mutation_p.L428V|ANKRD11_uc002fnb.1_Missense_Mutation_p.L385V	NM_013275	NP_037407	Q6UB99	ANR11_HUMAN	ankyrin repeat domain 11	428						nucleus				ovary(4)|large_intestine(1)|central_nervous_system(1)	6		all_hematologic(23;0.00824)|Colorectal(91;0.0475)		Epithelial(1;5.33e-11)|all cancers(4;2.6e-09)|OV - Ovarian serous cystadenocarcinoma(4;2.29e-07)|BRCA - Breast invasive adenocarcinoma(80;0.0142)		TGTGCCGAGAGTCTCAGCTTC	0.433000													8	100					0	0	0.387290	0	0
TP53	7157	broad.mit.edu	37	17	7578203	7578203	+	Missense_Mutation	SNP	C	A	A			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr17:7578203C>A	uc002gim.2	-	6	840	c.646G>T	c.(646-648)GTG>TTG	p.V216L	TP53_uc002gig.1_Missense_Mutation_p.V216L|TP53_uc002gih.2_Missense_Mutation_p.V216L|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.V84L|TP53_uc010cng.1_Missense_Mutation_p.V84L|TP53_uc002gii.1_Missense_Mutation_p.V84L|TP53_uc010cnh.1_Missense_Mutation_p.V216L|TP53_uc010cni.1_Missense_Mutation_p.V216L|TP53_uc002gij.2_Missense_Mutation_p.V216L|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_Missense_Mutation_p.V123L|TP53_uc002gio.2_Missense_Mutation_p.V84L|TP53_uc010vug.1_Missense_Mutation_p.V177L	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	216	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		V -> A (in sporadic cancers; somatic mutation).|V -> E (in sporadic cancers; somatic mutation).|V -> W (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|V -> M (in sporadic cancers; somatic mutation).|V -> L (in sporadic cancers; somatic mutation).|V -> G (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.V216M(49)|p.V216del(8)|p.0?(7)|p.V216L(7)|p.V216E(4)|p.V216G(3)|p.V216A(3)|p.V216fs*6(2)|p.V216fs*31(2)|p.H214fs*5(2)|p.K164_P219del(1)|p.V216fs*32(1)|p.V216fs*33(1)|p.S215fs*27(1)|p.S215fs*29(1)|p.V216fs*5(1)|p.V216_Y220delVVVPY(1)|p.D208_V216delDRNTFRHSV(1)|p.D208fs*1(1)|p.V216fs*28(1)|p.S215fs*31(1)|p.S215_V216insX(1)|p.T211fs*28(1)|p.D207_V216del10(1)|p.S215_V218>R(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		GGCACCACCACACTATGTCGA	0.537000		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			26	26					1.77063e-15	1.89894e-15	0.693898	1	0
TP53	7157	broad.mit.edu	37	17	7578265	7578265	+	Missense_Mutation	SNP	A	T	T			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr17:7578265A>T	uc002gim.2	-	6	778	c.584T>A	c.(583-585)ATC>AAC	p.I195N	TP53_uc002gig.1_Missense_Mutation_p.I195N|TP53_uc002gih.2_Missense_Mutation_p.I195N|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.I63N|TP53_uc010cng.1_Missense_Mutation_p.I63N|TP53_uc002gii.1_Missense_Mutation_p.I63N|TP53_uc010cnh.1_Missense_Mutation_p.I195N|TP53_uc010cni.1_Missense_Mutation_p.I195N|TP53_uc002gij.2_Missense_Mutation_p.I195N|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_Missense_Mutation_p.I102N|TP53_uc002gio.2_Missense_Mutation_p.I63N|TP53_uc010vug.1_Missense_Mutation_p.I156N	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	195	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		I -> F (in sporadic cancers; somatic mutation).|I -> L (in a sporadic cancer; somatic mutation).|I -> S (in sporadic cancers; somatic mutation).|I -> T (in sporadic cancers; somatic mutation).|I -> V (in a sporadic cancer; somatic mutation).|I -> Y (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|I -> N (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.I195T(61)|p.I195F(16)|p.I195N(12)|p.0?(7)|p.I195S(4)|p.A189_V197delAPPQHLIRV(4)|p.I195fs*14(3)|p.I195fs*52(3)|p.K164_P219del(1)|p.I195L(1)|p.I195fs*50(1)|p.P191fs*6(1)|p.I195_G199delIRVEG(1)|p.H193_I195delHLI(1)|p.H193_I195>AP(1)|p.I195fs*12(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		TTCCACTCGGATAAGATGCTG	0.552000		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			27	42					0	0	0.788014	0	0
UBB	7314	broad.mit.edu	37	17	16285491	16285491	+	Silent	SNP	C	T	T	rs16962973		TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr17:16285491C>T	uc002gpx.2	+	2	408	c.270C>T	c.(268-270)ACC>ACT	p.T90T	UBB_uc010vwe.1_Intron	NM_018955	NP_061828	P0CG47	UBB_HUMAN	ubiquitin B precursor	90	Ubiquitin-like 2.				activation of MAPK activity|anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|anti-apoptosis|apoptosis|cellular membrane organization|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA repair|endosome transport|epidermal growth factor receptor signaling pathway|G1/S transition of mitotic cell cycle|I-kappaB kinase/NF-kappaB cascade|induction of apoptosis by extracellular signals|innate immune response|JNK cascade|M/G1 transition of mitotic cell cycle|mRNA metabolic process|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of type I interferon production|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|S phase of mitotic cell cycle|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|viral reproduction	cytosol|endocytic vesicle membrane|endosome membrane|nucleoplasm|plasma membrane	protein binding			skin(3)	3				UCEC - Uterine corpus endometrioid carcinoma (92;0.0822)		AGACCATCACCCTGGAAGTGG	0.552000													4	99					0	0	0.150653	0	0
UBB	7314	broad.mit.edu	37	17	16285497	16285497	+	Silent	SNP	A	G	G			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr17:16285497A>G	uc002gpx.2	+	2	414	c.276A>G	c.(274-276)GAA>GAG	p.E92E	UBB_uc010vwe.1_Intron	NM_018955	NP_061828	P0CG47	UBB_HUMAN	ubiquitin B precursor	92	Ubiquitin-like 2.				activation of MAPK activity|anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|anti-apoptosis|apoptosis|cellular membrane organization|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA repair|endosome transport|epidermal growth factor receptor signaling pathway|G1/S transition of mitotic cell cycle|I-kappaB kinase/NF-kappaB cascade|induction of apoptosis by extracellular signals|innate immune response|JNK cascade|M/G1 transition of mitotic cell cycle|mRNA metabolic process|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of type I interferon production|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|S phase of mitotic cell cycle|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|viral reproduction	cytosol|endocytic vesicle membrane|endosome membrane|nucleoplasm|plasma membrane	protein binding			skin(3)	3				UCEC - Uterine corpus endometrioid carcinoma (92;0.0822)		TCACCCTGGAAGTGGAGCCCA	0.557000													3	94					0	0	0.150653	0	0
EFCAB5	374786	broad.mit.edu	37	17	28409944	28409944	+	Silent	SNP	C	T	T			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr17:28409944C>T	uc002het.2	+	18	3654	c.3462C>T	c.(3460-3462)TAC>TAT	p.Y1154Y	EFCAB5_uc010cse.2_Silent_p.Y909Y|EFCAB5_uc010csf.2_Intron	NM_198529	NP_940931	A4FU69	EFCB5_HUMAN	EF-hand calcium binding domain 5 isoform a	1154							calcium ion binding			ovary(1)|skin(1)	2						CCTATCACTACGTCCACAGCC	0.398000													23	143					0	0	0.750413	0	0
CCL11	6356	broad.mit.edu	37	17	32612839	32612839	+	Silent	SNP	C	T	T			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr17:32612839C>T	uc002hia.1	+	1	153	c.12C>T	c.(10-12)TCC>TCT	p.S4S		NM_002986	NP_002977	P51671	CCL11_HUMAN	small inducible cytokine A11 precursor	4					cell adhesion|cellular calcium ion homeostasis|immune response|positive regulation of actin filament polymerization|positive regulation of cell migration|positive regulation of endothelial cell proliferation|positive regulation of Rac GTPase activity|protein phosphorylation|response to radiation|response to virus|signal transduction	extracellular space	chemokine activity				0	Breast(3;0.00224)	Breast(31;0.151)|Ovarian(249;0.17)		BRCA - Breast invasive adenocarcinoma(366;0.155)		TGAAGGTCTCCGCAGCACTTC	0.597000													12	207					0	0	0.457914	0	0
KRTAP4-11	653240	broad.mit.edu	37	17	39274343	39274343	+	Silent	SNP	A	G	G			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr17:39274343A>G	uc002hvz.2	-	1	264	c.225T>C	c.(223-225)TGT>TGC	p.C75C		NM_033059	NP_149048	Q9BYQ6	KR411_HUMAN	keratin associated protein 4-11	75	27 X 5 AA repeats of C-C-[GIKRQVHEL]- [SPTR]-[STVQRMC].|11.		Missing (in allele KAP4.14).			keratin filament					0		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000371)			AGCTGGGGCGACAGCAGCTGG	0.557000													5	152					0	0	0.217242	0	0
CASKIN2	57513	broad.mit.edu	37	17	73502705	73502705	+	Silent	SNP	G	T	T			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr17:73502705G>T	uc002joc.2	-	7	1126	c.576C>A	c.(574-576)CCC>CCA	p.P192P	CASKIN2_uc010wsc.1_Silent_p.P110P|CASKIN2_uc002jod.2_Silent_p.P192P	NM_020753	NP_065804	Q8WXE0	CSKI2_HUMAN	cask-interacting protein 2 isoform a	192	ANK 5.					cytoplasm				pancreas(1)	1	all_cancers(13;3.15e-09)|all_epithelial(9;5.78e-10)|Breast(9;5.8e-10)|all_lung(278;0.246)		all cancers(21;4.57e-07)|Epithelial(20;2.92e-06)|Lung(188;0.0809)|LUSC - Lung squamous cell carcinoma(166;0.154)			CCAAGTGCAGGGGCGTGGTGT	0.622000													5	150					0.000602214	0.000618943	0.184627	1	0
CASKIN2	57513	broad.mit.edu	37	17	73502707	73502707	+	Missense_Mutation	SNP	G	C	C			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr17:73502707G>C	uc002joc.2	-	7	1124	c.574C>G	c.(574-576)CCC>GCC	p.P192A	CASKIN2_uc010wsc.1_Missense_Mutation_p.P110A|CASKIN2_uc002jod.2_Missense_Mutation_p.P192A	NM_020753	NP_065804	Q8WXE0	CSKI2_HUMAN	cask-interacting protein 2 isoform a	192	ANK 5.					cytoplasm				pancreas(1)	1	all_cancers(13;3.15e-09)|all_epithelial(9;5.78e-10)|Breast(9;5.8e-10)|all_lung(278;0.246)		all cancers(21;4.57e-07)|Epithelial(20;2.92e-06)|Lung(188;0.0809)|LUSC - Lung squamous cell carcinoma(166;0.154)			AAGTGCAGGGGCGTGGTGTAG	0.622000													5	151					0	0	0.184627	0	0
LAMA1	284217	broad.mit.edu	37	18	7023260	7023260	+	Silent	SNP	C	A	A			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr18:7023260C>A	uc002knm.2	-	19	2698	c.2604G>T	c.(2602-2604)GGG>GGT	p.G868G	LAMA1_uc010wzj.1_Silent_p.G344G	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	868	Laminin EGF-like 8.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TCAGGCACTCCCCGGTGACTG	0.602000													32	39					1.26612e-14	1.33847e-14	0.779181	1	0
TCEB3B	51224	broad.mit.edu	37	18	44561111	44561111	+	Silent	SNP	T	G	G			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr18:44561111T>G	uc002lcr.1	-	1	878	c.525A>C	c.(523-525)ACA>ACC	p.T175T	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_016427	NP_057511	Q8IYF1	ELOA2_HUMAN	elongin A2	175					regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter	integral to membrane|nucleus	DNA binding			ovary(2)|large_intestine(1)|pancreas(1)	4						GGAGGGGAGCTGTGCGCGTTG	0.687000													4	65					0	0	0.150653	0	0
STARD6	147323	broad.mit.edu	37	18	51858176	51858176	+	Silent	SNP	G	A	A			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr18:51858176G>A	uc010xdt.1	-	4	321	c.321C>T	c.(319-321)TCC>TCT	p.S107S		NM_139171	NP_631910	P59095	STAR6_HUMAN	START domain containing protein 6	107	START.				lipid transport		lipid binding			ovary(1)	1				Colorectal(16;0.021)|READ - Rectum adenocarcinoma(59;0.188)		AGTCTCGAGGGGAAATGGAGC	0.368000													3	63					0	0	0.184627	0	0
TSHZ1	10194	broad.mit.edu	37	18	72999933	72999933	+	Silent	SNP	G	A	A			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr18:72999933G>A	uc002lly.2	+	2	2999	c.2436G>A	c.(2434-2436)ACG>ACA	p.T812T		NM_005786	NP_005777	Q6ZSZ6	TSH1_HUMAN	teashirt family zinc finger 1	857						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Esophageal squamous(42;0.129)|Prostate(75;0.142)|Melanoma(33;0.211)		Colorectal(1;0.000501)|READ - Rectum adenocarcinoma(2;0.00226)|BRCA - Breast invasive adenocarcinoma(31;0.246)		AGTCCTCCACGCCCTCCACAG	0.602000													4	57					0	0	0.184627	0	0
CSNK1G2	1455	broad.mit.edu	37	19	1979554	1979554	+	Missense_Mutation	SNP	A	G	G			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr19:1979554A>G	uc002lul.3	+	10	1437	c.914A>G	c.(913-915)TAT>TGT	p.Y305C	CSNK1G2_uc010dsu.2_Missense_Mutation_p.Y257C	NM_001319	NP_001310	P78368	KC1G2_HUMAN	casein kinase 1, gamma 2	305	Protein kinase.				sphingolipid metabolic process|Wnt receptor signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity			stomach(1)	1		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)		AAGCCCGACTATGACTACCTG	0.592000													35	46					0	0	0.834066	0	0
ICAM1	3383	broad.mit.edu	37	19	10394873	10394873	+	Missense_Mutation	SNP	G	A	A			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr19:10394873G>A	uc002mnq.2	+	4	1121	c.802G>A	c.(802-804)GAC>AAC	p.D268N	ICAM1_uc010xle.1_Missense_Mutation_p.D46N|ICAM4_uc002mnr.1_5'Flank|ICAM4_uc002mns.1_5'Flank|ICAM4_uc002mnt.1_5'Flank	NM_000201	NP_000192	P05362	ICAM1_HUMAN	intercellular adhesion molecule 1 precursor	268	Ig-like C2-type 3.|Extracellular (Potential).				adhesion to symbiont|heterophilic cell-cell adhesion|interferon-gamma-mediated signaling pathway|leukocyte cell-cell adhesion|leukocyte migration|membrane to membrane docking|positive regulation of cellular extravasation|regulation of immune response|regulation of leukocyte mediated cytotoxicity|T cell activation via T cell receptor contact with antigen bound to MHC molecule on antigen presenting cell|virion attachment, binding of host cell surface receptor	extracellular space|integral to plasma membrane	integrin binding|transmembrane receptor activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(20;1.39e-09)|Epithelial(33;2.81e-06)|all cancers(31;6.56e-06)		Natalizumab(DB00108)|Simvastatin(DB00641)	CTATGGCAACGACTCCTTCTC	0.632000													26	42					0	0	0.706142	0	0
AKAP8	10270	broad.mit.edu	37	19	15472624	15472624	+	Missense_Mutation	SNP	C	G	G			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr19:15472624C>G	uc002nav.2	-	11	1373	c.1312G>C	c.(1312-1314)GTA>CTA	p.V438L	AKAP8_uc010dzy.2_5'UTR|AKAP8_uc010dzz.1_RNA|AKAP8_uc010xog.1_Missense_Mutation_p.V252L	NM_005858	NP_005849	O43823	AKAP8_HUMAN	A-kinase anchor protein 8	438					signal transduction	nuclear matrix				ovary(1)|breast(1)	2						TTTCTGTTTACAATGTATTCC	0.458000													3	31					0	0	0.150653	0	0
ADCK4	79934	broad.mit.edu	37	19	41197999	41197999	+	Missense_Mutation	SNP	C	G	G			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr19:41197999C>G	uc002oor.2	-	15	1878	c.1576G>C	c.(1576-1578)GAC>CAC	p.D526H	NUMBL_uc010xvq.1_5'Flank|NUMBL_uc002oon.2_5'Flank|NUMBL_uc002ooo.2_5'Flank|NUMBL_uc010xvr.1_5'Flank|ADCK4_uc002oop.1_Missense_Mutation_p.D203H|ADCK4_uc002ooq.1_Missense_Mutation_p.D485H	NM_024876	NP_079152	Q96D53	ADCK4_HUMAN	aarF domain containing kinase 4 isoform a	526						integral to membrane	protein serine/threonine kinase activity				0			Lung(22;9.49e-05)|LUSC - Lung squamous cell carcinoma(20;0.000219)			GTGGCTGCGTCTGGCTGGCGA	0.672000													13	18					0	0	0.520397	0	0
ZNF460	10794	broad.mit.edu	37	19	57802257	57802257	+	Missense_Mutation	SNP	G	C	C			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr19:57802257G>C	uc002qog.2	+	3	670	c.348G>C	c.(346-348)GAG>GAC	p.E116D	ZNF460_uc010ygv.1_Missense_Mutation_p.E75D	NM_006635	NP_006626	Q14592	ZN460_HUMAN	zinc finger protein 460	116					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0694)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		CACAGAGTGAGAAACTCCATG	0.473000													37	53					0	0	0.796494	0	0
ZNF749	388567	broad.mit.edu	37	19	57955884	57955885	+	Missense_Mutation	DNP	CC	TG	TG			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr19:57955884_57955885CC>TG	uc002qoq.2	+	3	1622_1623	c.1368_1369CC>TG	c.(1366-1371)CACCAG>CATGAG	p.Q457E	ZNF547_uc002qpm.3_Intron	NM_001023561	NP_001018855	O43361	ZN749_HUMAN	zinc finger protein 749	457	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0264)|Lung(386;0.177)		TAGTTCAGCACCAGAAAATCCA	0.421000													4	65					0	0	0.115264	0	0
APOB	338	broad.mit.edu	37	2	21228306	21228306	+	Missense_Mutation	SNP	C	G	G			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr2:21228306C>G	uc002red.2	-	26	11562	c.11434G>C	c.(11434-11436)GAG>CAG	p.E3812Q		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	3812					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	ACGGTTATCTCAAAAAAGGGA	0.423000													59	72					0	0	0.870114	0	0
VAX2	25806	broad.mit.edu	37	2	71148309	71148309	+	Missense_Mutation	SNP	C	T	T			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr2:71148309C>T	uc002shh.2	+	2	361	c.329C>T	c.(328-330)ACT>ATT	p.T110I		NM_012476	NP_036608	Q9UIW0	VAX2_HUMAN	ventral anterior homeobox 2	110	Homeobox.				ectoderm development|visual perception	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						ACATCCTTCACTGCCGAGCAG	0.622000													4	76					0	0	0.184627	0	0
IDH1	3417	broad.mit.edu	37	2	209113113	209113113	+	Missense_Mutation	SNP	G	A	A	rs121913499		TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr2:209113113G>A	uc002vcs.2	-	4	640	c.394C>T	c.(394-396)CGT>TGT	p.R132C	IDH1_uc002vct.2_Missense_Mutation_p.R132C|IDH1_uc002vcu.2_Missense_Mutation_p.R132C	NM_005896	NP_005887	O75874	IDHC_HUMAN	isocitrate dehydrogenase 1 (NADP+), soluble	132		Substrate.	R -> G (in a glioma sample; glioblastoma multiforme; somatic mutation).|R -> L (in a glioma sample; glioblastoma multiforme; somatic mutation; abolishes magnesium binding and alters enzyme activity so that isocitrate is no longer converted to alpha-ketoglutarate but instead alpha-ketoglutarate is converted to R(-)-2-hydroxyglutarate).|R -> S (in a glioma sample; glioblastoma multiforme; somatic mutation; abolishes magnesium binding and alters enzyme activity so that isocitrate is no longer converted to alpha-ketoglutarate but instead alpha-ketoglutarate is converted to R(-)-2-hydroxyglutarate).|R -> H (in a glioma sample; glioblastoma multiforme; somatic mutation; abolishes magnesium binding and alters enzyme activity so that isocitrate is no longer converted to alpha-ketoglutarate but instead alpha-ketoglutarate is converted to R(-)-2-hydroxyglutarate).|R -> C (in colorectal cancer and glioma samples; glioblastoma multiforme; somatic mutation; abolishes magnesium binding and alters enzyme activity so that isocitrate is no longer converted to alpha- ketoglutarate but instead alpha- ketoglutarate is converted to R(-)-2- hydroxyglutarate).		2-oxoglutarate metabolic process|cellular lipid metabolic process|glyoxylate cycle|isocitrate metabolic process|NADPH regeneration|tricarboxylic acid cycle	cytosol|peroxisomal matrix	isocitrate dehydrogenase (NADP+) activity|magnesium ion binding|NAD binding|protein homodimerization activity	p.R132H(2023)|p.R132C(344)|p.R132?(210)|p.R132G(117)|p.R132S(79)|p.R132L(58)|p.R132V(1)|p.G131_R132>VL(1)		central_nervous_system(2156)|haematopoietic_and_lymphoid_tissue(606)|bone(74)|thyroid(22)|large_intestine(4)|skin(2)|prostate(2)|autonomic_ganglia(1)|soft_tissue(1)	2868				Epithelial(149;0.0322)|LUSC - Lung squamous cell carcinoma(261;0.0711)|Lung(261;0.136)		TAAGCATGACGACCTATGATG	0.398000			Mis		gliobastoma 								23	41					0	0	0.729181	0	0
FRG1B	284802	broad.mit.edu	37	20	29625875	29625875	+	Missense_Mutation	SNP	T	C	C	rs143761036	by1000genomes	TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr20:29625875T>C	uc010ztl.1	+	2	61	c.29T>C	c.(28-30)ATC>ACC	p.I10T	FRG1B_uc002wvm.1_RNA|FRG1B_uc010ztj.1_RNA|FRG1B_uc010gdr.1_RNA|FRG1B_uc010ztk.1_Intron					Homo sapiens cDNA FLJ32537 fis, clone SMINT2000400, highly similar to Homo sapiens FRG1 mRNA.												0						ATGTACAGAATCGCCCTGAAA	0.353000													3	41					0	0	0.115264	0	0
MYH7B	57644	broad.mit.edu	37	20	33567544	33567544	+	Silent	SNP	G	A	A			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr20:33567544G>A	uc010gfa.1	+	4	400	c.279G>A	c.(277-279)ACG>ACA	p.T93T	MYH7B_uc002xbi.1_Silent_p.T135T			A7E2Y1	MYH7B_HUMAN	RecName: Full=Myosin-7B; AltName: Full=Myosin heavy chain 7B, cardiac muscle beta isoform; AltName: Full=Myosin cardiac muscle beta chain; AltName: Full=Antigen MLAA-21; AltName: Full=Slow A MYH14;	93	Myosin head-like.					membrane|myosin filament	actin binding|ATP binding|motor activity			ovary(1)|breast(1)	2			BRCA - Breast invasive adenocarcinoma(18;0.00691)			CCATGATGACGCACCTGAACG	0.572000													47	71					0	0	0.870114	0	0
MMP24	10893	broad.mit.edu	37	20	33862232	33862232	+	Silent	SNP	C	T	T			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr20:33862232C>T	uc002xbu.2	+	9	1761	c.1758C>T	c.(1756-1758)GAC>GAT	p.D586D	EDEM2_uc010zuv.1_Intron	NM_006690	NP_006681	Q9Y5R2	MMP24_HUMAN	matrix metalloproteinase 24 preproprotein	586	Extracellular (Potential).				proteolysis	integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding				0			BRCA - Breast invasive adenocarcinoma(18;0.00252)			CCCAGGACGACGTGGACATCA	0.657000													90	131					0	0	0.870114	0	0
KCNB1	3745	broad.mit.edu	37	20	48098819	48098819	+	Missense_Mutation	SNP	C	G	G			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr20:48098819C>G	uc002xur.1	-	1	363	c.199G>C	c.(199-201)GAC>CAC	p.D67H	KCNB1_uc002xus.1_Missense_Mutation_p.D67H	NM_004975	NP_004966	Q14721	KCNB1_HUMAN	potassium voltage-gated channel, Shab-related	67	Cytoplasmic (Potential).				energy reserve metabolic process|regulation of insulin secretion	voltage-gated potassium channel complex	protein binding|voltage-gated potassium channel activity			pancreas(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(12;0.000405)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			AGCAGCGAGTCGTGCGTGTTG	0.662000													5	44					0	0	0.248553	0	0
TPTE	7179	broad.mit.edu	37	21	11012916	11012916	+	Splice_Site	SNP	C	A	A	rs4041777		TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr21:11012916C>A	uc002yis.1	-	9		c.1704_splice	c.e9+1					P56180	TPTE_HUMAN	Homo sapiens putative tyrosine phosphatase mRNA, complete cds.						signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		TCAAATTTTACCTAGCTTTTT	0.299000													4	8					0.00909568	0.00922028	0.150653	1	0
TPTE	7179	broad.mit.edu	37	21	11012923	11012923	+	RNA	SNP	T	C	C			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr21:11012923T>C	uc002yis.1	-	9		c.1698A>G						P56180	TPTE_HUMAN	Homo sapiens putative tyrosine phosphatase mRNA, complete cds.						signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		TTACCTAGCTTTTTTACTTTT	0.289000													5	10					0	0	0.184627	0	0
KRTAP10-2	386679	broad.mit.edu	37	21	45971107	45971107	+	Missense_Mutation	SNP	A	G	G			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr21:45971107A>G	uc002zfi.1	-	1	282	c.235T>C	c.(235-237)TGC>CGC	p.C79R	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198693	NP_941966	P60368	KR102_HUMAN	keratin associated protein 10-2	79	22 X 5 AA repeats of C-C-X(3).|4.					keratin filament				large_intestine(1)	1						TGCTGGCAGCACGAGGGCGTG	0.692000													6	220					0	0	0.217242	0	0
VHL	7428	broad.mit.edu	37	3	10191622	10191622	+	Silent	SNP	C	T	T			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr3:10191622C>T	uc003bvc.2	+	3	828	c.615C>T	c.(613-615)CGC>CGT	p.R205R	VHL_uc003bvd.2_Silent_p.R164R	NM_000551	NP_000542	P40337	VHL_HUMAN	von Hippel-Lindau tumor suppressor isoform 1	205					anti-apoptosis|cell morphogenesis|negative regulation of cell proliferation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of cell differentiation|positive regulation of transcription, DNA-dependent|protein stabilization|protein ubiquitination|proteolysis	cytosol|endoplasmic reticulum|membrane|mitochondrion|nucleus	protein binding|transcription factor binding	p.I206fs*10(2)		kidney(1273)|soft_tissue(24)|adrenal_gland(15)|large_intestine(13)|pancreas(5)|endometrium(4)|thyroid(3)|upper_aerodigestive_tract(3)|central_nervous_system(2)|lung(2)|pleura(1)|paratesticular_tissues(1)	1346				Kidney(1;0.000404)|KIRC - Kidney renal clear cell carcinoma(1;0.000569)		CACAGGAGCGCATTGCACATC	0.468000		1	D|Mis|N|F|S		renal|hemangioma|pheochromocytoma	renal|hemangioma|pheochromocytoma			von_Hippel-Lindau_disease|Chuvash_Polycythemia_|Pheochromocytoma_(Adrenal)_Familial				13	16					0	0	0.479597	0	0
ZIC4	84107	broad.mit.edu	37	3	147108852	147108852	+	Silent	SNP	G	C	C			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr3:147108852G>C	uc003ewd.1	-	4	1143	c.870C>G	c.(868-870)CGC>CGG	p.R290R	ZIC4_uc003ewc.1_Silent_p.R220R|ZIC4_uc011bno.1_Silent_p.R340R	NM_032153	NP_115529	Q8N9L1	ZIC4_HUMAN	zinc finger protein of the cerebellum 4	290						nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|central_nervous_system(1)	2						GCGGCGGCGAGCGCCCGTGCA	0.667000													5	108					0	0	0.307466	0	0
SDHAP2	727956	broad.mit.edu	37	3	195410687	195410687	+	Missense_Mutation	SNP	T	A	A	rs6583274	by1000genomes	TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr3:195410687T>A	uc003fuw.2	+	13	1778	c.584T>A	c.(583-585)GTG>GAG	p.V195E	SDHAP2_uc003fuv.2_RNA					SubName: Full=cDNA FLJ16373 fis, clone THYMU3000269, highly similar to Succinate dehydrogenase (ubiquinone) flavoprotein subunit, mitochondrial (EC 1.3.5.1);												0						CCCTTTGAGGTGCACTGGAGG	0.567000													4	28					0	0	0.217242	0	0
SDHAP2	727956	broad.mit.edu	37	3	195410689	195410689	+	Missense_Mutation	SNP	C	T	T	rs6583275	by1000genomes	TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr3:195410689C>T	uc003fuw.2	+	13	1780	c.586C>T	c.(586-588)CAC>TAC	p.H196Y	SDHAP2_uc003fuv.2_RNA					SubName: Full=cDNA FLJ16373 fis, clone THYMU3000269, highly similar to Succinate dehydrogenase (ubiquinone) flavoprotein subunit, mitochondrial (EC 1.3.5.1);												0						CTTTGAGGTGCACTGGAGGAA	0.567000													5	28					0	0	0.248553	0	0
UGT2B10	7365	broad.mit.edu	37	4	69696406	69696406	+	Missense_Mutation	SNP	G	C	C			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr4:69696406G>C	uc003hee.2	+	6	1421	c.1396G>C	c.(1396-1398)GTC>CTC	p.V466L	UGT2B10_uc011cam.1_Missense_Mutation_p.V382L	NM_001075	NP_001066	P36537	UDB10_HUMAN	UDP glucuronosyltransferase 2B10 isoform 1	466					lipid metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(3)|ovary(2)	5						GATTGAATTTGTCATGCGCCA	0.438000													11	188					0	0	0.479597	0	0
AFF1	4299	broad.mit.edu	37	4	88035546	88035546	+	Missense_Mutation	SNP	C	A	A			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr4:88035546C>A	uc003hqj.3	+	11	1947	c.1540C>A	c.(1540-1542)CAG>AAG	p.Q514K	AFF1_uc011ccz.1_Missense_Mutation_p.Q521K|AFF1_uc003hqk.3_Missense_Mutation_p.Q514K|AFF1_uc011cda.1_Missense_Mutation_p.Q152K	NM_005935	NP_005926	P51825	AFF1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	514						nucleus	sequence-specific DNA binding transcription factor activity			breast(1)	1		Acute lymphoblastic leukemia(40;0.0935)|all_hematologic(202;0.111)|Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000233)		AAACAAATGGCAGCTGGACAA	0.512000													7	21					2.0095e-06	2.09441e-06	0.248553	1	0
NAIP	4671	broad.mit.edu	37	5	70405049	70405049	+	Missense_Mutation	SNP	C	T	T			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr5:70405049C>T	uc003kat.1	-	1	2815	c.1549G>A	c.(1549-1551)GAC>AAC	p.D517N		NM_022892	NP_075043	Q13075	BIRC1_HUMAN	NLR family, apoptosis inhibitory protein isoform	905					anti-apoptosis|apoptosis|nervous system development	basolateral plasma membrane|cytoplasm	caspase inhibitor activity|metal ion binding|nucleoside-triphosphatase activity|nucleotide binding			central_nervous_system(1)	1		Lung NSC(167;4.15e-05)|Prostate(74;0.00996)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;3.04e-60)|Epithelial(20;7.09e-58)|all cancers(19;1.13e-53)|Lung(70;0.0174)		TCTGGGTGGTCGAAAAAGTAC	0.418000													9	138					0	0	0.479597	0	0
DIAPH1	1729	broad.mit.edu	37	5	140958726	140958726	+	Missense_Mutation	SNP	C	G	G			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr5:140958726C>G	uc003llb.3	-	9	1003	c.862G>C	c.(862-864)GAG>CAG	p.E288Q	DIAPH1_uc003llc.3_Missense_Mutation_p.E279Q	NM_005219	NP_005210	O60610	DIAP1_HUMAN	diaphanous 1 isoform 1	288	GBD/FH3.				regulation of microtubule-based process|sensory perception of sound	cytoplasm|cytoskeleton|ruffle membrane	actin binding|receptor binding|Rho GTPase binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCATCCATCTCAGCTCTTTCT	0.473000													5	226					0	0	0.248553	0	0
GABRG2	2566	broad.mit.edu	37	5	161569181	161569181	+	Missense_Mutation	SNP	G	T	T			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr5:161569181G>T	uc003lyz.3	+	7	1139	c.781G>T	c.(781-783)GTC>TTC	p.V261F	GABRG2_uc010jjc.2_Missense_Mutation_p.V301F|GABRG2_uc003lyy.3_Missense_Mutation_p.V261F|GABRG2_uc011dej.1_Missense_Mutation_p.V166F	NM_000816	NP_000807	P18507	GBRG2_HUMAN	gamma-aminobutyric acid A receptor, gamma 2	261	Extracellular (Probable).				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|protein binding			ovary(4)|skin(1)	5	Renal(175;0.000319)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0734)|OV - Ovarian serous cystadenocarcinoma(192;0.135)|Epithelial(171;0.136)		AGATTATGTGGTCATGTCTGT	0.403000													33	77					1.32136e-16	1.43795e-16	0.840704	1	0
MED23	9439	broad.mit.edu	37	6	131929091	131929091	+	Missense_Mutation	SNP	C	T	T			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr6:131929091C>T	uc003qcs.1	-	12	1372	c.1198G>A	c.(1198-1200)GAC>AAC	p.D400N	MED23_uc003qcq.2_Missense_Mutation_p.D406N|MED23_uc011eca.1_Intron|MED23_uc003qct.1_Missense_Mutation_p.D406N|MED23_uc011ecb.1_RNA	NM_004830	NP_004821	Q9ULK4	MED23_HUMAN	mediator complex subunit 23 isoform a	400					regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	transcription factor complex	protein binding|transcription coactivator activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	Breast(56;0.0753)			GBM - Glioblastoma multiforme(226;0.0115)|OV - Ovarian serous cystadenocarcinoma(155;0.0608)		TATAGCAAGTCGAAGAGCTTC	0.343000													16	21					0	0	0.557998	0	0
RBAK	57786	broad.mit.edu	37	7	5104674	5104674	+	Missense_Mutation	SNP	C	G	G			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr7:5104674C>G	uc010kss.1	+	6	1911	c.1587C>G	c.(1585-1587)CAC>CAG	p.H529Q	LOC389458_uc003snr.2_Intron|RBAK_uc003sns.1_Missense_Mutation_p.H529Q	NM_021163	NP_066986	Q9NYW8	RBAK_HUMAN	RB-associated KRAB repressor	529	Interaction with AR.|C2H2-type 10; degenerate.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(3)|kidney(1)|skin(1)	5		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0916)|OV - Ovarian serous cystadenocarcinoma(56;2.44e-14)		TCGATGGGCACCAGCCACTTC	0.383000													18	39					0	0	0.608945	0	0
HEPACAM2	253012	broad.mit.edu	37	7	92838050	92838050	+	Missense_Mutation	SNP	C	G	G			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr7:92838050C>G	uc003umm.2	-	4	878	c.855G>C	c.(853-855)AGG>AGC	p.R285S	HEPACAM2_uc003uml.2_Missense_Mutation_p.R273S|HEPACAM2_uc010lff.2_Missense_Mutation_p.R273S|HEPACAM2_uc011khy.1_Missense_Mutation_p.R308S	NM_001039372	NP_001034461	A8MVW5	HECA2_HUMAN	HEPACAM family member 2 isoform 1	285	Ig-like C2-type 2.|Extracellular (Potential).					integral to membrane				ovary(3)|breast(1)|kidney(1)	5						TATTGTCAGTCCTCCTAATCC	0.443000													26	23					0	0	0.740014	0	0
FEZF1	389549	broad.mit.edu	37	7	121943336	121943336	+	Silent	SNP	A	G	G			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr7:121943336A>G	uc003vkd.2	-	2	905	c.831T>C	c.(829-831)CGT>CGC	p.R277R	FEZF1_uc003vkc.2_Silent_p.R227R|uc010lko.1_5'Flank|uc003vkf.1_5'Flank	NM_001024613	NP_001019784	A0PJY2	FEZF1_HUMAN	FEZ family zinc finger 1 isoform 1	277	C2H2-type 1.				cell differentiation|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|breast(1)	3						CTGGCATGTGACGGGTTAAGT	0.473000													3	94					0	0	0.115264	0	0
CPA2	1358	broad.mit.edu	37	7	129929564	129929564	+	Missense_Mutation	SNP	C	G	G			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr7:129929564C>G	uc003vpq.2	+	11	1256	c.1237C>G	c.(1237-1239)CAT>GAT	p.H413D		NM_001869	NP_001860	P48052	CBPA2_HUMAN	carboxypeptidase A2 (pancreatic) precursor	413					proteolysis|vacuolar protein catabolic process	extracellular region|vacuole	metallocarboxypeptidase activity|zinc ion binding			ovary(1)	1	Melanoma(18;0.0435)					AATCATGGAGCATGTGCGAGA	0.512000													4	103					0	0	0.150653	0	0
KIAA1429	25962	broad.mit.edu	37	8	95530133	95530133	+	Missense_Mutation	SNP	C	T	T			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr8:95530133C>T	uc003ygo.1	-	10	2564	c.2551G>A	c.(2551-2553)GCA>ACA	p.A851T	KIAA1429_uc003ygp.2_Missense_Mutation_p.A851T|KIAA1429_uc010maz.1_RNA	NM_015496	NP_056311	Q69YN4	VIR_HUMAN	hypothetical protein LOC25962 isoform 1	851					mRNA processing|RNA splicing	nucleus				ovary(1)|skin(1)	2	Breast(36;3.29e-05)		BRCA - Breast invasive adenocarcinoma(8;0.00185)			AGTATGCATGCGTAATTATAA	0.318000													8	12					0	0	0.387290	0	0
SVEP1	79987	broad.mit.edu	37	9	113139603	113139603	+	Silent	SNP	G	C	C			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr9:113139603G>C	uc010mtz.2	-	45	10789	c.10452C>G	c.(10450-10452)CGC>CGG	p.R3484R	SVEP1_uc010mty.2_Silent_p.R1410R	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	3484					cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7						AAGCATTTGGGCGTTGGCAGA	0.502000													25	55					0	0	0.788014	0	0
TNFSF15	9966	broad.mit.edu	37	9	117568099	117568099	+	Missense_Mutation	SNP	G	A	A			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr9:117568099G>A	uc004bjh.2	-	1	310	c.194C>T	c.(193-195)GCC>GTC	p.A65V		NM_005118	NP_005109	O95150	TNF15_HUMAN	tumor necrosis factor (ligand) superfamily,	65	Extracellular (Potential).				activation of caspase activity|activation of NF-kappaB-inducing kinase activity|cytokine metabolic process|immune response	extracellular space|integral to plasma membrane	cytokine activity|tumor necrosis factor receptor binding				0						CTGCACACAGGCCTCTCCCTG	0.602000													14	64					0	0	0.575678	0	0
CACNA1B	774	broad.mit.edu	37	9	140946550	140946550	+	Silent	SNP	C	G	G			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr9:140946550C>G	uc004cog.2	+	25	3862	c.3717C>G	c.(3715-3717)TCC>TCG	p.S1239S	CACNA1B_uc011mfd.1_Silent_p.S769S|CACNA1B_uc004coi.2_Silent_p.S453S	NM_000718	NP_000709	Q00975	CAC1B_HUMAN	calcium channel, voltage-dependent, N type,	1239	Extracellular (Potential).|III.				membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	ATP binding|protein C-terminus binding|voltage-gated calcium channel activity			breast(3)|large_intestine(2)|ovary(1)	6	all_cancers(76;0.166)			OV - Ovarian serous cystadenocarcinoma(145;1.16e-05)|Epithelial(140;0.000476)	Amlodipine(DB00381)|Gabapentin(DB00996)	CTAGAGGATCCAAAGGGAAAG	0.582000													8	15					0	0	0.335167	0	0
FRMD7	90167	broad.mit.edu	37	X	131214292	131214292	+	Missense_Mutation	SNP	C	G	G			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chrX:131214292C>G	uc004ewn.2	-	10	1086	c.908G>C	c.(907-909)GGA>GCA	p.G303A	FRMD7_uc011muy.1_Missense_Mutation_p.G288A	NM_194277	NP_919253	Q6ZUT3	FRMD7_HUMAN	FERM domain containing 7	303					regulation of neuron projection development	cytoskeleton|growth cone|neuronal cell body	binding			skin(1)	1	Acute lymphoblastic leukemia(192;0.000127)					TTGGGTTCGTCCACTATCATA	0.373000													3	12					0	0	0.115264	0	0
BCL9	607	broad.mit.edu	37	1	147090673	147090673	+	Frame_Shift_Del	DEL	C	-	-			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr1:147090673delC	uc001epq.2	+	8	1452	c.712delC	c.(712-714)CCCfs	p.P238fs	BCL9_uc010ozr.1_Frame_Shift_Del_p.P164fs	NM_004326	NP_004317	O00512	BCL9_HUMAN	B-cell CLL/lymphoma 9	238	Pro-rich.				Wnt receptor signaling pathway	nucleus	protein binding			ovary(2)|large_intestine(2)|breast(1)|skin(1)	6	all_hematologic(923;0.115)					CCCACAACAGCCCCCAGCTCC	0.517			T	IGH@|IGL@	B-ALL								8	469	---	---	---	---					
C14orf4	64207	broad.mit.edu	37	14	77493762	77493767	+	In_Frame_Del	DEL	TGCTGC	-	-			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr14:77493762_77493767delTGCTGC	uc001xsy.2	-	1	1268_1273	c.369_374delGCAGCA	c.(367-375)CAGCAGCAA>CAA	p.123_125QQQ>Q		NM_024496	NP_078772	Q9H1B7	I2BPL_HUMAN	chromosome 14 open reading frame 4	123_125	Poly-Gln.|Potential.					nucleus					0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.00347)|KIRC - Kidney renal clear cell carcinoma(182;0.0878)		GAgctgttgttgctgctgctgctgct	0.233													5	3	---	---	---	---					
NOB1	28987	broad.mit.edu	37	16	69782978	69782980	+	In_Frame_Del	DEL	TCC	-	-			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr16:69782978_69782980delTCC	uc002exs.2	-	6	583_585	c.567_569delGGA	c.(565-570)GAGGAA>GAA	p.189_190EE>E		NM_014062	NP_054781	Q9ULX3	NOB1_HUMAN	nin one binding protein	189_190	Poly-Glu.					nucleus	metal ion binding|protein binding				0						CCCGTTTTCTTCCTCCTCCTCCT	0.522													10	148	---	---	---	---					
TFPT	29844	broad.mit.edu	37	19	54611378	54611379	+	Frame_Shift_Ins	INS	-	CCATC	CCATC			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr19:54611378_54611379insCCATC	uc010yej.1	-	5	1002_1003	c.596_597insGATGG	c.(595-597)GGAfs	p.G199fs		NM_013342	NP_037474	P0C1Z6	TFPT_HUMAN	TCF3 (E2A) fusion partner	199					apoptosis|DNA recombination|DNA repair|induction of apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|Ino80 complex	DNA binding|protein binding				0	all_cancers(19;0.004)|all_epithelial(19;0.00195)|all_lung(19;0.0193)|Lung NSC(19;0.0358)|Breast(117;0.137)|Ovarian(34;0.19)					CTGCTCGGCGTCCATCCCGTGG	0.713			T	TCF3	pre-B ALL								30	156	---	---	---	---					
GFRA4	64096	broad.mit.edu	37	20	3644008	3644010	+	In_Frame_Del	DEL	CAG	-	-			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr20:3644008_3644010delCAG	uc002wio.2	-	1	37_39	c.37_39delCTG	c.(37-39)CTGdel	p.L15del	GFRA4_uc002win.2_In_Frame_Del_p.L15del|GFRA4_uc002wip.1_In_Frame_Del_p.L15del	NM_145762	NP_665705	Q9GZZ7	GFRA4_HUMAN	GDNF family receptor alpha 4 isoform b	15						anchored to membrane|extracellular region|plasma membrane	receptor activity				0						CACCCAGTAACAGCAGCAGCAGC	0.621													7	37	---	---	---	---					
YEATS2	55689	broad.mit.edu	37	3	183493803	183493805	+	In_Frame_Del	DEL	AGG	-	-			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr3:183493803_183493805delAGG	uc003fly.2	+	18	2664_2666	c.2469_2471delAGG	c.(2467-2472)ACAGGA>ACA	p.G828del	YEATS2_uc003flz.2_5'UTR	NM_018023	NP_060493	Q9ULM3	YETS2_HUMAN	YEATS domain containing 2	828	Gly-rich.				histone H3 acetylation|negative regulation of transcription from RNA polymerase II promoter	Ada2/Gcn5/Ada3 transcription activator complex	TBP-class protein binding			ovary(3)|large_intestine(1)	4	all_cancers(143;6.55e-10)|Ovarian(172;0.0303)		all cancers(12;2.38e-42)|Epithelial(37;1.9e-36)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)			gcggcagcacaggaggaggagga	0.296													7	48	---	---	---	---					
CRIPAK	285464	broad.mit.edu	37	4	1388622	1388623	+	Frame_Shift_Ins	INS	-	CA	CA	rs79704405	byFrequency	TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr4:1388622_1388623insCA	uc003gdf.2	+	1	3283_3284	c.323_324insCA	c.(322-324)CTCfs	p.L108fs		NM_175918	NP_787114	Q8N1N5	CRPAK_HUMAN	cysteine-rich PAK1 inhibitor	108	2.				ER-nucleus signaling pathway|negative regulation of protein kinase activity|regulation of cytoskeleton organization|response to estrogen stimulus	endoplasmic reticulum|nucleus|plasma membrane	protein binding				0			OV - Ovarian serous cystadenocarcinoma(23;0.0106)			GCCCGCCTGCTCACGTGCCCAT	0.668													9	1059	---	---	---	---					
TIMD4	91937	broad.mit.edu	37	5	156378745	156378747	+	In_Frame_Del	DEL	TTG	-	-			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chr5:156378745_156378747delTTG	uc003lwh.2	-	3	512_514	c.455_457delCAA	c.(454-459)ACAAGC>AGC	p.T152del	TIMD4_uc010jii.2_In_Frame_Del_p.T152del	NM_138379	NP_612388	Q96H15	TIMD4_HUMAN	T-cell immunoglobulin and mucin domain	152	Extracellular (Potential).|Thr-rich.					integral to membrane				ovary(2)	2	Renal(175;0.00488)	Medulloblastoma(196;0.0523)|all_neural(177;0.21)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			GTGGTGGGGCTTGTTGTTGTTGT	0.537													7	477	---	---	---	---					
ATRX	546	broad.mit.edu	37	X	76939914	76939915	+	Frame_Shift_Del	DEL	AG	-	-			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chrX:76939914_76939915delAG	uc004ecp.3	-	9	1065_1066	c.833_834delCT	c.(832-834)ACTfs	p.T278fs	ATRX_uc004ecq.3_Frame_Shift_Del_p.T240fs|ATRX_uc004eco.3_Frame_Shift_Del_p.T63fs|ATRX_uc004ecr.2_Frame_Shift_Del_p.T239fs|ATRX_uc010nlx.1_Frame_Shift_Del_p.T278fs|ATRX_uc010nly.1_Frame_Shift_Del_p.T223fs	NM_000489	NP_000480	P46100	ATRX_HUMAN	transcriptional regulator ATRX isoform 1	278	ADD.				DNA methylation|DNA recombination|DNA repair|regulation of transcription, DNA-dependent	nuclear heterochromatin	ATP binding|chromo shadow domain binding|DNA binding|DNA helicase activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(14)|pancreas(12)|lung(1)|breast(1)|skin(1)|kidney(1)	30					Phosphatidylserine(DB00144)	TGTTACATGCAGTGACCAAGTC	0.371			Mis|F|N		Pancreatic neuroendocrine tumors		ATR-X (alpha thalassemia/mental retardation) syndrome						70	21	---	---	---	---					
PLXNA3	55558	broad.mit.edu	37	X	153688564	153688565	+	Frame_Shift_Ins	INS	-	G	G			TCGA-FG-8185-01A-11D-2253-08	TCGA-FG-8185-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae4ac656-6510-4297-9f72-ebccd48cf244	d9f613fd-47f3-4f89-a073-b75fad63df72	g.chrX:153688564_153688565insG	uc004flm.2	+	2	214_215	c.41_42insG	c.(40-42)GTGfs	p.V14fs		NM_017514	NP_059984	P51805	PLXA3_HUMAN	plexin A3 precursor	14					axon guidance	integral to membrane|intracellular|plasma membrane	transmembrane receptor activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					TTCCTTGCCGTGGGGGGGGCCC	0.683													7	74	---	---	---	---					
