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
CHD5	26038	broad.mit.edu	37	1	6204188	6204188	+	Silent	SNP	G	A	A			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr1:6204188G>A	uc001amb.1	-	12	1930	c.1830C>T	c.(1828-1830)TAC>TAT	p.Y610Y	CHD5_uc001ama.1_RNA|CHD5_uc001amc.1_RNA	NM_015557	NP_056372	Q8TDI0	CHD5_HUMAN	chromodomain helicase DNA binding protein 5	610	Chromo 2.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding|zinc ion binding			central_nervous_system(3)|breast(3)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	12	Ovarian(185;0.0634)	all_cancers(23;5.36e-32)|all_epithelial(116;2.32e-17)|all_neural(13;3.68e-06)|all_lung(118;3.94e-06)|all_hematologic(16;2.39e-05)|Lung NSC(185;5.33e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00373)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;3.08e-37)|GBM - Glioblastoma multiforme(13;1.36e-31)|OV - Ovarian serous cystadenocarcinoma(86;7.7e-19)|Colorectal(212;9.97e-08)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(185;6.16e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.00109)|BRCA - Breast invasive adenocarcinoma(365;0.0012)|STAD - Stomach adenocarcinoma(132;0.00346)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.193)		ACTTGATCAGGTAGTGCACAT	0.567000													69	66					0	0	0.139131	0	0
PTCHD2	57540	broad.mit.edu	37	1	11562884	11562884	+	Nonsense_Mutation	SNP	G	T	T			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr1:11562884G>T	uc001ash.3	+	3	1384	c.1246G>T	c.(1246-1248)GAG>TAG	p.E416*	PTCHD2_uc001asi.1_Nonsense_Mutation_p.E416*	NM_020780	NP_065831	Q9P2K9	PTHD2_HUMAN	patched domain containing 2	416	Extracellular (Potential).				cholesterol homeostasis|regulation of lipid transport|smoothened signaling pathway	endoplasmic reticulum|integral to membrane|nuclear membrane	hedgehog receptor activity			skin(3)|ovary(2)|pancreas(1)|breast(1)	7	Ovarian(185;0.249)	Lung NSC(185;4.16e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.13e-07)|COAD - Colon adenocarcinoma(227;4.83e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000325)|Kidney(185;0.000877)|KIRC - Kidney renal clear cell carcinoma(229;0.00273)|STAD - Stomach adenocarcinoma(313;0.00766)|READ - Rectum adenocarcinoma(331;0.0549)		TGACCGCTGGGAGGAACAACG	0.567000													5	63					5.18039e-06	5.30373e-06	0.038147	1	0
ARID1A	8289	broad.mit.edu	37	1	27057775	27057775	+	Missense_Mutation	SNP	C	T	T			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr1:27057775C>T	uc001bmv.1	+	3	1856	c.1483C>T	c.(1483-1485)CAT>TAT	p.H495Y	ARID1A_uc001bmt.1_Missense_Mutation_p.H495Y|ARID1A_uc001bmu.1_Missense_Mutation_p.H495Y|ARID1A_uc001bmw.1_Missense_Mutation_p.H112Y	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	495					androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding			ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		CCAGACCCCTCATGCCCAACC	0.582000			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								52	318					0	0	0.139131	0	0
C1orf177	163747	broad.mit.edu	37	1	55272686	55272686	+	Missense_Mutation	SNP	T	C	C			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr1:55272686T>C	uc001cyb.3	+	2	176	c.122T>C	c.(121-123)GTT>GCT	p.V41A	C1orf177_uc001cya.3_Missense_Mutation_p.V41A	NM_001110533	NP_001104003	Q3ZCV2	CA177_HUMAN	hypothetical protein LOC163747 isoform 2	41											0						ATCTCTGCTGTTTATCCCAAC	0.582000													79	113					0	0	0.139131	0	0
L1TD1	54596	broad.mit.edu	37	1	62672679	62672679	+	Missense_Mutation	SNP	G	C	C			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr1:62672679G>C	uc001dae.3	+	3	681	c.379G>C	c.(379-381)GGT>CGT	p.G127R		NM_019079	NP_061952	Q5T7N2	LITD1_HUMAN	LINE-1 type transposase domain containing 1	127										ovary(1)|skin(1)	2						ctctaaaataggtgatgataa	0.050000													40	45					0	0	0.080422	0	0
VANGL1	81839	broad.mit.edu	37	1	116202267	116202267	+	Missense_Mutation	SNP	G	C	C	rs143990097		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr1:116202267G>C	uc001efv.1	+	3	348	c.77G>C	c.(76-78)AGA>ACA	p.R26T	VANGL1_uc009wgy.1_Missense_Mutation_p.R26T|VANGL1_uc001efw.1_Missense_Mutation_p.R26T	NM_138959	NP_620409	Q8TAA9	VANG1_HUMAN	vang-like 1	26	Cytoplasmic (Potential).				multicellular organismal development	integral to membrane	protein binding			central_nervous_system(1)	1	Lung SC(450;0.211)	all_cancers(81;1.24e-06)|all_epithelial(167;1.02e-06)|all_lung(203;7.95e-06)|Lung NSC(69;4.97e-05)		Lung(183;0.0171)|Colorectal(144;0.0686)|LUSC - Lung squamous cell carcinoma(189;0.0903)|all cancers(265;0.108)|COAD - Colon adenocarcinoma(174;0.111)|Epithelial(280;0.12)		TTCAGGGAAAGAACTAGAGAG	0.413000													7	151					0	0	0.038147	0	0
NTRK1	4914	broad.mit.edu	37	1	156849153	156849153	+	Missense_Mutation	SNP	G	A	A			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr1:156849153G>A	uc001fqh.1	+	15	2101	c.2045G>A	c.(2044-2046)CGT>CAT	p.R682H	NTRK1_uc001fqf.1_Missense_Mutation_p.R646H|NTRK1_uc009wsi.1_Missense_Mutation_p.R381H|NTRK1_uc001fqi.1_Missense_Mutation_p.R676H|NTRK1_uc009wsk.1_Missense_Mutation_p.R679H	NM_002529	NP_002520	P04629	NTRK1_HUMAN	neurotrophic tyrosine kinase, receptor, type 1	682	Cytoplasmic (Potential).|Protein kinase.				activation of adenylate cyclase activity|activation of MAPKK activity|activation of phospholipase C activity|cell differentiation|nerve growth factor receptor signaling pathway|nervous system development|phosphatidylinositol-mediated signaling|Ras protein signal transduction	endosome|integral to plasma membrane	ATP binding|neurotrophin receptor activity|transmembrane receptor protein serine/threonine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(9)|ovary(6)|stomach(1)|central_nervous_system(1)	17	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)				Imatinib(DB00619)	GACTATTACCGTGTAAGGGTC	0.562000			T	TPM3|TPR|TFG	papillary thyroid					TSP Lung(10;0.080)			32	30					0	0	0.074837	0	0
NEK7	140609	broad.mit.edu	37	1	198266319	198266319	+	Missense_Mutation	SNP	G	C	C			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr1:198266319G>C	uc001gun.3	+	9	1074	c.747G>C	c.(745-747)AAG>AAC	p.K249N		NM_133494	NP_598001	Q8TDX7	NEK7_HUMAN	NIMA-related kinase 7	249	Protein kinase.					cytoplasm	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			stomach(2)|lung(1)|ovary(1)	4						TGTGTAAGAAGATAGAACAGT	0.378000													70	85					0	0	0.139131	0	0
SPAG6	9576	broad.mit.edu	37	10	22676767	22676767	+	Missense_Mutation	SNP	G	T	T			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr10:22676767G>T	uc001iri.2	+	6	836	c.694G>T	c.(694-696)GCT>TCT	p.A232S	SPAG6_uc001irj.2_Missense_Mutation_p.A232S|SPAG6_uc010qct.1_Missense_Mutation_p.A202S|SPAG6_uc009xkh.2_Missense_Mutation_p.A210S	NM_012443	NP_036575	O75602	SPAG6_HUMAN	sperm associated antigen 6 isoform 1	232	ARM 5.				cell projection organization|spermatid development	axoneme|cilium|cytoplasm|flagellum|microtubule	binding			breast(1)	1						GATCCTTTCAGCTCTCAGTCA	0.373000													23	45					7.87624e-14	8.32816e-14	0.076483	1	0
PIP4K2A	5305	broad.mit.edu	37	10	23003187	23003187	+	Silent	SNP	G	A	A			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr10:23003187G>A	uc001irl.3	-	1	317	c.69C>T	c.(67-69)TTC>TTT	p.F23F		NM_005028	NP_005019	P48426	PI42A_HUMAN	phosphatidylinositol-5-phosphate 4-kinase, type	23							1-phosphatidylinositol-4-phosphate 5-kinase activity|1-phosphatidylinositol-5-phosphate 4-kinase activity|ATP binding			ovary(1)|skin(1)	2						TCTGCGCTACGAAGTGCTTCT	0.647000													17	21					0	0	0.160694	0	0
ZNF485	220992	broad.mit.edu	37	10	44112496	44112496	+	Silent	SNP	C	T	T			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr10:44112496C>T	uc010qfc.1	+	5	1199	c.1005C>T	c.(1003-1005)TTC>TTT	p.F335F	ZNF485_uc010qfd.1_Silent_p.F244F	NM_145312	NP_660355	Q8NCK3	ZN485_HUMAN	zinc finger protein 485	335	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GAAAATCTTTCAGGTATAGCT	0.428000													37	63					0	0	0.104719	0	0
PCDH15	65217	broad.mit.edu	37	10	55583106	55583106	+	Silent	SNP	G	C	C			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr10:55583106G>C	uc001jju.1	-	33	4775	c.4380C>G	c.(4378-4380)CTC>CTG	p.L1460L	PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qhs.1_Intron|PCDH15_uc010qht.1_Intron|PCDH15_uc010qhu.1_Intron|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Silent_p.L1457L|PCDH15_uc010qhw.1_Silent_p.L1420L|PCDH15_uc010qhx.1_Silent_p.L1391L|PCDH15_uc010qhy.1_Silent_p.L1467L|PCDH15_uc010qhz.1_Silent_p.L1462L|PCDH15_uc010qia.1_Silent_p.L1440L|PCDH15_uc010qib.1_Silent_p.L1437L	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	1460	Cytoplasmic (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				GAAAATGGTAGAGAAGGAAAA	0.363000										HNSCC(58;0.16)			8	58					0	0	0.058154	0	0
AGAP5	729092	broad.mit.edu	37	10	75457454	75457454	+	Silent	SNP	T	C	C			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr10:75457454T>C	uc009xri.2	-	1	101	c.60A>G	c.(58-60)CAA>CAG	p.Q20Q	AGAP5_uc001juu.3_5'UTR	NM_001144000	NP_001137472	A6NIR3	AGAP5_HUMAN	ArfGAP with GTPase domain, ankyrin repeat and PH	20					regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding				0						CCGACCCCTGTTGCTGGTCAA	0.607000													3	75					0	0	0.014758	0	0
DLG5	9231	broad.mit.edu	37	10	79686110	79686110	+	Missense_Mutation	SNP	G	A	A			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr10:79686110G>A	uc001jzk.2	-	1	239	c.169C>T	c.(169-171)CTC>TTC	p.L57F	LOC100128292_uc010qln.1_5'Flank	NM_004747	NP_004738	Q8TDM6	DLG5_HUMAN	discs large homolog 5	57					cell-cell adhesion|intracellular signal transduction|negative regulation of cell proliferation|regulation of apoptosis	cell junction|cytoplasm	beta-catenin binding|cytoskeletal protein binding|receptor signaling complex scaffold activity			ovary(5)|breast(3)	8	all_cancers(46;0.0316)|all_epithelial(25;0.00147)|Breast(12;0.0015)|Prostate(51;0.0146)		Epithelial(14;0.00105)|OV - Ovarian serous cystadenocarcinoma(4;0.00151)|all cancers(16;0.00446)			AGCAGCTTGAGCAGCAGCTCC	0.706000													4	5					0	0	0.150653	0	0
RPS24	6229	broad.mit.edu	37	10	79796974	79796974	+	Missense_Mutation	SNP	A	G	G			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr10:79796974A>G	uc001jzq.2	+	4	444	c.302A>G	c.(301-303)AAG>AGG	p.K101R	RPS24_uc010qlo.1_Missense_Mutation_p.K101R|RPS24_uc001jzp.2_Missense_Mutation_p.K101R|RPS24_uc001jzs.2_Missense_Mutation_p.K101R|RPS24_uc001jzt.2_RNA	NM_001026	NP_001017	P62847	RS24_HUMAN	ribosomal protein S24 isoform c	101					endocrine pancreas development|erythrocyte homeostasis|maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit|nucleolus	nucleotide binding|structural constituent of ribosome|translation initiation factor binding			skin(1)	1	all_cancers(46;0.0343)|all_epithelial(25;0.000959)|Breast(12;0.00113)|Prostate(51;0.0095)		Epithelial(14;0.00128)|OV - Ovarian serous cystadenocarcinoma(4;0.00248)|all cancers(16;0.00428)			GAGAAGAAAAAGACCTCAAGA	0.428000													2	12					0	0	0.115264	0	0
FAM178A	55719	broad.mit.edu	37	10	102683799	102683799	+	Silent	SNP	C	T	T			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr10:102683799C>T	uc001krt.3	+	5	1583	c.1041C>T	c.(1039-1041)AGC>AGT	p.S347S	FAM178A_uc001krr.1_Silent_p.S347S|FAM178A_uc001krs.2_Silent_p.S347S|FAM178A_uc001kru.1_Silent_p.S282S	NM_018121	NP_060591	Q8IX21	F178A_HUMAN	hypothetical protein LOC55719 isoform 1	347											0						ATCTGAAAAGCACAAGAGAAT	0.343000													20	26					0	0	0.049695	0	0
NFKB2	4791	broad.mit.edu	37	10	104161522	104161522	+	Missense_Mutation	SNP	G	C	C			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr10:104161522G>C	uc001kvb.2	+	21	2579	c.2314G>C	c.(2314-2316)GAT>CAT	p.D772H	NFKB2_uc001kva.2_Missense_Mutation_p.D772H|NFKB2_uc001kvd.2_Missense_Mutation_p.D772H|NFKB2_uc009xxc.2_Missense_Mutation_p.D772H	NM_001077494	NP_001070962	Q00653	NFKB2_HUMAN	nuclear factor of kappa light polypeptide gene	772	Death.		Missing (in truncated form p80HT).|Missing (in truncated form LB40).|Missing (in truncated form EB308).		innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|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	Bcl3/NF-kappaB2 complex|cytosol|nucleoplasm	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			lung(3)	3		Colorectal(252;0.00957)		Epithelial(162;3.4e-08)|all cancers(201;6.41e-07)		GTCACTTGGTGATACAGCTCT	0.597000			T	IGH@	B-NHL								7	30					0	0	0.038147	0	0
BRSK2	9024	broad.mit.edu	37	11	1466527	1466527	+	Silent	SNP	G	C	C			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr11:1466527G>C	uc001lti.2	+	10	1202	c.816G>C	c.(814-816)GGG>GGC	p.G272G	BRSK2_uc009ycv.1_Silent_p.G272G|BRSK2_uc001lth.1_Silent_p.G272G|BRSK2_uc001ltj.2_Silent_p.G272G|BRSK2_uc001ltk.2_RNA|BRSK2_uc001ltl.2_Silent_p.G272G|BRSK2_uc001ltm.2_Silent_p.G318G|BRSK2_uc001ltn.2_RNA|BRSK2_uc010qwx.1_RNA	NM_003957	NP_003948	Q8IWQ3	BRSK2_HUMAN	BR serine/threonine kinase 2	272					establishment of cell polarity|neuron differentiation		ATP binding|magnesium ion binding|protein serine/threonine kinase activity				0		all_epithelial(84;4.17e-05)|Breast(177;0.000307)|Ovarian(85;0.0014)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00144)|Lung(200;0.0713)|LUSC - Lung squamous cell carcinoma(625;0.0842)		TCCACAGAGGGGGCAAGAATG	0.692000													3	6					0	0	0.150653	0	0
OR52J3	119679	broad.mit.edu	37	11	5068082	5068082	+	Silent	SNP	C	T	T			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr11:5068082C>T	uc010qyv.1	+	1	327	c.327C>T	c.(325-327)TTC>TTT	p.F109F		NM_001001916	NP_001001916	Q8NH60	O52J3_HUMAN	olfactory receptor, family 52, subfamily J,	109	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|lung(1)|skin(1)	3		Medulloblastoma(188;0.00131)|all_neural(188;0.0189)|Breast(177;0.0204)		Epithelial(150;9.29e-10)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.19)		TCCATGCCTTCACTGGCATGG	0.502000													12	64					0	0	0.080935	0	0
OR51B6	390058	broad.mit.edu	37	11	5373545	5373545	+	Missense_Mutation	SNP	G	T	T	rs138981931		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr11:5373545G>T	uc010qzb.1	+	1	808	c.808G>T	c.(808-810)GTT>TTT	p.V270F	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001004750	NP_001004750	Q9H340	O51B6_HUMAN	olfactory receptor, family 51, subfamily B,	270	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;2.9e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TCCTCATGTCGTTCACATCAC	0.398000													77	99					2.48295e-43	2.66917e-43	0.139131	1	0
TUB	7275	broad.mit.edu	37	11	8120419	8120419	+	Missense_Mutation	SNP	C	G	G			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr11:8120419C>G	uc001mga.2	+	9	1262	c.1113C>G	c.(1111-1113)TGC>TGG	p.C371W	TUB_uc010rbk.1_Missense_Mutation_p.C377W|TUB_uc001mfy.2_Missense_Mutation_p.C426W	NM_177972	NP_813977	P50607	TUB_HUMAN	tubby isoform b	371					phagocytosis|positive regulation of phagocytosis|response to stimulus	cytoplasm|extracellular region|nucleus|plasma membrane				ovary(1)	1		all_lung(207;6.91e-20)|Lung NSC(207;3.36e-17)		Epithelial(150;1.69e-62)|BRCA - Breast invasive adenocarcinoma(625;8.54e-06)|LUSC - Lung squamous cell carcinoma(625;0.000184)		CAGCTGTGTGCTACGTGAGTC	0.502000											OREG0020732	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	33	51					0	0	0.144211	0	0
ELP4	26610	broad.mit.edu	37	11	31561263	31561263	+	Missense_Mutation	SNP	A	G	G			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr11:31561263A>G	uc001mtb.2	+	3	349	c.314A>G	c.(313-315)GAA>GGA	p.E105G	ELP4_uc001mta.1_RNA|ELP4_uc001mtc.2_Missense_Mutation_p.E105G|ELP4_uc010rdz.1_Missense_Mutation_p.E105G	NM_019040	NP_061913	Q96EB1	ELP4_HUMAN	elongation protein 4 homolog	105					histone acetylation|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|DNA-directed RNA polymerase II, holoenzyme|Elongator holoenzyme complex|transcription elongation factor complex	phosphorylase kinase regulator activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)|prostate(1)	3	Lung SC(675;0.225)					TTCCTGGCAGAAGGAATTGTC	0.338000													72	106					0	0	0.139131	0	0
OR4A16	81327	broad.mit.edu	37	11	55111508	55111508	+	Missense_Mutation	SNP	C	A	A			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr11:55111508C>A	uc010rie.1	+	1	832	c.832C>A	c.(832-834)CTC>ATC	p.L278I		NM_001005274	NP_001005274	Q8NH70	O4A16_HUMAN	olfactory receptor, family 4, subfamily A,	278	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(2)|pancreas(1)	3						AATTATCACACTCATGTTGAA	0.323000													27	55					7.92952e-12	8.24926e-12	0.091800	1	0
BSCL2	26580	broad.mit.edu	37	11	62458109	62458109	+	Silent	SNP	C	T	T			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr11:62458109C>T	uc001nuo.1	-	10	1441	c.1017G>A	c.(1015-1017)GAG>GAA	p.E339E	LRRN4CL_uc001nun.2_5'Flank|BSCL2_uc009yoc.1_3'UTR|BSCL2_uc001nup.2_Silent_p.E339E|BSCL2_uc001nuq.1_Silent_p.E339E|BSCL2_uc001nur.3_Silent_p.E403E|BSCL2_uc009yod.2_Silent_p.E403E|BSCL2_uc001nut.3_Silent_p.E405E|HNRNPUL2_uc001nuu.1_RNA	NM_032667	NP_116056	Q96G97	BSCL2_HUMAN	seipin isoform 2	339	Cytoplasmic (Potential).				cell death	integral to endoplasmic reticulum membrane					0						GCTCTAGCTCCTCTTCTCCGC	0.567000													60	79					0	0	0.139131	0	0
NANOG	79923	broad.mit.edu	37	12	7942255	7942255	+	Missense_Mutation	SNP	A	C	C			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr12:7942255A>C	uc009zfy.1	+	1	261	c.45A>C	c.(43-45)GAA>GAC	p.E15D		NM_024865	NP_079141	Q9H9S0	NANOG_HUMAN	Nanog homeobox	15					cell proliferation|embryo development|somatic stem cell maintenance	nucleolus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0				Kidney(36;0.0872)		CTTGCTTTGAAGCATCCGACT	0.443000													25	131					0	0	0.099896	0	0
MAGOHB	55110	broad.mit.edu	37	12	10766047	10766047	+	Silent	SNP	G	T	T			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr12:10766047G>T	uc001qyq.1	-	1	137	c.85C>A	c.(85-87)CGG>AGG	p.R29R	MAGOHB_uc001qyr.1_RNA	NM_018048	NP_060518	Q96A72	MGN2_HUMAN	mago-nashi homolog B	29					mRNA processing|mRNA transport|RNA splicing	nucleus	RNA binding			breast(1)	1						CCGTCCGGCCGAAATTCGAAC	0.617000													7	81					1.06961e-07	1.10384e-07	0.038147	1	0
CIT	11113	broad.mit.edu	37	12	120173153	120173153	+	Missense_Mutation	SNP	C	T	T			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr12:120173153C>T	uc001txi.1	-	24	2895	c.2842G>A	c.(2842-2844)GAC>AAC	p.D948N	CIT_uc001txh.1_Missense_Mutation_p.D482N|CIT_uc001txj.1_Missense_Mutation_p.D990N	NM_007174	NP_009105	O14578	CTRO_HUMAN	citron	948	Potential.				intracellular signal transduction		ATP binding|metal ion binding|protein serine/threonine kinase activity|SH3 domain binding|small GTPase regulator activity			ovary(6)|urinary_tract(1)|lung(1)|breast(1)|skin(1)	10	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)	Myeloproliferative disorder(1001;0.0255)		BRCA - Breast invasive adenocarcinoma(302;0.211)		TCCTCCAGGTCTGTGATTACC	0.458000													39	57					0	0	0.080422	0	0
OASL	8638	broad.mit.edu	37	12	121465530	121465530	+	Nonsense_Mutation	SNP	C	A	A			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr12:121465530C>A	uc001tzj.1	-	4	754	c.748G>T	c.(748-750)GAA>TAA	p.E250*	OASL_uc001tzk.1_Intron	NM_003733	NP_003724	Q15646	OASL_HUMAN	2'-5'-oligoadenylate synthetase-like isoform a	250					interferon-gamma-mediated signaling pathway|type I interferon-mediated signaling pathway	cytoplasm|nucleolus	ATP binding|DNA binding|double-stranded RNA binding|thyroid hormone receptor binding|transferase activity			skin(1)	1	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					TTCTCGTCTTCTTCAGTACCC	0.478000													21	38					4.26978e-12	4.47806e-12	0.083992	1	0
C14orf93	60686	broad.mit.edu	37	14	23467861	23467861	+	Silent	SNP	A	C	C			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr14:23467861A>C	uc001wib.1	-	2	682	c.372T>G	c.(370-372)CCT>CCG	p.P124P	C14orf93_uc001wic.1_5'UTR|C14orf93_uc001wid.1_Silent_p.P124P|C14orf93_uc001wig.2_Silent_p.P124P|C14orf93_uc001wih.2_Silent_p.P124P|C14orf93_uc001wie.2_Silent_p.P124P|C14orf93_uc001wia.3_Silent_p.P124P|C14orf93_uc001wif.2_5'UTR	NM_021944	NP_068763	Q9H972	CN093_HUMAN	hypothetical protein LOC60686 precursor	124						extracellular region				ovary(1)	1	all_cancers(95;3.3e-05)			GBM - Glioblastoma multiforme(265;0.0127)		TGAGAGGCCCAGGCTCCTCAG	0.597000													19	28					0	0	0.049695	0	0
SOS2	6655	broad.mit.edu	37	14	50605361	50605361	+	Missense_Mutation	SNP	G	A	A			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr14:50605361G>A	uc001wxs.3	-	18	3025	c.2927C>T	c.(2926-2928)CCT>CTT	p.P976L	SOS2_uc010tql.1_Missense_Mutation_p.P943L|SOS2_uc010tqm.1_RNA	NM_006939	NP_008870	Q07890	SOS2_HUMAN	son of sevenless homolog 2	976	Ras-GEF.				apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	DNA binding|protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(2)	2	all_epithelial(31;0.000822)|Breast(41;0.0065)					TAAACAGTAAGGCTGATTCTG	0.269000													37	56					0	0	0.104719	0	0
AK7	122481	broad.mit.edu	37	14	96917831	96917831	+	Missense_Mutation	SNP	G	A	A			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr14:96917831G>A	uc001yfn.2	+	10	1066	c.1022G>A	c.(1021-1023)CGA>CAA	p.R341Q		NM_152327	NP_689540	Q96M32	KAD7_HUMAN	adenylate kinase 7	341	Potential.				cell projection organization	cytosol	adenylate kinase activity|ATP binding|cytidylate kinase activity			ovary(1)	1		all_cancers(154;0.0482)|all_epithelial(191;0.128)|Melanoma(154;0.155)		Epithelial(152;0.134)|COAD - Colon adenocarcinoma(157;0.228)		TTTAATATTCGATGGGCTGCC	0.393000													26	42					0	0	0.099896	0	0
ARHGAP11A	9824	broad.mit.edu	37	15	32929514	32929514	+	Missense_Mutation	SNP	C	T	T			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr15:32929514C>T	uc001zgy.1	+	12	3262	c.2540C>T	c.(2539-2541)TCT>TTT	p.S847F	ARHGAP11A_uc010ubw.1_Missense_Mutation_p.S658F|ARHGAP11A_uc010ubx.1_Missense_Mutation_p.S658F	NM_014783	NP_055598	Q6P4F7	RHGBA_HUMAN	Rho GTPase activating protein 11A isoform 1	847					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			skin(3)|breast(2)|urinary_tract(1)	6		all_lung(180;1.3e-11)		all cancers(64;3.34e-21)|Epithelial(43;2.64e-15)|GBM - Glioblastoma multiforme(186;5.17e-06)|BRCA - Breast invasive adenocarcinoma(123;0.00112)|Lung(196;0.227)		AGAATTAATTCTTTGTTGGAG	0.408000													6	130					0	0	0.021553	0	0
MAP2K5	5607	broad.mit.edu	37	15	67956981	67956981	+	Missense_Mutation	SNP	G	C	C			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr15:67956981G>C	uc002aqu.2	+	13	1498	c.845G>C	c.(844-846)AGA>ACA	p.R282T	MAP2K5_uc002aqv.2_Missense_Mutation_p.R282T|MAP2K5_uc002aqw.2_Missense_Mutation_p.R122T|MAP2K5_uc002aqx.2_Missense_Mutation_p.R92T	NM_145160	NP_660143	Q13163	MP2K5_HUMAN	mitogen-activated protein kinase kinase 5	282	Protein kinase.				nerve growth factor receptor signaling pathway		ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(2)	2						ATTTTACATAGAGGTATGTGC	0.333000													6	75					0	0	0.038147	0	0
AGBL1	123624	broad.mit.edu	37	15	87217502	87217502	+	Splice_Site	SNP	A	G	G			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr15:87217502A>G	uc002blz.1	+	22	3000	c.2920_splice	c.e22-2	p.G974_splice		NM_152336	NP_689549	Q96MI9	CBPC4_HUMAN	ATP/GTP binding protein-like 1						C-terminal protein deglutamylation|protein side chain deglutamylation|proteolysis	cytosol	metallocarboxypeptidase activity|tubulin binding|zinc ion binding				0						TTTAACTGGCAGGGTCTACAG	0.478000													6	8					0	0	0.029380	0	0
SRRM2	23524	broad.mit.edu	37	16	2816146	2816146	+	Missense_Mutation	SNP	C	G	G			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr16:2816146C>G	uc002crk.2	+	11	6166	c.5617C>G	c.(5617-5619)CAC>GAC	p.H1873D	SRRM2_uc002crj.1_Missense_Mutation_p.H1777D|SRRM2_uc002crl.1_Missense_Mutation_p.H1873D|SRRM2_uc010bsu.1_Missense_Mutation_p.H1777D	NM_016333	NP_057417	Q9UQ35	SRRM2_HUMAN	splicing coactivator subunit SRm300	1873	Arg-rich.|Ser-rich.					Cajal body|catalytic step 2 spliceosome|nuclear speck	C2H2 zinc finger domain binding|protein N-terminus binding|RNA binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						TCCAGCCACTCACCGGCGATC	0.612000													18	41					0	0	0.055883	0	0
SRRM2	23524	broad.mit.edu	37	16	2818196	2818196	+	Missense_Mutation	SNP	C	G	G			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr16:2818196C>G	uc002crk.2	+	11	8216	c.7667C>G	c.(7666-7668)TCT>TGT	p.S2556C	SRRM2_uc002crj.1_Missense_Mutation_p.S2460C|SRRM2_uc002crl.1_Missense_Mutation_p.S2556C|SRRM2_uc010bsu.1_Missense_Mutation_p.S2460C	NM_016333	NP_057417	Q9UQ35	SRRM2_HUMAN	splicing coactivator subunit SRm300	2556	Ser-rich.					Cajal body|catalytic step 2 spliceosome|nuclear speck	C2H2 zinc finger domain binding|protein N-terminus binding|RNA binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						tcctcctcctcTGGCTCCAGT	0.363000													13	20					0	0	0.119110	0	0
LONP2	83752	broad.mit.edu	37	16	48385617	48385617	+	Silent	SNP	T	C	C			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr16:48385617T>C	uc002efi.1	+	15	2552	c.2463T>C	c.(2461-2463)TTT>TTC	p.F821F	LONP2_uc002efj.1_Silent_p.F777F	NM_031490	NP_113678	Q86WA8	LONP2_HUMAN	peroxisomal LON protease-like	821					misfolded or incompletely synthesized protein catabolic process|protein targeting to peroxisome|signal peptide processing	nucleoid|peroxisomal matrix	ATP binding|ATP-dependent peptidase activity|enzyme binding|sequence-specific DNA binding|serine-type endopeptidase activity				0						ATTTAAGTTTTGTCACAGCAA	0.473000													33	48					0	0	0.144211	0	0
HPR	3250	broad.mit.edu	37	16	72110948	72110948	+	Missense_Mutation	SNP	C	G	G	rs12646	by1000genomes	TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr16:72110948C>G	uc002fby.2	+	5	1045	c.1015C>G	c.(1015-1017)CAC>GAC	p.H339D	TXNL4B_uc010cgl.2_Intron	NM_020995	NP_066275	P00739	HPTR_HUMAN	haptoglobin-related protein precursor	339	Peptidase S1.				proteolysis	spherical high-density lipoprotein particle	hemoglobin binding|serine-type endopeptidase activity	p.H339D(1)		central_nervous_system(1)	1		Ovarian(137;0.125)				TTCCATCCAGCACTGGGTTCA	0.542000													6	66					0	0	0.047766	0	0
ZFHX3	463	broad.mit.edu	37	16	72828734	72828734	+	Missense_Mutation	SNP	C	T	T			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr16:72828734C>T	uc002fck.2	-	9	8520	c.7847G>A	c.(7846-7848)AGG>AAG	p.R2616K	ZFHX3_uc002fcl.2_Missense_Mutation_p.R1702K	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	2616					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				CTCCAGCTTCCTCTTGAGAGT	0.547000													168	230					0	0	0.139131	0	0
TRAPPC2L	51693	broad.mit.edu	37	16	88926369	88926369	+	Silent	SNP	C	T	T			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr16:88926369C>T	uc002fmc.2	+	4	416	c.363C>T	c.(361-363)CGC>CGT	p.R121R	GALNS_uc002fly.3_5'Flank|GALNS_uc010cid.2_5'Flank|GALNS_uc002flz.3_5'Flank|GALNS_uc002fma.2_5'Flank|TRAPPC2L_uc010cie.2_RNA|TRAPPC2L_uc002fmd.3_Silent_p.R121R|TRAPPC2L_uc002fme.3_Silent_p.R91R|TRAPPC2L_uc002fmf.2_Silent_p.R90R|uc002fmg.2_5'Flank	NM_016209	NP_057293	Q9UL33	TPC2L_HUMAN	trafficking protein particle complex 2-like	121					ER to Golgi vesicle-mediated transport	endoplasmic reticulum|Golgi apparatus|perinuclear region of cytoplasm					0				BRCA - Breast invasive adenocarcinoma(80;0.0477)		CGGGGGACCGCATCCAGTCCA	0.502000													6	109					0	0	0.021553	0	0
GEMIN4	50628	broad.mit.edu	37	17	649344	649344	+	Missense_Mutation	SNP	C	G	G			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr17:649344C>G	uc002frs.1	-	2	2058	c.1939G>C	c.(1939-1941)GAG>CAG	p.E647Q		NM_015721	NP_056536	P57678	GEMI4_HUMAN	gemin 4	647					rRNA processing|spliceosomal snRNP assembly	Cajal body|cytosol|nucleolus|small nuclear ribonucleoprotein complex|spliceosomal complex	protein binding			ovary(2)|kidney(1)|skin(1)	4		Myeloproliferative disorder(207;0.204)		UCEC - Uterine corpus endometrioid carcinoma (25;0.022)		TCGTCTGGCTCAAGAAGAGCA	0.488000													10	64					0	0	0.058154	0	0
C17orf48	56985	broad.mit.edu	37	17	10608559	10608559	+	Missense_Mutation	SNP	C	T	T			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr17:10608559C>T	uc002gmt.2	+	2	391	c.316C>T	c.(316-318)CAT>TAT	p.H106Y	C17orf48_uc002gmu.2_RNA|C17orf48_uc002gmv.2_RNA|C17orf48_uc010vvg.1_Missense_Mutation_p.H106Y	NM_020233	NP_064618	Q3LIE5	ADPRM_HUMAN	ADP-ribose/CDP-alcohol pyrophosphatase	106							ADP-ribose diphosphatase activity|CDP-glycerol diphosphatase activity|metal ion binding				0						TCCAGTTCATCATACATGGGG	0.353000													17	87					0	0	0.160694	0	0
MYO18A	399687	broad.mit.edu	37	17	27430634	27430634	+	Missense_Mutation	SNP	A	T	T			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr17:27430634A>T	uc002hdt.1	-	21	3648	c.3490T>A	c.(3490-3492)TGC>AGC	p.C1164S	MYO18A_uc010wbc.1_Missense_Mutation_p.C706S|MYO18A_uc002hds.2_Missense_Mutation_p.C706S|MYO18A_uc010csa.1_Missense_Mutation_p.C1164S|MYO18A_uc002hdu.1_Missense_Mutation_p.C1164S|MYO18A_uc010wbd.1_Missense_Mutation_p.C833S	NM_078471	NP_510880	Q92614	MY18A_HUMAN	myosin 18A isoform a	1164	Myosin head-like.				anti-apoptosis|DNA metabolic process	ER-Golgi intermediate compartment|myosin complex	ATP binding|DNA binding|DNA-dependent ATPase activity|identical protein binding|motor activity				0			Epithelial(11;4.97e-05)|BRCA - Breast invasive adenocarcinoma(11;0.000221)|all cancers(11;0.000234)|Colorectal(6;0.0102)|COAD - Colon adenocarcinoma(6;0.031)			AGGCCCATGCAGCAGCTGCTC	0.657000													14	14					0	0	0.119110	0	0
KCNJ16	3773	broad.mit.edu	37	17	68129360	68129360	+	Missense_Mutation	SNP	G	A	A			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr17:68129360G>A	uc002jin.2	+	5	1618	c.1132G>A	c.(1132-1134)GCC>ACC	p.A378T	KCNJ16_uc002jio.2_Missense_Mutation_p.A378T|KCNJ16_uc002jip.2_Missense_Mutation_p.A378T|KCNJ16_uc002jiq.2_Missense_Mutation_p.A410T	NM_018658	NP_061128	Q9NPI9	IRK16_HUMAN	potassium inwardly-rectifying channel J16	378	Cytoplasmic (By similarity).				synaptic transmission	voltage-gated potassium channel complex	inward rectifier potassium channel activity			ovary(1)|central_nervous_system(1)|skin(1)	3	Breast(10;2.96e-09)					TAGTGCAGTTGCCATTGTCAG	0.498000													39	39					0	0	0.086207	0	0
FOXK2	3607	broad.mit.edu	37	17	80525990	80525990	+	Silent	SNP	C	T	T			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr17:80525990C>T	uc002kfn.2	+	3	846	c.675C>T	c.(673-675)GGC>GGT	p.G225G	FOXK2_uc002kfm.1_Silent_p.G225G|FOXK2_uc010diu.2_Silent_p.G225G	NM_004514	NP_004505	Q01167	FOXK2_HUMAN	forkhead box K2	225					embryo development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|regulation of transcription from RNA polymerase II promoter|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|magnesium ion binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0	Breast(20;0.00106)|all_neural(118;0.0952)		OV - Ovarian serous cystadenocarcinoma(97;0.0371)|BRCA - Breast invasive adenocarcinoma(99;0.0415)			ACAAGGTGGGCCGAGTGATGC	0.522000													3	39					0	0	0.115264	0	0
YES1	7525	broad.mit.edu	37	18	756694	756694	+	Missense_Mutation	SNP	G	A	A			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr18:756694G>A	uc002kky.2	-	2	355	c.134C>T	c.(133-135)TCT>TTT	p.S45F	YES1_uc002kkz.2_Missense_Mutation_p.S45F	NM_005433	NP_005424	P07947	YES_HUMAN	viral oncogene yes-1 homolog 1	45					blood coagulation|leukocyte migration|regulation of vascular permeability|T cell costimulation	cytosol|plasma membrane	ATP binding|ion channel binding|non-membrane spanning protein tyrosine kinase activity			lung(2)|ovary(1)	3					Dasatinib(DB01254)	CTTTGCTGAAGATGACGGACA	0.468000													27	172					0	0	0.134883	0	0
KIAA1012	22878	broad.mit.edu	37	18	29496396	29496396	+	Silent	SNP	C	T	T			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr18:29496396C>T	uc002kxc.3	-	4	820	c.456G>A	c.(454-456)GCG>GCA	p.A152A	KIAA1012_uc002kxb.3_Silent_p.A98A|KIAA1012_uc002kxd.3_RNA|KIAA1012_uc002kxe.2_Silent_p.A152A	NM_014939	NP_055754	Q9Y2L5	TPPC8_HUMAN	hypothetical protein LOC22878	152					ER to Golgi vesicle-mediated transport	cis-Golgi network					0						CACTAGATGACGCTACCAACA	0.353000													3	51					0	0	0.115264	0	0
MUC16	94025	broad.mit.edu	37	19	9087506	9087506	+	Missense_Mutation	SNP	C	T	T			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr19:9087506C>T	uc002mkp.2	-	1	4513	c.4309G>A	c.(4309-4311)GAT>AAT	p.D1437N		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	1437	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CCTGGGACATCAGAAGTTAGT	0.512000													12	123					0	0	0.080935	0	0
ECSIT	51295	broad.mit.edu	37	19	11618829	11618829	+	Missense_Mutation	SNP	T	C	C			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr19:11618829T>C	uc002msb.2	-	5	907	c.773A>G	c.(772-774)GAT>GGT	p.D258G	ZNF653_uc002mrz.1_5'Flank|ECSIT_uc002msa.1_RNA|ECSIT_uc010dyc.1_Missense_Mutation_p.D258G|ECSIT_uc010dyd.2_Missense_Mutation_p.D258G|ECSIT_uc010xma.1_Missense_Mutation_p.D44G	NM_016581	NP_057665	Q9BQ95	ECSIT_HUMAN	evolutionarily conserved signaling intermediate	258					innate immune response|regulation of oxidoreductase activity	mitochondrion	oxidoreductase activity, acting on NADH or NADPH|protein binding			ovary(1)	1						CTGGGGGGGATCTGCTGCACC	0.577000													31	63					0	0	0.183431	0	0
ZNF844	284391	broad.mit.edu	37	19	12187704	12187704	+	Missense_Mutation	SNP	G	A	A			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr19:12187704G>A	uc002mtb.2	+	4	1912	c.1769G>A	c.(1768-1770)AGT>AAT	p.S590N	ZNF844_uc010dym.1_Missense_Mutation_p.S433N	NM_001136501	NP_001129973	Q08AG5	ZN844_HUMAN	zinc finger protein 844	590					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AATGTAAAGAGTGTGACAAAG	0.398000													3	3					0	0	0.115264	0	0
HOOK2	29911	broad.mit.edu	37	19	12875721	12875721	+	Silent	SNP	C	T	T			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr19:12875721C>T	uc002muy.2	-	20	1905	c.1734G>A	c.(1732-1734)CGG>CGA	p.R578R	HOOK2_uc010xmq.1_5'UTR|HOOK2_uc002muz.2_Silent_p.R576R	NM_013312	NP_037444	Q96ED9	HOOK2_HUMAN	hook homolog 2 isoform 1	578	Required for localization to the centrosome and induction of aggresome formation.|Potential.				early endosome to late endosome transport|endocytosis|endosome organization|endosome to lysosome transport|lysosome organization|microtubule cytoskeleton organization|protein transport	centrosome|FHF complex|microtubule	identical protein binding|microtubule binding			ovary(1)|breast(1)|skin(1)	3						GCTCCTCGATCCGCCGGGCTG	0.632000											OREG0025273	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	99					0	0	0.047766	0	0
NOTCH3	4854	broad.mit.edu	37	19	15288375	15288375	+	Missense_Mutation	SNP	T	C	C			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr19:15288375T>C	uc002nan.2	-	24	4440	c.4364A>G	c.(4363-4365)AAC>AGC	p.N1455S	NOTCH3_uc002nao.1_Missense_Mutation_p.N1403S	NM_000435	NP_000426	Q9UM47	NOTC3_HUMAN	Notch homolog 3 precursor	1455	Extracellular (Potential).|LNR 2.				Notch receptor processing|Notch signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			lung(8)|ovary(5)|skin(4)|prostate(2)|central_nervous_system(1)|breast(1)	21			OV - Ovarian serous cystadenocarcinoma(3;2.6e-20)|Epithelial(3;1.34e-16)|all cancers(3;5.13e-15)			GCAGTCGAAGTTGTCGTAGAG	0.557000													4	7					0	0	0.150653	0	0
UNC13A	23025	broad.mit.edu	37	19	17750273	17750273	+	Missense_Mutation	SNP	A	T	T			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr19:17750273A>T	uc002nhd.2	-	24	3182	c.3182T>A	c.(3181-3183)CTC>CAC	p.L1061H		NM_001080421	NP_001073890	Q9UPW8	UN13A_HUMAN	unc-13 homolog A	973					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(3)	3						GATGCTGGTGAGAAGGTCCAC	0.532000													7	18					0	0	0.038147	0	0
ZNF85	7639	broad.mit.edu	37	19	21131687	21131687	+	Missense_Mutation	SNP	G	C	C			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr19:21131687G>C	uc002npg.3	+	4	494	c.367G>C	c.(367-369)GAG>CAG	p.E123Q	ZNF85_uc010ecn.2_Missense_Mutation_p.E58Q|ZNF85_uc010eco.2_Missense_Mutation_p.E71Q|ZNF85_uc002npi.2_Missense_Mutation_p.E64Q	NM_003429	NP_003420	Q03923	ZNF85_HUMAN	zinc finger protein 85	123						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			central_nervous_system(1)	1						AAGTATGGATGAGTGTAAGAT	0.338000													3	76					0	0	0.115264	0	0
CYP2A13	1553	broad.mit.edu	37	19	41596079	41596079	+	Missense_Mutation	SNP	C	G	G			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr19:41596079C>G	uc002opt.2	+	3	480	c.471C>G	c.(469-471)ATC>ATG	p.I157M		NM_000766	NP_000757	Q16696	CP2AD_HUMAN	cytochrome P450, family 2, subfamily A,	157					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|coumarin 7-hydroxylase activity|electron carrier activity|heme binding			ovary(2)|skin(1)	3					Clomipramine(DB01242)|Nicotine(DB00184)	GCTTCCTCATCGACGCCCTCC	0.687000													35	21					0	0	0.086207	0	0
DMWD	1762	broad.mit.edu	37	19	46289265	46289265	+	Missense_Mutation	SNP	G	A	A			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr19:46289265G>A	uc002pdj.1	-	3	1535	c.1489C>T	c.(1489-1491)CCG>TCG	p.P497S	DMWD_uc002pdk.1_Missense_Mutation_p.P497S|DMWD_uc010eko.1_Missense_Mutation_p.P182S	NM_004943	NP_004934	Q09019	DMWD_HUMAN	dystrophia myotonica-containing WD repeat motif	497					meiosis						0		Ovarian(192;0.0308)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00604)|GBM - Glioblastoma multiforme(486;0.0807)|Epithelial(262;0.236)		GCTGGGTGCGGGAGACTGTTG	0.731000													7	8					0	0	0.029380	0	0
HRC	3270	broad.mit.edu	37	19	49658341	49658341	+	Missense_Mutation	SNP	C	T	T			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr19:49658341C>T	uc002pmv.2	-	1	341	c.154G>A	c.(154-156)GAG>AAG	p.E52K	TRPM4_uc002pmw.2_5'Flank|TRPM4_uc010emu.2_5'Flank|TRPM4_uc010yak.1_5'Flank|TRPM4_uc002pmx.2_5'Flank|TRPM4_uc010emv.2_5'Flank|TRPM4_uc010yal.1_5'Flank	NM_002152	NP_002143	P23327	SRCH_HUMAN	histidine rich calcium binding protein	52					muscle contraction	sarcoplasmic reticulum lumen	calcium ion binding			ovary(1)	1		all_lung(116;3.16e-06)|Lung NSC(112;6.25e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		all cancers(93;2.01e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.00019)|GBM - Glioblastoma multiforme(486;0.00279)|Epithelial(262;0.00622)		GCTGATGCCTCCTCGGAGAGC	0.597000													18	125					0	0	0.049695	0	0
FPR2	2358	broad.mit.edu	37	19	52272650	52272650	+	Missense_Mutation	SNP	G	C	C			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr19:52272650G>C	uc002pxr.2	+	2	784	c.739G>C	c.(739-741)GTG>CTG	p.V247L	FPR2_uc002pxs.3_Missense_Mutation_p.V247L|FPR2_uc010epf.2_Missense_Mutation_p.V247L	NM_001005738	NP_001005738	P25090	FPR2_HUMAN	formyl peptide receptor-like 1	247	Helical; Name=6; (Potential).				cell adhesion|cellular component movement|chemotaxis|inflammatory response	integral to membrane|plasma membrane	N-formyl peptide receptor activity			lung(3)|ovary(1)	4						CACTGCTGTGGTGGCTTCTTT	0.483000													24	30					0	0	0.099896	0	0
LAIR2	3904	broad.mit.edu	37	19	55019129	55019129	+	Missense_Mutation	SNP	T	A	A			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr19:55019129T>A	uc002qgc.2	+	3	216	c.94T>A	c.(94-96)TCG>ACG	p.S32T	LAIR2_uc002qga.1_RNA|LAIR2_uc002qgb.1_RNA|LAIR2_uc002qgd.2_Missense_Mutation_p.S32T|LAIR2_uc010erl.2_Missense_Mutation_p.S32T	NM_002288	NP_002279	Q6ISS4	LAIR2_HUMAN	leukocyte-associated immunoglobulin-like	32	Ig-like C2-type.					extracellular region	receptor activity			ovary(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.0967)		ACCCTCCATCTCGGCTGAGCC	0.498000													64	126					0	0	0.139131	0	0
ZNF417	147687	broad.mit.edu	37	19	58420138	58420138	+	Missense_Mutation	SNP	G	C	C			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr19:58420138G>C	uc002qqq.2	-	3	1707	c.1508C>G	c.(1507-1509)TCC>TGC	p.S503C	ZNF417_uc010yhm.1_Missense_Mutation_p.S460C|ZNF417_uc002qqr.2_Missense_Mutation_p.S502C	NM_152475	NP_689688	Q8TAU3	ZN417_HUMAN	zinc finger protein 417	503	C2H2-type 11.				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)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0151)		CGCAGAGCTGGAAAGAAATGA	0.393000													4	160					0	0	0.150653	0	0
GDF7	151449	broad.mit.edu	37	2	20871056	20871056	+	Silent	SNP	C	T	T			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr2:20871056C>T	uc002rdz.1	+	2	1800	c.1224C>T	c.(1222-1224)GAC>GAT	p.D408D		NM_182828	NP_878248	Q7Z4P5	GDF7_HUMAN	growth differentiation factor 7 preproprotein	408					activin receptor signaling pathway|BMP signaling pathway|growth|pathway-restricted SMAD protein phosphorylation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TGGCACCAGACGCGGCGCCGG	0.612000													9	4					0	0	0.058154	0	0
REG1P	5969	broad.mit.edu	37	2	79364431	79364431	+	RNA	SNP	G	A	A			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr2:79364431G>A	uc002soa.1	-	3		c.179C>T			REG1P_uc002sob.1_RNA|REG1P_uc002soc.1_RNA					Homo sapiens mRNA for Reg-related sequence derived peptide-1, complete cds.												0						CTGGGCAGCTGATCTGGGCCT	0.507000													3	17					0	0	0.150653	0	0
FAP	2191	broad.mit.edu	37	2	163031402	163031402	+	Silent	SNP	A	G	G			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr2:163031402A>G	uc002ucd.2	-	22	2152	c.1944T>C	c.(1942-1944)GCT>GCC	p.A648A	FAP_uc010fpc.2_Silent_p.A197A|FAP_uc010zct.1_Silent_p.A623A|FAP_uc010fpd.2_Silent_p.A127A	NM_004460	NP_004451	Q12884	SEPR_HUMAN	fibroblast activation protein, alpha subunit	648	Extracellular (Potential).				endothelial cell migration|negative regulation of extracellular matrix disassembly|proteolysis	cell junction|integral to membrane|invadopodium membrane|lamellipodium membrane	dipeptidyl-peptidase activity|metalloendopeptidase activity|protein homodimerization activity|serine-type endopeptidase activity			ovary(3)	3						TGGAGACTGGAGCCACTGCTA	0.398000													3	64					0	0	0.115264	0	0
TTN	7273	broad.mit.edu	37	2	179401833	179401833	+	Missense_Mutation	SNP	C	T	T			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr2:179401833C>T	uc010zfg.1	-	305	92523	c.92299G>A	c.(92299-92301)GAG>AAG	p.E30767K	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.E24462K|TTN_uc010zfi.1_Missense_Mutation_p.E24395K|TTN_uc010zfj.1_Missense_Mutation_p.E24270K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	31694							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TCAGCCCCCTCCTTGGCCTCA	0.502000													15	54					0	0	0.119110	0	0
TTN	7273	broad.mit.edu	37	2	179452053	179452053	+	Silent	SNP	C	T	T			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr2:179452053C>T	uc010zfg.1	-	256	56405	c.56181G>A	c.(56179-56181)GGG>GGA	p.G18727G	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.G12422G|TTN_uc010zfi.1_Silent_p.G12355G|TTN_uc010zfj.1_Silent_p.G12230G	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	19654							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TCACTTGGCTCCCACCGTCGT	0.468000													5	80					0	0	0.014758	0	0
TTN	7273	broad.mit.edu	37	2	179458757	179458757	+	Missense_Mutation	SNP	C	T	T			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr2:179458757C>T	uc010zfg.1	-	246	50883	c.50659G>A	c.(50659-50661)GGC>AGC	p.G16887S	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.G10582S|TTN_uc010zfi.1_Missense_Mutation_p.G10515S|TTN_uc010zfj.1_Missense_Mutation_p.G10390S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	17814							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CAGTATTTGCCGGAATCTGAA	0.408000													51	297					0	0	0.139131	0	0
CPO	130749	broad.mit.edu	37	2	207833968	207833968	+	Silent	SNP	G	C	C			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr2:207833968G>C	uc002vby.2	+	9	979	c.933G>C	c.(931-933)CTG>CTC	p.L311L		NM_173077	NP_775100	Q8IVL8	CBPO_HUMAN	carboxypeptidase O precursor	311					proteolysis	extracellular region	metallocarboxypeptidase activity|zinc ion binding			large_intestine(1)|ovary(1)	2				LUSC - Lung squamous cell carcinoma(261;0.0744)|Epithelial(149;0.0807)|Lung(261;0.142)		CGTTTGAGCTGAGGGACAGTG	0.512000													33	38					0	0	0.144211	0	0
ABCA12	26154	broad.mit.edu	37	2	215840568	215840568	+	Silent	SNP	A	G	G			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr2:215840568A>G	uc002vew.2	-	34	5542	c.5322T>C	c.(5320-5322)TAT>TAC	p.Y1774Y	ABCA12_uc002vev.2_Silent_p.Y1456Y|ABCA12_uc010zjn.1_Silent_p.Y701Y	NM_173076	NP_775099	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A, member 12	1774					cellular homeostasis|lipid transport	integral to membrane	ATP binding|ATPase activity			ovary(6)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	11		Renal(323;0.127)		Epithelial(149;1.01e-05)|all cancers(144;0.00112)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		GAATCTCTGGATAACTGTTGC	0.453000													26	46					0	0	0.116897	0	0
PROCR	10544	broad.mit.edu	37	20	33762617	33762617	+	Silent	SNP	A	T	T			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr20:33762617A>T	uc002xbt.2	+	2	367	c.183A>T	c.(181-183)CCA>CCT	p.P61P	EDEM2_uc010zuv.1_Intron|PROCR_uc010zuw.1_Silent_p.P98P	NM_006404	NP_006395	Q9UNN8	EPCR_HUMAN	endothelial protein C receptor precursor	61	Extracellular (Potential).				antigen processing and presentation|blood coagulation|immune response	integral to plasma membrane|MHC class I protein complex	receptor activity				0			BRCA - Breast invasive adenocarcinoma(18;0.0152)		Drotrecogin alfa(DB00055)	TGGAAGGCCCAGACACCAACA	0.622000													26	41					0	0	0.099896	0	0
SLC13A3	64849	broad.mit.edu	37	20	45204227	45204227	+	Missense_Mutation	SNP	C	A	A			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr20:45204227C>A	uc002xsf.1	-	10	1355	c.1317G>T	c.(1315-1317)ATG>ATT	p.M439I	SLC13A3_uc010ghn.1_Missense_Mutation_p.M408I|SLC13A3_uc010zxw.1_Missense_Mutation_p.M389I|SLC13A3_uc002xsg.1_Missense_Mutation_p.M392I|SLC13A3_uc010gho.1_Missense_Mutation_p.M357I|SLC13A3_uc010zxx.1_Missense_Mutation_p.M341I|SLC13A3_uc010zxv.1_Intron	NM_022829	NP_073740	Q8WWT9	S13A3_HUMAN	solute carrier family 13 member 3 isoform a	439						integral to membrane|plasma membrane	high affinity sodium:dicarboxylate symporter activity			ovary(1)	1		Myeloproliferative disorder(115;0.0122)			Succinic acid(DB00139)	AGCCTTTGGCCATGGCGAAGC	0.632000													7	8					0.00198382	0.00199932	0.029380	1	0
ZNF831	128611	broad.mit.edu	37	20	57766279	57766279	+	Missense_Mutation	SNP	G	A	A			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr20:57766279G>A	uc002yan.2	+	1	205	c.205G>A	c.(205-207)GGG>AGG	p.G69R		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	69	Pro-rich.					intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					GGTGCCTCCCGGGGGCCTCCA	0.706000													9	11					0	0	0.058154	0	0
LIPI	149998	broad.mit.edu	37	21	15554081	15554081	+	Missense_Mutation	SNP	T	C	C			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr21:15554081T>C	uc002yjm.2	-	4	714	c.704A>G	c.(703-705)AAT>AGT	p.N235S	LIPI_uc010gkw.1_Missense_Mutation_p.N168S	NM_198996	NP_945347	Q6XZB0	LIPI_HUMAN	lipase, member I	214					lipid catabolic process	extracellular region|extracellular space|membrane|plasma membrane	heparin binding|phospholipase activity			ovary(2)	2				Epithelial(23;0.000155)|COAD - Colon adenocarcinoma(22;0.0015)|Colorectal(24;0.00693)|Lung(58;0.166)		TTTGTTACCATTGGAGTCAGA	0.398000													21	21					0	0	0.049695	0	0
DEPDC5	9681	broad.mit.edu	37	22	32301997	32301997	+	Silent	SNP	T	G	G			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr22:32301997T>G	uc003als.2	+	41	4513	c.4371T>G	c.(4369-4371)TCT>TCG	p.S1457S	DEPDC5_uc011als.1_Silent_p.S1388S|DEPDC5_uc011alu.1_Silent_p.S1488S|DEPDC5_uc011alv.1_RNA|DEPDC5_uc003alt.2_Silent_p.S1479S|DEPDC5_uc003alu.2_Silent_p.S906S|DEPDC5_uc003alv.2_RNA|DEPDC5_uc003alw.2_Silent_p.S755S|DEPDC5_uc011alx.1_Silent_p.S305S|DEPDC5_uc010gwk.2_Silent_p.S483S|DEPDC5_uc011aly.1_Silent_p.S305S	NM_014662	NP_055477	O75140	DEPD5_HUMAN	DEP domain containing 5 isoform 1	1457					intracellular signal transduction					ovary(4)|central_nervous_system(3)|pancreas(1)	8						ATAAATATTCTGCCTCTGCTT	0.488000													18	16					0	0	0.175082	0	0
TMPPE	643853	broad.mit.edu	37	3	33135655	33135655	+	Silent	SNP	C	T	T			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr3:33135655C>T	uc003cfk.2	-	2	224	c.33G>A	c.(31-33)GCG>GCA	p.A11A	GLB1_uc003cfh.1_Intron|GLB1_uc003cfi.1_Intron|GLB1_uc003cfj.1_Intron|GLB1_uc011axk.1_Intron|TMPPE_uc011axl.1_Intron	NM_001039770	NP_001034859	Q6ZT21	TMPPE_HUMAN	transmembrane protein with	11	Helical; (Potential).					integral to membrane	metal ion binding				0						GGGTGGCCTTCGCGCCTAGGG	0.587000													5	63					0	0	0.021553	0	0
CTNNB1	1499	broad.mit.edu	37	3	41274905	41274905	+	Silent	SNP	C	T	T	rs74692094	by1000genomes	TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr3:41274905C>T	uc010hia.1	+	9	1311	c.1155C>T	c.(1153-1155)CTC>CTT	p.L385L	CTNNB1_uc003ckp.2_Silent_p.L385L|CTNNB1_uc003ckq.2_Silent_p.L385L|CTNNB1_uc003ckr.2_Silent_p.L385L|CTNNB1_uc011azf.1_Silent_p.L378L|CTNNB1_uc011azg.1_Silent_p.L313L|CTNNB1_uc003cks.2_5'UTR|CTNNB1_uc003ckt.1_5'Flank	NM_001904	NP_001895	P35222	CTNB1_HUMAN	beta-catenin	385	ARM 6.				adherens junction assembly|androgen receptor signaling pathway|branching involved in ureteric bud morphogenesis|canonical Wnt receptor signaling pathway involved in negative regulation of apoptosis|canonical Wnt receptor signaling pathway involved in positive regulation of epithelial to mesenchymal transition|cell-cell adhesion|cell-matrix adhesion|cellular component disassembly involved in apoptosis|cellular response to growth factor stimulus|cellular response to indole-3-methanol|central nervous system vasculogenesis|cytoskeletal anchoring at plasma membrane|determination of dorsal/ventral asymmetry|dorsal/ventral axis specification|ectoderm development|embryonic axis specification|embryonic foregut morphogenesis|embryonic leg joint morphogenesis|endodermal cell fate commitment|endothelial tube morphogenesis|epithelial to mesenchymal transition|gastrulation with mouth forming second|glial cell fate determination|hair follicle morphogenesis|hair follicle placode formation|hindbrain development|liver development|lung cell differentiation|lung induction|lung-associated mesenchyme development|male genitalia development|mesenchymal cell proliferation involved in lung development|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of cell proliferation|negative regulation of chondrocyte differentiation|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of osteoclast differentiation|negative regulation of transcription from RNA polymerase II promoter|nephron tubule formation|odontogenesis of dentine-containing tooth|oocyte development|pancreas development|positive regulation of anti-apoptosis|positive regulation of apoptosis|positive regulation of branching involved in lung morphogenesis|positive regulation of epithelial cell proliferation involved in prostate gland development|positive regulation of fibroblast growth factor receptor signaling pathway|positive regulation of heparan sulfate proteoglycan biosynthetic process|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of MAPKKK cascade|positive regulation of muscle cell differentiation|positive regulation of osteoblast differentiation|positive regulation of transcription from RNA polymerase II promoter|protein localization at cell surface|proximal/distal pattern formation|regulation of angiogenesis|regulation of calcium ion import|regulation of centriole-centriole cohesion|regulation of centromeric sister chromatid cohesion|regulation of fibroblast proliferation|regulation of nephron tubule epithelial cell differentiation|regulation of protein localization at cell surface|regulation of smooth muscle cell proliferation|regulation of T cell proliferation|renal inner medulla development|renal outer medulla development|renal vesicle formation|response to drug|response to estradiol stimulus|Schwann cell proliferation|smooth muscle cell differentiation|synapse organization|synaptic vesicle transport|T cell differentiation in thymus|thymus development|trachea formation	APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin-TCF7L2 complex|catenin complex|cell cortex|cell-substrate adherens junction|centrosome|dendritic shaft|desmosome|fascia adherens|internal side of plasma membrane|lamellipodium|lateral plasma membrane|microvillus membrane|perinuclear region of cytoplasm|protein-DNA complex|synapse|transcription factor complex|Z disc|zonula adherens	alpha-catenin binding|androgen receptor binding|cadherin binding|estrogen receptor binding|I-SMAD binding|ion channel binding|protein binding|protein C-terminus binding|protein kinase binding|protein phosphatase binding|R-SMAD binding|RPTP-like protein binding|signal transducer activity|specific RNA polymerase II transcription factor activity|structural molecule activity|transcription coactivator activity|transcription regulatory region DNA binding		CTNNB1/PLAG1(60)	liver(806)|soft_tissue(609)|large_intestine(243)|endometrium(222)|kidney(172)|stomach(157)|central_nervous_system(139)|ovary(104)|skin(97)|pancreas(91)|adrenal_gland(85)|pituitary(81)|salivary_gland(62)|haematopoietic_and_lymphoid_tissue(57)|thyroid(55)|biliary_tract(41)|lung(38)|prostate(24)|bone(20)|small_intestine(17)|cervix(9)|parathyroid(9)|urinary_tract(8)|breast(7)|oesophagus(5)|NS(3)|pleura(2)|upper_aerodigestive_tract(2)|eye(1)	3166				KIRC - Kidney renal clear cell carcinoma(284;0.0028)|Kidney(284;0.00294)	Lithium(DB01356)	TTTGGACTCTCAGGAATCTTT	0.413000		15	H|Mis|T	PLAG1	colorectal|cvarian| hepatoblastoma|others|pleomorphic salivary adenoma				Pilomatrixoma_Familial_Clustering_of				39	67					0	0	0.111260	0	0
RAD54L2	23132	broad.mit.edu	37	3	51697406	51697406	+	Silent	SNP	C	T	T			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr3:51697406C>T	uc011bdt.1	+	22	4499	c.4374C>T	c.(4372-4374)GAC>GAT	p.D1458D	RAD54L2_uc003dbh.2_Silent_p.D1047D|RAD54L2_uc011bdu.1_Silent_p.D1152D|RAD54L2_uc003dbj.2_Silent_p.D784D	NM_015106	NP_055921	Q9Y4B4	ARIP4_HUMAN	RAD54-like 2	1458						nucleus	ATP binding|DNA binding|helicase activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;0.000102)|Kidney(197;0.000758)|KIRC - Kidney renal clear cell carcinoma(197;0.000896)		AGGATAAAGACGATGATGTGA	0.562000													20	27					0	0	0.069288	0	0
TMF1	7110	broad.mit.edu	37	3	69101211	69101211	+	Silent	SNP	G	A	A			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr3:69101211G>A	uc003dnn.2	-	1	274	c.27C>T	c.(25-27)CTC>CTT	p.L9L	TMF1_uc011bfx.1_Silent_p.L9L	NM_007114	NP_009045	P82094	TMF1_HUMAN	TATA element modulatory factor 1	9					regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	Golgi membrane|nucleus	DNA binding|protein binding|transcription cofactor activity				0		Lung NSC(201;0.0193)|Prostate(884;0.174)		BRCA - Breast invasive adenocarcinoma(55;4.48e-05)|Epithelial(33;0.000274)|LUSC - Lung squamous cell carcinoma(21;0.0123)|KIRC - Kidney renal clear cell carcinoma(39;0.211)|Kidney(39;0.247)		CGAAGCTGGAGAGCTGGGAGG	0.642000													45	65					0	0	0.139131	0	0
MAPK10	5602	broad.mit.edu	37	4	86950416	86950416	+	Missense_Mutation	SNP	T	C	C			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr4:86950416T>C	uc003hpq.2	-	12	1253	c.1186A>G	c.(1186-1188)AAG>GAG	p.K396E	MAPK10_uc010ikg.2_Missense_Mutation_p.K358E|MAPK10_uc003hpr.2_Missense_Mutation_p.K358E|MAPK10_uc003hps.2_Missense_Mutation_p.K396E|MAPK10_uc003hpt.2_Missense_Mutation_p.K396E|MAPK10_uc003hpu.2_Missense_Mutation_p.K396E|MAPK10_uc003hpv.2_Missense_Mutation_p.K251E|MAPK10_uc003hpn.2_Missense_Mutation_p.K144E|MAPK10_uc003hpo.2_Missense_Mutation_p.K251E|MAPK10_uc011ccw.1_Missense_Mutation_p.K282E|MAPK10_uc003hpp.2_Missense_Mutation_p.K251E	NM_138982	NP_620448	P53779	MK10_HUMAN	mitogen-activated protein kinase 10 isoform 2	396					innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|regulation of sequence-specific DNA binding transcription factor activity|stress-activated MAPK cascade|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	cytosol|nucleoplasm	ATP binding|JUN kinase activity|MAP kinase kinase activity|protein binding			stomach(1)|breast(1)|central_nervous_system(1)	3		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.243)		OV - Ovarian serous cystadenocarcinoma(123;0.002)		ATTACTTCCTTGTAGATAAGT	0.328000													35	32					0	0	0.074837	0	0
LRBA	987	broad.mit.edu	37	4	151827110	151827110	+	Silent	SNP	A	T	T			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr4:151827110A>T	uc010ipj.2	-	13	2109	c.1635T>A	c.(1633-1635)CTT>CTA	p.L545L	LRBA_uc003ilu.3_Silent_p.L545L|LRBA_uc010ipk.1_Silent_p.L464L	NM_006726	NP_006717	P50851	LRBA_HUMAN	LPS-responsive vesicle trafficking, beach and	545						endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosome|plasma membrane	protein binding			ovary(3)|breast(3)|skin(1)	7	all_hematologic(180;0.151)					GGCAAAGTTCAAGTACTGCTC	0.388000													31	40					0	0	0.183431	0	0
ACCN5	51802	broad.mit.edu	37	4	156763435	156763436	+	Missense_Mutation	DNP	GC	AT	AT			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr4:156763435_156763436GC>AT	uc003ipe.1	-	6	979_980	c.932_933GC>AT	c.(931-933)AGC>AAT	p.S311N		NM_017419	NP_059115	Q9NY37	ACCN5_HUMAN	amiloride-sensitive cation channel 5,	311	Extracellular (Potential).					integral to membrane|plasma membrane				ovary(2)|skin(1)	3	all_hematologic(180;0.24)	Renal(120;0.0458)		KIRC - Kidney renal clear cell carcinoma(143;0.0464)|Kidney(143;0.058)|COAD - Colon adenocarcinoma(41;0.141)		AACCAGAAGTGCTGTAGCTGCT	0.416000													60	47					0	0	0.115264	0	0
HMGB2	3148	broad.mit.edu	37	4	174254775	174254775	+	Missense_Mutation	SNP	G	A	A			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr4:174254775G>A	uc011ckc.1	-	1	146	c.26C>T	c.(25-27)CCG>CTG	p.P9L	HMGB2_uc003ita.3_Missense_Mutation_p.P9L|HMGB2_uc003itb.2_Missense_Mutation_p.P9L|HMGB2_uc003itc.2_Missense_Mutation_p.P9L	NM_001130689	NP_001124161	P26583	HMGB2_HUMAN	high-mobility group box 2	9	HMG box 1.				base-excision repair, DNA ligation|cell chemotaxis|cellular response to lipopolysaccharide|DNA fragmentation involved in apoptotic nuclear change|DNA topological change|negative regulation of transcription, DNA-dependent|nucleosome assembly|phosphatidylinositol-mediated signaling|positive regulation of DNA binding|positive regulation of endothelial cell proliferation|positive regulation of erythrocyte differentiation|positive regulation of megakaryocyte differentiation|positive regulation of nuclease activity|positive regulation of transcription from RNA polymerase II promoter|V(D)J recombination	condensed chromosome|extracellular space|nucleolus|nucleoplasm|perinuclear region of cytoplasm|protein complex	chemoattractant activity|damaged DNA binding|DNA bending activity|double-stranded DNA binding|RAGE receptor binding|sequence-specific DNA binding transcription factor activity|single-stranded DNA binding|transcription regulatory region DNA binding				0		Prostate(90;0.0132)|Renal(120;0.0183)|Melanoma(52;0.0749)|all_hematologic(60;0.107)|all_neural(102;0.122)		all cancers(43;9.58e-18)|Epithelial(43;3.75e-16)|OV - Ovarian serous cystadenocarcinoma(60;6.24e-09)|STAD - Stomach adenocarcinoma(60;0.00273)|GBM - Glioblastoma multiforme(59;0.0064)|LUSC - Lung squamous cell carcinoma(193;0.0903)|Kidney(143;0.249)		TTTGCCCCGCGGCTTGTTGGG	0.627000													38	36					0	0	0.069456	0	0
EXOC3	11336	broad.mit.edu	37	5	446365	446365	+	Silent	SNP	G	A	A			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr5:446365G>A	uc003jba.2	+	2	173	c.45G>A	c.(43-45)AGG>AGA	p.R15R		NM_007277	NP_009208	O60645	EXOC3_HUMAN	Sec6 protein	26					exocytosis|protein transport						0		Ovarian(839;0.0563)	Epithelial(17;0.000529)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|all cancers(22;0.00186)|Lung(60;0.0863)			CAGTGCAAAGGGTTGCTGGGA	0.587000													37	49					0	0	0.086207	0	0
SLC45A2	51151	broad.mit.edu	37	5	33984558	33984558	+	Missense_Mutation	SNP	C	T	T			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr5:33984558C>T	uc003jid.2	-	1	223	c.131G>A	c.(130-132)GGA>GAA	p.G44E	SLC45A2_uc003jie.2_Missense_Mutation_p.G44E|SLC45A2_uc003jif.3_Missense_Mutation_p.G44E|SLC45A2_uc011coe.1_Missense_Mutation_p.G44E	NM_016180	NP_057264	Q9UMX9	S45A2_HUMAN	membrane-associated transporter protein isoform	44	Cytoplasmic (Potential).				melanin biosynthetic process|response to stimulus|transmembrane transport|visual perception	integral to membrane|melanosome membrane				ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3						GAACTCTCTTCCGAACATGGC	0.557000													9	17					0	0	0.069234	0	0
PRLR	5618	broad.mit.edu	37	5	35070231	35070231	+	Missense_Mutation	SNP	G	C	C			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr5:35070231G>C	uc003jjm.2	-	7	1210	c.680C>G	c.(679-681)CCT>CGT	p.P227R	PRLR_uc003jjg.1_Missense_Mutation_p.P227R|PRLR_uc003jjh.1_Missense_Mutation_p.P227R|PRLR_uc003jji.1_Missense_Mutation_p.P156R|PRLR_uc003jjj.1_Missense_Mutation_p.P227R|PRLR_uc003jjk.1_Missense_Mutation_p.P156R|PRLR_uc003jjl.3_Missense_Mutation_p.P126R|PRLR_uc010iuw.1_Missense_Mutation_p.P156R	NM_000949	NP_000940	P16471	PRLR_HUMAN	prolactin receptor precursor	227	Fibronectin type-III 2.|Extracellular (Potential).				activation of JAK2 kinase activity|activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|embryo implantation|lactation|steroid biosynthetic process|T cell activation	cell surface|extracellular region|integral to membrane	metal ion binding|ornithine decarboxylase activator activity|peptide hormone binding|prolactin receptor activity|protein homodimerization activity			ovary(2)|skin(1)	3	all_lung(31;3.83e-05)		COAD - Colon adenocarcinoma(61;0.174)|Colorectal(62;0.229)		Dromostanolone(DB00858)|Fluoxymesterone(DB01185)|Pegvisomant(DB00082)|Somatropin recombinant(DB00052)	CTCACCACTAGGTATCTGAAT	0.418000													17	27					0	0	0.175082	0	0
SPOCK1	6695	broad.mit.edu	37	5	136328174	136328174	+	Silent	SNP	G	A	A			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr5:136328174G>A	uc003lbo.2	-	6	896	c.705C>T	c.(703-705)GGC>GGT	p.G235G	SPOCK1_uc003lbp.2_Silent_p.G235G	NM_004598	NP_004589	Q08629	TICN1_HUMAN	sparc/osteonectin, cwcv and kazal-like domains	235					cell adhesion|cell proliferation|cellular component movement|nervous system development|signal transduction	proteinaceous extracellular matrix	calcium ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			TGGTCTTACTGCCTTGGGCTG	0.438000													40	61					0	0	0.104719	0	0
KDM3B	51780	broad.mit.edu	37	5	137715373	137715373	+	Silent	SNP	T	C	C			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr5:137715373T>C	uc003lcy.1	+	5	881	c.681T>C	c.(679-681)CGT>CGC	p.R227R	KDM3B_uc010jew.1_5'UTR	NM_016604	NP_057688	Q7LBC6	KDM3B_HUMAN	jumonji domain containing 1B	227					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			ovary(3)|upper_aerodigestive_tract(2)|lung(2)|kidney(2)|central_nervous_system(1)|skin(1)	11						CCATCACTCGTCTTATGGAGG	0.458000													30	53					0	0	0.153744	0	0
PSD2	84249	broad.mit.edu	37	5	139197069	139197069	+	Silent	SNP	C	T	T	rs142589356		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr5:139197069C>T	uc003leu.1	+	5	1225	c.1020C>T	c.(1018-1020)AAC>AAT	p.N340N		NM_032289	NP_115665	Q9BQI7	PSD2_HUMAN	pleckstrin and Sec7 domain containing 2	340	SEC7.				regulation of ARF protein signal transduction	cytoplasm|integral to membrane	ARF guanyl-nucleotide exchange factor activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTGGCAGCAACGAGTTTAGCA	0.592000													18	29					0	0	0.160694	0	0
PCDHB15	56121	broad.mit.edu	37	5	140625417	140625417	+	Missense_Mutation	SNP	G	C	C			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr5:140625417G>C	uc003lje.2	+	1	271	c.271G>C	c.(271-273)GAC>CAC	p.D91H		NM_018935	NP_061758	Q9Y5E8	PCDBF_HUMAN	protocadherin beta 15 precursor	91	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(2)|breast(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TGAGAAGCTGGACCGGGAGAA	0.498000													7	74					0	0	0.029380	0	0
FAT2	2196	broad.mit.edu	37	5	150892049	150892049	+	Missense_Mutation	SNP	T	C	C			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr5:150892049T>C	uc003lue.3	-	20	11595	c.11582A>G	c.(11581-11583)GAC>GGC	p.D3861G	GM2A_uc011dcs.1_Intron|FAT2_uc003lud.3_Intron	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	3861	Extracellular (Potential).|Laminin G-like.				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)			AATGGAAGCGTCCATCTCCTC	0.577000													4	80					0	0	0.150653	0	0
RPL26L1	51121	broad.mit.edu	37	5	172396527	172396527	+	Missense_Mutation	SNP	G	A	A			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr5:172396527G>A	uc003mcc.2	+	4	463	c.421G>A	c.(421-423)GAG>AAG	p.E141K		NM_016093	NP_057177	Q9UNX3	RL26L_HUMAN	ribosomal protein L26-like 1	141					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosol|large ribosomal subunit	structural constituent of ribosome				0	Renal(175;0.000159)|Lung NSC(126;0.00344)|all_lung(126;0.00594)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			AGAACTTATTGAGAAAATGCA	0.398000													7	77					0	0	0.038147	0	0
F13A1	2162	broad.mit.edu	37	6	6196094	6196094	+	Missense_Mutation	SNP	G	A	A			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr6:6196094G>A	uc003mwv.2	-	10	1364	c.1241C>T	c.(1240-1242)TCG>TTG	p.S414L	F13A1_uc011dib.1_Missense_Mutation_p.S351L	NM_000129	NP_000120	P00488	F13A_HUMAN	coagulation factor XIII A1 subunit precursor	414					peptide cross-linking|platelet activation|platelet degranulation	extracellular region|platelet alpha granule lumen	acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|pancreas(1)|skin(1)	6	Ovarian(93;0.0816)	all_hematologic(90;0.152)			L-Glutamine(DB00130)	GGCTTGAACCGAGGCGGGGCC	0.502000													8	21					0	0	0.047766	0	0
HMGA1	3159	broad.mit.edu	37	6	34210572	34210572	+	Silent	SNP	G	A	A			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr6:34210572G>A	uc003oit.2	+	4	541	c.219G>A	c.(217-219)CGG>CGA	p.R73R	HMGA1_uc011dso.1_Intron|HMGA1_uc003oiv.2_Silent_p.R62R|HMGA1_uc003oiw.2_Silent_p.R62R|HMGA1_uc003oiu.2_Silent_p.R73R|HMGA1_uc003oiy.2_Silent_p.R62R|HMGA1_uc003oiz.2_Silent_p.R73R|HMGA1_uc003oja.2_Silent_p.R62R|HMGA1_uc003oix.2_Silent_p.R62R|HMGA1_uc010jvl.2_Intron|HMGA1_uc003ojc.2_Silent_p.R62R|HMGA1_uc011dsp.1_RNA|HMGA1_uc003ojd.2_Silent_p.R61R	NM_145899	NP_665906	P17096	HMGA1_HUMAN	high mobility group AT-hook 1 isoform a	73	Interaction with HIPK2 (By similarity).				DNA unwinding involved in replication|initiation of viral infection|interspecies interaction between organisms|loss of chromatin silencing|nucleosome disassembly|protein complex assembly|provirus integration	chromatin|cytosol|transcription factor complex	AT DNA binding|enzyme binding|ligand-dependent nuclear receptor transcription coactivator activity|peroxisome proliferator activated receptor binding|protein binding|retinoid X receptor binding|sequence-specific DNA binding transcription factor activity				0						CCAAGACCCGGGTGAGACTTG	0.592000			T	?	microfollicular thyroid adenoma| various benign mesenchymal tumors,								2	6					0	0	0.115264	0	0
GFRAL	389400	broad.mit.edu	37	6	55223928	55223928	+	Missense_Mutation	SNP	C	T	T			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr6:55223928C>T	uc003pcm.1	+	6	1030	c.944C>T	c.(943-945)TCA>TTA	p.S315L		NM_207410	NP_997293	Q6UXV0	GFRAL_HUMAN	GDNF family receptor alpha like precursor	315	Extracellular (Potential).					integral to membrane	receptor activity			ovary(1)|breast(1)	2	Lung NSC(77;0.0875)|Renal(3;0.122)		LUSC - Lung squamous cell carcinoma(124;0.23)			CATAGAAAATCATGTTTCAGT	0.284000													9	68					0	0	0.047766	0	0
AIM1	202	broad.mit.edu	37	6	106968949	106968949	+	Missense_Mutation	SNP	A	T	T			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr6:106968949A>T	uc003prh.2	+	2	3129	c.2642A>T	c.(2641-2643)GAG>GTG	p.E881V		NM_001624	NP_001615	Q9Y4K1	AIM1_HUMAN	absent in melanoma 1	881							sugar binding			breast(4)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)	9	Breast(9;0.0138)|all_epithelial(6;0.169)	all_cancers(87;4.67e-25)|all_epithelial(87;5.46e-21)|Acute lymphoblastic leukemia(125;2.15e-07)|all_hematologic(75;5.28e-06)|Colorectal(196;3.46e-05)|all_lung(197;5.94e-05)|Lung NSC(302;7.26e-05)|Ovarian(999;0.00473)	Epithelial(6;0.00114)|all cancers(7;0.00726)|BRCA - Breast invasive adenocarcinoma(8;0.0114)|OV - Ovarian serous cystadenocarcinoma(5;0.0305)	all cancers(137;1.73e-50)|Epithelial(106;2.42e-48)|OV - Ovarian serous cystadenocarcinoma(136;1.51e-27)|BRCA - Breast invasive adenocarcinoma(108;0.00104)|GBM - Glioblastoma multiforme(226;0.00858)		CCCACGACTGAGGGTGCCCCG	0.478000													58	71					0	0	0.139131	0	0
LAMA4	3910	broad.mit.edu	37	6	112457351	112457351	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr6:112457351G>A	uc003pvu.2	-	25	3697	c.3388C>T	c.(3388-3390)CAA>TAA	p.Q1130*	LAMA4_uc003pvv.2_Nonsense_Mutation_p.Q1123*|LAMA4_uc003pvt.2_Nonsense_Mutation_p.Q1123*	NM_001105206	NP_001098676	Q16363	LAMA4_HUMAN	laminin, alpha 4 isoform 1 precursor	1130	Laminin G-like 2.				cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding			ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)		TCATTAATTTGAGCTTTCTTT	0.368000													4	75					0	0	0.150653	0	0
CTGF	1490	broad.mit.edu	37	6	132271489	132271489	+	Missense_Mutation	SNP	C	T	T			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr6:132271489C>T	uc003qcz.2	-	3	690	c.484G>A	c.(484-486)GAG>AAG	p.E162K		NM_001901	NP_001892	P29279	CTGF_HUMAN	connective tissue growth factor precursor	162	VWFC.				cellular lipid metabolic process|DNA replication|epidermis development|regulation of cell growth|response to wounding	plasma membrane|proteinaceous extracellular matrix	heparin binding|insulin-like growth factor binding				0	Breast(56;0.0602)			GBM - Glioblastoma multiforme(226;0.015)|OV - Ovarian serous cystadenocarcinoma(155;0.0169)		ACCCACTCCTCGCAGCATTTC	0.652000											OREG0017666	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	69	96					0	0	0.139131	0	0
SASH1	23328	broad.mit.edu	37	6	148808752	148808752	+	Silent	SNP	C	G	G			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr6:148808752C>G	uc003qme.1	+	8	1105	c.630C>G	c.(628-630)CTC>CTG	p.L210L		NM_015278	NP_056093	O94885	SASH1_HUMAN	SAM and SH3 domain containing 1	210							protein binding			central_nervous_system(1)	1		Ovarian(120;0.0169)		OV - Ovarian serous cystadenocarcinoma(155;5.63e-11)|GBM - Glioblastoma multiforme(68;0.0701)		TGTTACAGCTCAAGGAATACG	0.488000													51	92					0	0	0.139131	0	0
TNRC18	84629	broad.mit.edu	37	7	5352384	5352384	+	Missense_Mutation	SNP	G	A	A			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr7:5352384G>A	uc003soi.3	-	27	8487	c.8138C>T	c.(8137-8139)TCG>TTG	p.S2713L		NM_001080495	NP_001073964	O15417	TNC18_HUMAN	trinucleotide repeat containing 18	2713							DNA binding				0		Ovarian(82;0.142)		UCEC - Uterine corpus endometrioid carcinoma (126;0.195)|OV - Ovarian serous cystadenocarcinoma(56;5.32e-15)		GGAGTGGGCCGAGGGCCGCGC	0.761000													4	16					0	0	0.029380	0	0
TNS3	64759	broad.mit.edu	37	7	47440438	47440438	+	Missense_Mutation	SNP	G	A	A			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr7:47440438G>A	uc003tnv.2	-	14	1164	c.797C>T	c.(796-798)GCT>GTT	p.A266V	TNS3_uc003tnw.2_Missense_Mutation_p.A266V|TNS3_uc010kyo.1_3'UTR	NM_022748	NP_073585	Q68CZ2	TENS3_HUMAN	tensin 3	266	C2 tensin-type.					focal adhesion	protein binding			ovary(4)	4						GCCCTGCACAGCCCCAGTGTG	0.577000													37	52					0	0	0.064281	0	0
POM121	9883	broad.mit.edu	37	7	72412723	72412723	+	Missense_Mutation	SNP	A	G	G			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr7:72412723A>G	uc003twk.2	+	11	2191	c.2191A>G	c.(2191-2193)ATT>GTT	p.I731V	POM121_uc003twj.2_Missense_Mutation_p.I466V|POM121_uc010lam.1_Missense_Mutation_p.I466V	NM_172020	NP_742017	Q96HA1	P121A_HUMAN	nuclear pore membrane protein 121	731	Pore side (Potential).				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	endoplasmic reticulum membrane|nuclear membrane|nuclear pore					0		Lung NSC(55;0.163)				GTTCAAGCCCATTTTCACGGC	0.627000													23	40					0	0	0.099896	0	0
PPP1R9A	55607	broad.mit.edu	37	7	94915545	94915545	+	Missense_Mutation	SNP	C	A	A			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr7:94915545C>A	uc003unp.2	+	13	3067	c.2785C>A	c.(2785-2787)CCC>ACC	p.P929T	PPP1R9A_uc010lfj.2_Missense_Mutation_p.P1213T|PPP1R9A_uc011kif.1_Missense_Mutation_p.P1135T|PPP1R9A_uc003unq.2_Missense_Mutation_p.P1153T|PPP1R9A_uc011kig.1_Missense_Mutation_p.P929T|PPP1R9A_uc003unr.2_Missense_Mutation_p.P226T	NM_017650	NP_060120	Q9ULJ8	NEB1_HUMAN	protein phosphatase 1, regulatory (inhibitor)	929	Interacts with TGN38 (By similarity).					cell junction|synapse|synaptosome	actin binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4	all_cancers(62;9.12e-11)|all_epithelial(64;4.34e-09)		STAD - Stomach adenocarcinoma(171;0.0031)			TGACTTCAGTCCCAGCAGTAC	0.453000										HNSCC(28;0.073)			20	37					1.15919e-05	1.17744e-05	0.049695	1	0
LMTK2	22853	broad.mit.edu	37	7	97823560	97823560	+	Silent	SNP	C	T	T	rs150501122		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr7:97823560C>T	uc003upd.1	+	11	4076	c.3783C>T	c.(3781-3783)ATC>ATT	p.I1261I		NM_014916	NP_055731	Q8IWU2	LMTK2_HUMAN	lemur tyrosine kinase 2 precursor	1261					early endosome to late endosome transport|endocytic recycling|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|protein autophosphorylation|receptor recycling|transferrin transport	early endosome|Golgi apparatus|integral to membrane|perinuclear region of cytoplasm|recycling endosome	ATP binding|myosin VI binding|protein phosphatase inhibitor activity|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(9)|stomach(3)|pancreas(2)|large_intestine(1)|breast(1)	16	all_cancers(62;3.23e-09)|all_epithelial(64;7.65e-10)|Lung NSC(181;0.00902)|all_lung(186;0.0104)|Esophageal squamous(72;0.0125)					AGCCGGACATCGAAGGGAAGT	0.602000													17	21					0	0	0.160694	0	0
AMAC1L2	83650	broad.mit.edu	37	8	11188670	11188670	+	Missense_Mutation	SNP	C	T	T			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr8:11188670C>T	uc003wtp.1	+	1	176	c.55C>T	c.(55-57)CCC>TCC	p.P19S		NM_054028	NP_473369	Q96KT7	AMCL2_HUMAN	acyl-malonyl condensing enzyme	19						integral to membrane					0			STAD - Stomach adenocarcinoma(15;0.00676)	COAD - Colon adenocarcinoma(149;0.0563)		CCCATCGCCGCCCTCCGCTCC	0.677000													23	35					0	0	0.091800	0	0
ANK1	286	broad.mit.edu	37	8	41577342	41577342	+	Missense_Mutation	SNP	C	T	T			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr8:41577342C>T	uc003xok.2	-	10	1028	c.944G>A	c.(943-945)GGA>GAA	p.G315E	NKX6-3_uc010lxa.1_Intron|ANK1_uc003xoi.2_Missense_Mutation_p.G315E|ANK1_uc003xoj.2_Missense_Mutation_p.G315E|ANK1_uc003xol.2_Missense_Mutation_p.G315E|ANK1_uc003xom.2_Missense_Mutation_p.G348E	NM_020476	NP_065209	P16157	ANK1_HUMAN	ankyrin 1 isoform 1	315	ANK 9.|89 kDa domain.				axon guidance|cytoskeleton organization|exocytosis|maintenance of epithelial cell apical/basal polarity|signal transduction	basolateral plasma membrane|cytosol|sarcomere|sarcoplasmic reticulum|spectrin-associated cytoskeleton	cytoskeletal adaptor activity|enzyme binding|protein binding|spectrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(3)|lung(2)|breast(1)	9	Ovarian(28;0.00541)|Colorectal(14;0.0398)|Lung SC(25;0.211)	all_lung(54;0.000626)|Lung NSC(58;0.00245)|Esophageal squamous(32;0.0559)|Hepatocellular(245;0.0663)|Renal(179;0.188)	OV - Ovarian serous cystadenocarcinoma(14;0.000984)|Lung(22;0.00108)|Colorectal(10;0.00245)|LUSC - Lung squamous cell carcinoma(45;0.00392)|COAD - Colon adenocarcinoma(11;0.0264)			GAGGTGGTCTCCCTGAGCCGC	0.567000													49	77					0	0	0.139131	0	0
MYC	4609	broad.mit.edu	37	8	128750680	128750680	+	Missense_Mutation	SNP	A	C	C			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr8:128750680A>C	uc003ysh.1	+	3	685	c.172A>C	c.(172-174)ACC>CCC	p.T58P	MYC_uc003ysi.2_Missense_Mutation_p.T73P	NM_002467	NP_002458	P01106	MYC_HUMAN	myc proto-oncogene protein	58				T->A: Impairs interaction with FBXW7 and subsequent degradation by the proteasome.	branching involved in ureteric bud morphogenesis|cell cycle arrest|cell proliferation|cellular iron ion homeostasis|positive regulation of metanephric cap mesenchymal cell proliferation|positive regulation of transcription, DNA-dependent|regulation of telomere maintenance|regulation of transcription from RNA polymerase II promoter|response to drug	nucleolus|nucleoplasm	E-box binding|protein binding|sequence-specific DNA binding transcription factor activity			lung(3)|ovary(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(1;6.19e-134)|all_epithelial(1;1.75e-119)|all_lung(1;5.66e-51)|Breast(1;1.08e-22)|all_neural(1;4.45e-21)|Medulloblastoma(1;1.88e-20)|Colorectal(1;1.92e-09)|Lung SC(1;4.52e-07)|Ovarian(5;0.000122)|Esophageal squamous(12;0.000995)|Renal(1;0.0921)|Hepatocellular(40;0.108)|Myeloproliferative disorder(2;0.135)|Melanoma(291;0.185)	Myeloproliferative disorder(644;0.0255)|Ovarian(118;0.0654)|Breast(495;0.212)|Acute lymphoblastic leukemia(644;0.22)	Epithelial(1;1.63e-94)|all cancers(1;5.82e-87)|OV - Ovarian serous cystadenocarcinoma(1;2.12e-71)|BRCA - Breast invasive adenocarcinoma(1;4.3e-14)|Lung(2;0.000381)|Colorectal(2;0.0102)|LUAD - Lung adenocarcinoma(14;0.0172)|READ - Rectum adenocarcinoma(2;0.0723)|LUSC - Lung squamous cell carcinoma(258;0.151)	KIRC - Kidney renal clear cell carcinoma(542;0.248)		GCTGCTGCCCACCCCGCCCCT	0.677000		3	A|T	IGK@|BCL5|BCL7A |BTG1|TRA@|IGH@	Burkitt lymphoma| amplified in other cancers|B-CLL						OREG0018982	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	29					0	0	0.058154	0	0
SPIN1	10927	broad.mit.edu	37	9	91083448	91083448	+	Missense_Mutation	SNP	G	C	C			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr9:91083448G>C	uc010mqj.2	+	5	1017	c.517G>C	c.(517-519)GAC>CAC	p.D173H	SPIN1_uc004apy.2_Missense_Mutation_p.D173H|SPIN1_uc004apz.2_Missense_Mutation_p.D173H|SPIN1_uc010mqk.2_Missense_Mutation_p.D173H	NM_006717	NP_006708	Q9Y657	SPIN1_HUMAN	spindlin	173					cell cycle|gamete generation|multicellular organismal development	nucleus	methylated histone residue binding				0						CTATGAGAAAGACCCTGTCTT	0.403000													7	104					0	0	0.058154	0	0
Unknown	0	broad.mit.edu	37	9	99884245	99884245	+	RNA	SNP	G	A	A			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr9:99884245G>A	uc004aww.1	-	2		c.1549C>T								Homo sapiens cDNA FLJ34611 fis, clone KIDNE2014112.																		CACTCCGAGCGCAGCCGTGGG	0.597000													9	10					0	0	0.093190	0	0
LCN1	3933	broad.mit.edu	37	9	138415819	138415819	+	Missense_Mutation	SNP	G	A	A			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr9:138415819G>A	uc004cfz.1	+	4	444	c.386G>A	c.(385-387)CGA>CAA	p.R129Q	LCN1_uc004cga.1_Missense_Mutation_p.R129Q	NM_002297	NP_002288	P31025	LCN1_HUMAN	lipocalin 1 precursor	129					proteolysis|response to stimulus|sensory perception of taste	extracellular region	cysteine-type endopeptidase inhibitor activity|transporter activity				0		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;1.54e-08)|Epithelial(140;5.25e-08)|all cancers(34;9.27e-07)|READ - Rectum adenocarcinoma(205;0.155)		AAGCCGGTCCGAGGGGTGAAG	0.642000													3	33					0	0	0.150653	0	0
TUBBP5	643224	broad.mit.edu	37	9	141071675	141071675	+	Missense_Mutation	SNP	G	A	A			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr9:141071675G>A	uc004com.2	+	4	1339	c.1078G>A	c.(1078-1080)GAG>AAG	p.E360K	TUBBP5_uc010ncq.2_3'UTR					RecName: Full=Putative tubulin beta-4q chain;												0						CACGGCCAaggaggaggagga	0.418000													6	111					0	0	0.021553	0	0
Unknown	0	broad.mit.edu	37	MT	361	361	+	RNA	SNP	A	G	G			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chrM:361A>G	uc004coq.3	-	1		c.6T>C			uc004cor.1_5'Flank|uc004cos.3_5'Flank					Homo sapiens cDNA: FLJ22857 fis, clone KAT01615.																		CAAACCCCAAAAACAAAGAAC	0.458000													15	0					0	0	0.160694	0	0
Unknown	0	broad.mit.edu	37	MT	6960	6960	+	Missense_Mutation	SNP	C	T	T			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chrM:6960C>T	uc011mfh.1	+	1	1107	c.59C>T	c.(58-60)CCT>CTT	p.P20L	uc004cou.3_5'Flank|uc011mfi.1_5'Flank					Homo sapiens cDNA: FLJ22894 fis, clone KAT04907.																		CCGTAGGTGGCCTGACTGGCA	0.458000													22	1					0	0	0.108266	0	0
GPKOW	27238	broad.mit.edu	37	X	48979068	48979068	+	Missense_Mutation	SNP	G	A	A			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chrX:48979068G>A	uc004dmr.2	-	2	242	c.235C>T	c.(235-237)CGC>TGC	p.R79C		NM_015698	NP_056513	Q92917	GPKOW_HUMAN	G patch domain and KOW motifs	79						nucleus	nucleic acid binding			ovary(2)	2						GGCTGCCTGCGATGGCCATTC	0.637000													16	14					0	0	0.132662	0	0
ESX1	80712	broad.mit.edu	37	X	103499100	103499100	+	Missense_Mutation	SNP	C	T	T			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chrX:103499100C>T	uc004ely.2	-	2	299	c.241G>A	c.(241-243)GAG>AAG	p.E81K		NM_153448	NP_703149	Q8N693	ESX1_HUMAN	extraembryonic, spermatogenesis, homeobox	81					negative regulation of transcription, DNA-dependent|regulation of cell cycle	cytoplasm|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						TGCTCCGGCTCGTGGCCGCCG	0.662000													29	180					0	0	0.134883	0	0
AMOT	154796	broad.mit.edu	37	X	112022644	112022644	+	Missense_Mutation	SNP	A	G	G			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chrX:112022644A>G	uc004epr.2	-	10	2738	c.2738T>C	c.(2737-2739)GTT>GCT	p.V913A	AMOT_uc004eps.2_Missense_Mutation_p.V504A|AMOT_uc011mtc.1_Missense_Mutation_p.V153A	NM_001113490	NP_001106962	Q4VCS5	AMOT_HUMAN	angiomotin isoform 1	913					actin cytoskeleton organization|cell-cell junction assembly|negative regulation of angiogenesis|negative regulation of vascular permeability|positive regulation of blood vessel endothelial cell migration|positive regulation of cell size|positive regulation of stress fiber assembly|regulation of cell migration	actin filament|cell surface|cytoplasm|endocytic vesicle|external side of plasma membrane|integral to membrane|lamellipodium|ruffle|stress fiber|tight junction|tight junction	angiostatin binding|protein binding|receptor activity			ovary(1)	1						agcaacagcaactggagcagc	0.010000													2	3					0	0	0.115264	0	0
HS6ST2	90161	broad.mit.edu	37	X	132091225	132091225	+	Missense_Mutation	SNP	G	C	C			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chrX:132091225G>C	uc011mve.1	-	3	974	c.558C>G	c.(556-558)TTC>TTG	p.F186L	HS6ST2_uc011mvb.1_Missense_Mutation_p.F40L|HS6ST2_uc011mvc.1_Missense_Mutation_p.F40L|HS6ST2_uc011mvd.1_Missense_Mutation_p.F186L	NM_147175	NP_671704	Q96MM7	H6ST2_HUMAN	heparan sulfate 6-O-sulfotransferase 2 isoform	186	Lumenal (Potential).					integral to membrane	sulfotransferase activity				0	Acute lymphoblastic leukemia(192;0.000127)					CCGGGGAGCTGAACGCCTGCA	0.632000													3	38					0	0	0.115264	0	0
F8	2157	broad.mit.edu	37	X	154130375	154130375	+	Silent	SNP	G	T	T			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chrX:154130375G>T	uc004fmt.2	-	19	6237	c.6066C>A	c.(6064-6066)GGC>GGA	p.G2022G	F8_uc010nvi.1_Intron	NM_000132	NP_000123	P00451	FA8_HUMAN	coagulation factor VIII isoform a precursor	2022	F5/8 type A 3.|Plastocyanin-like 6.		G -> D (in HEMA; severe).		acute-phase response|blood coagulation, intrinsic pathway|cell adhesion|platelet activation|platelet degranulation	extracellular space|plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity|protein binding			ovary(5)|large_intestine(2)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	11	all_cancers(53;7.19e-17)|all_epithelial(53;9.83e-11)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Drotrecogin alfa(DB00055)	GTAGATGCTCGCCAATAAGGC	0.433000													57	52					1.48341e-19	1.58149e-19	0.139131	1	0
POMGNT1	55624	broad.mit.edu	37	1	46662703	46662704	+	Frame_Shift_Del	DEL	GA	-	-			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr1:46662703_46662704delGA	uc001cpe.2	-	3	337_338	c.173_174delTC	c.(172-174)ATCfs	p.I58fs	POMGNT1_uc010olx.1_Frame_Shift_Del_p.I36fs|POMGNT1_uc010oly.1_RNA|POMGNT1_uc010olz.1_5'UTR|POMGNT1_uc001cpg.2_Frame_Shift_Del_p.I58fs|POMGNT1_uc001cpf.2_5'UTR|POMGNT1_uc001cpj.2_Frame_Shift_Del_p.I58fs	NM_017739	NP_060209	Q8WZA1	PMGT1_HUMAN	O-linked mannose	58	Helical; Signal-anchor for type II membrane protein; (Potential).				protein N-linked glycosylation|protein O-linked glycosylation	Golgi membrane|integral to membrane|microsome	alpha-1,3-mannosylglycoprotein 2-beta-N-acetylglucosaminyltransferase activity|beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,3-N-acetylglucosaminyltransferase activity			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					GAGTGTCCAGGATCAACTTGAT	0.550													97	162	---	---	---	---					
RAB6A	5870	broad.mit.edu	37	11	73418504	73418504	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr11:73418504delA	uc001oue.2	-	6	977	c.456delT	c.(454-456)TTTfs	p.F152fs	RAB6A_uc001ouf.2_Frame_Shift_Del_p.F152fs|RAB6A_uc009yts.2_Intron	NM_002869	NP_002860	P20340	RAB6A_HUMAN	RAB6A, member RAS oncogene family isoform a	152					minus-end-directed organelle transport along microtubule|peptidyl-cysteine methylation|protein targeting to Golgi|retrograde vesicle-mediated transport, Golgi to ER|small GTPase mediated signal transduction	cytoplasmic vesicle|cytosol|Golgi membrane|trans-Golgi network	GTP binding|GTPase activity|protein domain specific binding				0						TAGTTTCAATAAACATAACAT	0.348													51	72	---	---	---	---					
USP28	57646	broad.mit.edu	37	11	113679118	113679119	+	Frame_Shift_Ins	INS	-	TG	TG	rs2465647	byFrequency	TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr11:113679118_113679119insTG	uc001poh.2	-	18	2238_2239	c.2205_2206insCA	c.(2203-2208)TCGTCTfs	p.S735fs	USP28_uc001pog.2_Frame_Shift_Ins_p.S443fs|USP28_uc010rwy.1_Frame_Shift_Ins_p.S610fs|USP28_uc001poi.2_Frame_Shift_Ins_p.S90fs	NM_020886	NP_065937	Q96RU2	UBP28_HUMAN	ubiquitin specific protease 28	735_736					cell proliferation|DNA damage checkpoint|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA repair|protein deubiquitination|response to ionizing radiation|ubiquitin-dependent protein catabolic process	nucleolus|nucleoplasm	protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			lung(2)|breast(2)|ovary(1)|large_intestine(1)|kidney(1)	7		all_cancers(61;3.74e-18)|all_epithelial(67;3.75e-11)|Melanoma(852;1.46e-05)|all_hematologic(158;4.65e-05)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|Prostate(24;0.0153)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;3.93e-06)|Epithelial(105;0.000122)|all cancers(92;0.00104)		GCATGCTCAGACGACAAGCAGC	0.470													54	88	---	---	---	---					
MLL2	8085	broad.mit.edu	37	12	49434210	49434210	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr12:49434210delT	uc001rta.3	-	31	7343	c.7343delA	c.(7342-7344)GACfs	p.D2448fs		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	2448	Pro-rich.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						AGAATAAGGGTCAGGGGACTG	0.612			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			31	45	---	---	---	---					
CDC27	996	broad.mit.edu	37	17	45219612	45219612	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr17:45219612delA	uc002ild.3	-	11	1488	c.1361delT	c.(1360-1362)CTAfs	p.L454fs	CDC27_uc002ile.3_Frame_Shift_Del_p.L460fs|CDC27_uc002ilf.3_Frame_Shift_Del_p.L454fs|CDC27_uc010wkp.1_Frame_Shift_Del_p.L393fs|CDC27_uc010wkq.1_Intron	NM_001256	NP_001247	P30260	CDC27_HUMAN	cell division cycle protein 27 isoform 2	454					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell proliferation|mitotic cell cycle spindle assembly checkpoint|mitotic metaphase/anaphase transition|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|centrosome|cytosol|nucleoplasm|spindle microtubule	protein phosphatase binding			lung(2)|breast(2)|ovary(1)	5						TGCTTTTTGTAGATTAAAGGC	0.308													12	51	---	---	---	---					
DSC3	1825	broad.mit.edu	37	18	28576918	28576918	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr18:28576918delT	uc002kwj.3	-	15	2487	c.2332delA	c.(2332-2334)ACCfs	p.T778fs	DSC3_uc002kwi.3_Frame_Shift_Del_p.T778fs	NM_001941	NP_001932	Q14574	DSC3_HUMAN	desmocollin 3 isoform Dsc3a preproprotein	778	Cytoplasmic (Potential).				homophilic cell adhesion|protein stabilization	desmosome|integral to membrane|membrane fraction	calcium ion binding|gamma-catenin binding			ovary(2)|skin(2)	4			OV - Ovarian serous cystadenocarcinoma(10;0.125)			ATTTCAATGGTTTCCTGCCCT	0.502													22	39	---	---	---	---					
PCSK4	54760	broad.mit.edu	37	19	1489873	1489873	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr19:1489873delA	uc002ltb.1	-	2	275	c.213delT	c.(211-213)TTTfs	p.F71fs	PCSK4_uc002lta.2_5'UTR|REEP6_uc010xgp.1_5'Flank|REEP6_uc002ltc.2_5'Flank	NM_017573	NP_060043	Q6UW60	PCSK4_HUMAN	proprotein convertase subtilisin/kexin type 4	71					proteolysis	integral to membrane	serine-type endopeptidase activity				0		Acute lymphoblastic leukemia(61;3.02e-13)|all_hematologic(61;4.32e-09)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GCCGCAGGTGAAAGTACTGCC	0.692													7	10	---	---	---	---					
NAPSA	9476	broad.mit.edu	37	19	50862007	50862007	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr19:50862007delA	uc002prx.2	-	9	1119	c.1066delT	c.(1066-1068)TCCfs	p.S356fs	NR1H2_uc002prv.3_Intron	NM_004851	NP_004842	O96009	NAPSA_HUMAN	napsin A preproprotein	356					proteolysis	extracellular region	aspartic-type endopeptidase activity				0		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00743)|GBM - Glioblastoma multiforme(134;0.0183)		TGGAAACCGGACAAGCAGAGG	0.632													11	11	---	---	---	---					
DIDO1	11083	broad.mit.edu	37	20	61510808	61510808	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr20:61510808delT	uc002ydr.1	-	16	6764	c.6500delA	c.(6499-6501)AAGfs	p.K2167fs	DIDO1_uc002yds.1_Frame_Shift_Del_p.K2167fs	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	2167	Arg-rich.				apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					gtcccactccttgccccgGTC	0.139													4	5	---	---	---	---					
PLXNB2	23654	broad.mit.edu	37	22	50719301	50719302	+	Frame_Shift_Ins	INS	-	T	T			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr22:50719301_50719302insT	uc003bkv.3	-	24	3970_3971	c.3864_3865insA	c.(3862-3867)CCCTCCfs	p.P1288fs	PLXNB2_uc003bkt.1_Frame_Shift_Ins_p.P80fs|PLXNB2_uc003bku.1_Frame_Shift_Ins_p.P273fs	NM_012401	NP_036533	O15031	PLXB2_HUMAN	plexin B2 precursor	1288_1289	Cytoplasmic (Potential).				regulation of small GTPase mediated signal transduction	integral to membrane|intracellular	GTPase activator activity|protein binding|receptor activity			ovary(4)|central_nervous_system(1)|skin(1)	6		all_cancers(38;5.78e-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)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		CCGTCCTTGGAGGGCAGGAAGA	0.629													13	28	---	---	---	---					
ODZ3	55714	broad.mit.edu	37	4	183664509	183664515	+	Frame_Shift_Del	DEL	GCGATTT	-	-			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr4:183664509_183664515delGCGATTT	uc003ivd.1	+	18	3603_3609	c.3566_3572delGCGATTT	c.(3565-3573)GGCGATTTCfs	p.G1189fs	ODZ3_uc003ive.1_Frame_Shift_Del_p.G595fs	NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	1189_1191	Extracellular (Potential).				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		CTGTACGTAGGCGATTTCAACTATGTG	0.473													19	51	---	---	---	---					
ZNF318	24149	broad.mit.edu	37	6	43320114	43320114	+	Splice_Site	DEL	C	-	-			TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08									Somatic	Phase_I	Capture				Illumina GAIIx	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	g.chr6:43320114delC	uc003oux.2	-	5	2848	c.2770_splice	c.e5+1	p.G924_splice	ZNF318_uc003ouw.2_Splice_Site	NM_014345	NP_055160	Q5VUA4	ZN318_HUMAN	zinc finger protein 318						meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	nucleic acid binding|zinc ion binding			ovary(3)|breast(2)|central_nervous_system(1)|skin(1)	7			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0171)|OV - Ovarian serous cystadenocarcinoma(102;0.0579)			GCAGCTGATACCTTGTTGTTT	0.418													30	38	---	---	---	---					
