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	init_n_lod
KLHL17	339451	broad.mit.edu	37	1	900386	900386	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:900386G>A	uc001aca.1	+	12	1851	c.1744G>A	c.(1744-1746)GTG>ATG	p.V582M	KLHL17_uc001acc.1_RNA|PLEKHN1_uc001acd.2_5'Flank|PLEKHN1_uc001acf.2_5'Flank|PLEKHN1_uc001ace.2_5'Flank	NM_198317	NP_938073	Q6TDP4	KLH17_HUMAN	kelch-like 17	582	Kelch 6.|Interaction with F-actin (By similarity).				actin cytoskeleton organization	actin cytoskeleton|cell junction|postsynaptic density|postsynaptic membrane	protein complex scaffold				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00459)|Epithelial(90;1.52e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.59e-23)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|BRCA - Breast invasive adenocarcinoma(365;0.000469)|Kidney(185;0.00227)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.199)		GTTGTACGCCGTGGGGGGTAA	0.657000													7	39					0	0	0.003080	0	0	
AGRN	375790	broad.mit.edu	37	1	977059	977059	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:977059G>A	uc001ack.1	+	6	1204	c.1154G>A	c.(1153-1155)CGC>CAC	p.R385H		NM_198576	NP_940978	O00468	AGRIN_HUMAN	agrin precursor	385	Kazal-like 3.				axon guidance|clustering of voltage-gated sodium channels|muscarinic acetylcholine receptor signaling pathway|receptor clustering	basal lamina	laminin binding|structural constituent of cytoskeleton			central_nervous_system(2)|breast(1)	3	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00462)|Epithelial(90;5.98e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.43e-23)|Colorectal(212;5.97e-05)|COAD - Colon adenocarcinoma(227;0.000201)|Kidney(185;0.0024)|BRCA - Breast invasive adenocarcinoma(365;0.00246)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.0354)|Lung(427;0.201)		CAGAAAGTGCGCTCCGGCCAG	0.736000													16	41					0	0	0.004990	0	0	
ATAD3B	83858	broad.mit.edu	37	1	1421563	1421563	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:1421563G>T	uc001afv.2	+	10	1138	c.1037G>T	c.(1036-1038)AGG>ATG	p.R346M	ATAD3B_uc001afx.2_Missense_Mutation_p.R300M	NM_031921	NP_114127	Q5T9A4	ATD3B_HUMAN	AAA-ATPase  TOB3	346							ATP binding|nucleoside-triphosphatase activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;1.79e-36)|OV - Ovarian serous cystadenocarcinoma(86;3.94e-22)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.00461)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.145)		GGCCTGTACAGGCACATCCTG	0.657000													23	92					6.21321e-17	7.12982e-17	0.002780	1	0	
NADK	65220	broad.mit.edu	37	1	1685737	1685737	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:1685737G>A	uc009vkw.2	-	9	1050	c.929C>T	c.(928-930)ACG>ATG	p.T310M	NADK_uc001aic.2_Missense_Mutation_p.T310M|NADK_uc001aid.3_Missense_Mutation_p.T310M|NADK_uc001aie.2_Missense_Mutation_p.T455M|NADK_uc010nyv.1_Missense_Mutation_p.T278M|NADK_uc009vkx.1_Missense_Mutation_p.T188M	NM_023018	NP_075394	O95544	NADK_HUMAN	NAD kinase	310					ATP metabolic process|NAD metabolic process|water-soluble vitamin metabolic process	cytosol	ATP binding|metal ion binding|NAD+ kinase activity|protein binding				0	all_cancers(77;0.000708)|all_epithelial(69;0.000943)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;5.61e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Medulloblastoma(700;0.123)|Lung SC(97;0.128)		Epithelial(90;8.75e-37)|OV - Ovarian serous cystadenocarcinoma(86;2.33e-23)|GBM - Glioblastoma multiforme(42;1.35e-07)|Colorectal(212;0.000203)|COAD - Colon adenocarcinoma(227;0.000225)|Kidney(185;0.00265)|STAD - Stomach adenocarcinoma(132;0.00655)|BRCA - Breast invasive adenocarcinoma(365;0.00855)|KIRC - Kidney renal clear cell carcinoma(229;0.0382)|Lung(427;0.207)		GCCCTGCACCGTGGTGATGAG	0.647000													6	35					0	0	0.001168	0	0	
AJAP1	55966	broad.mit.edu	37	1	4832466	4832466	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:4832466G>A	uc001alm.1	+	4	1425	c.1044G>A	c.(1042-1044)ACG>ACA	p.T348T	AJAP1_uc001aln.2_Silent_p.T348T	NM_001042478	NP_001035943	Q9UKB5	AJAP1_HUMAN	adherens junction associated protein 1	348	Targeting signals.|Cytoplasmic (Potential).				cell adhesion	adherens junction|apical plasma membrane|basolateral plasma membrane|integral to membrane				lung(1)	1	all_cancers(77;0.071)|Ovarian(185;0.0721)	all_cancers(23;1.77e-36)|all_epithelial(116;1.26e-21)|all_lung(118;3.51e-08)|Lung NSC(185;3.47e-06)|all_neural(13;8.84e-06)|all_hematologic(16;7.61e-05)|Breast(487;0.000507)|Renal(390;0.0007)|Colorectal(325;0.00117)|Hepatocellular(190;0.0071)|Glioma(11;0.0155)|Myeloproliferative disorder(586;0.0258)|Ovarian(437;0.0409)|Lung SC(97;0.133)|Medulloblastoma(700;0.215)		Epithelial(90;3.89e-35)|OV - Ovarian serous cystadenocarcinoma(86;1.97e-19)|GBM - Glioblastoma multiforme(42;3.71e-19)|Colorectal(212;4.57e-06)|COAD - Colon adenocarcinoma(227;0.00019)|Kidney(185;0.000969)|BRCA - Breast invasive adenocarcinoma(365;0.00122)|STAD - Stomach adenocarcinoma(132;0.00578)|KIRC - Kidney renal clear cell carcinoma(229;0.0126)|READ - Rectum adenocarcinoma(331;0.0689)		ACATATTCACGGCCTATAACG	0.612000													11	37					0	0	0.008291	0	0	
PLEKHG5	57449	broad.mit.edu	37	1	6531129	6531129	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:6531129T>C	uc001ano.1	-	14	1582	c.1481A>G	c.(1480-1482)TAC>TGC	p.Y494C	PLEKHG5_uc001ann.1_Missense_Mutation_p.Y475C|PLEKHG5_uc001anq.1_Missense_Mutation_p.Y515C|PLEKHG5_uc001anp.1_Missense_Mutation_p.Y515C|PLEKHG5_uc001anj.1_5'UTR|PLEKHG5_uc009vma.1_Missense_Mutation_p.Y278C|PLEKHG5_uc010nzr.1_Missense_Mutation_p.Y507C|PLEKHG5_uc001ank.1_Missense_Mutation_p.Y438C|PLEKHG5_uc009vmb.1_Missense_Mutation_p.Y438C|PLEKHG5_uc001anl.1_Missense_Mutation_p.Y438C|PLEKHG5_uc001anm.1_Missense_Mutation_p.Y438C|PLEKHG5_uc001anr.1_5'Flank	NM_001042663	NP_001036128	O94827	PKHG5_HUMAN	pleckstrin homology domain containing family G	494	DH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|perinuclear region of cytoplasm	Rho guanyl-nucleotide exchange factor activity|signal transducer activity			liver(1)	1	Ovarian(185;0.02)|all_lung(157;0.154)	all_cancers(23;1.7e-35)|all_epithelial(116;2.78e-22)|all_lung(118;7.57e-07)|Lung NSC(185;4.26e-06)|Colorectal(325;4.47e-05)|all_hematologic(16;0.00014)|Breast(487;0.000688)|Renal(390;0.0007)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0448)		Epithelial(90;5.51e-35)|GBM - Glioblastoma multiforme(13;3.57e-27)|Colorectal(212;6.23e-08)|COAD - Colon adenocarcinoma(227;1.33e-05)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000894)|BRCA - Breast invasive adenocarcinoma(365;0.00107)|STAD - Stomach adenocarcinoma(132;0.00159)|READ - Rectum adenocarcinoma(331;0.0419)		CTCCATGCAGTAGCGGATGTA	0.527000													6	8					0	0	0.001168	0	0	
CLSTN1	22883	broad.mit.edu	37	1	9795576	9795576	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:9795576C>T	uc001aqh.2	-	13	2591	c.1832G>A	c.(1831-1833)CGG>CAG	p.R611Q	CLSTN1_uc001aqi.2_Missense_Mutation_p.R601Q|CLSTN1_uc010oag.1_Missense_Mutation_p.R592Q|CLSTN1_uc001aqf.2_5'Flank	NM_001009566	NP_001009566	O94985	CSTN1_HUMAN	calsyntenin 1 isoform 1	611	Extracellular (Potential).				homophilic cell adhesion	cell junction|cell projection|endoplasmic reticulum membrane|Golgi membrane|integral to membrane|nucleus|postsynaptic membrane	calcium ion binding			skin(1)	1	all_lung(157;0.222)	all_lung(284;4.03e-05)|Lung NSC(185;6.93e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00314)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0234)|Colorectal(212;8.36e-08)|COAD - Colon adenocarcinoma(227;1.93e-05)|Kidney(185;0.000342)|BRCA - Breast invasive adenocarcinoma(304;0.000949)|KIRC - Kidney renal clear cell carcinoma(229;0.00122)|STAD - Stomach adenocarcinoma(132;0.00644)|READ - Rectum adenocarcinoma(331;0.0419)		GGGGAACTGCCGGGAGTTCAG	0.527000													42	118					0	0	0.007835	0	0	
C1orf158	93190	broad.mit.edu	37	1	12806445	12806445	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:12806445T>C	uc001auh.2	+	1	283	c.67T>C	c.(67-69)TCA>CCA	p.S23P	C1orf158_uc010obe.1_Missense_Mutation_p.S23P	NM_152290	NP_689503	Q8N1D5	CA158_HUMAN	hypothetical protein LOC93190	23										ovary(1)|central_nervous_system(1)|skin(1)	3	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.0042)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.06e-06)|COAD - Colon adenocarcinoma(227;0.000273)|BRCA - Breast invasive adenocarcinoma(304;0.000311)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00575)|STAD - Stomach adenocarcinoma(313;0.00743)|READ - Rectum adenocarcinoma(331;0.0649)		GACCAAGTATTCAACGAAAGT	0.478000													4	61					0	0	0.001168	0	0	
SPEN	23013	broad.mit.edu	37	1	16258904	16258904	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:16258904A>G	uc001axk.1	+	11	6373	c.6169A>G	c.(6169-6171)ACC>GCC	p.T2057A	SPEN_uc010obp.1_Missense_Mutation_p.T2016A	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	2057					interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		CCCCCCTGAAACCGCCCCTGT	0.493000													6	83					0	0	0.003080	0	0	
MST1P2	11209	broad.mit.edu	37	1	16974277	16974277	+	RNA	SNP	A	C	C	rs151151026	by1000genomes	TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:16974277A>C	uc009vow.2	+	5		c.1087A>C			MST1P2_uc010ocg.1_RNA|MST1P2_uc010och.1_Splice_Site|MST1P2_uc010oci.1_RNA|MST1P2_uc001azk.2_Splice_Site|MST1P2_uc001azl.3_RNA|MST1P2_uc009vox.2_Splice_Site|MST1P2_uc001azm.3_Splice_Site					Homo sapiens cDNA FLJ53774 complete cds, moderately similar to Hepatocyte growth factor-like protein precursor.												0						GGTCCATCTAAGGGTCCGAGG	0.657000													3	36					0	0	0.001984	0	0	
UBR4	23352	broad.mit.edu	37	1	19449413	19449413	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:19449413G>A	uc001bbi.2	-	66	9734	c.9730C>T	c.(9730-9732)CTA>TTA	p.L3244L	UBR4_uc001bbk.1_Silent_p.L891L	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	3244					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		TGCTCTTCTAGCAGCTTCTTG	0.562000													8	106					0	0	0.004482	0	0	
C1QC	714	broad.mit.edu	37	1	22974057	22974057	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:22974057G>A	uc001bgc.3	+	3	622	c.519G>A	c.(517-519)TCG>TCA	p.S173S	C1QC_uc001bga.3_Silent_p.S173S|C1QC_uc001bgb.2_Silent_p.S173S	NM_172369	NP_758957	P02747	C1QC_HUMAN	complement component 1, q subcomponent, C chain	173	C1q.				complement activation, classical pathway|innate immune response|negative regulation of granulocyte differentiation|negative regulation of macrophage differentiation	collagen					0		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00262)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;6.21e-27)|Colorectal(126;1.5e-07)|COAD - Colon adenocarcinoma(152;1.12e-05)|GBM - Glioblastoma multiforme(114;1.61e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000538)|KIRC - Kidney renal clear cell carcinoma(1967;0.00269)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.196)	Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	ACCACGCGTCGCATACAGCCA	0.582000													11	76					0	0	0.013537	0	0	
LUZP1	7798	broad.mit.edu	37	1	23418649	23418649	+	Silent	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:23418649G>T	uc001bgk.2	-	4	2490	c.2106C>A	c.(2104-2106)ACC>ACA	p.T702T	LUZP1_uc010odv.1_Silent_p.T702T|LUZP1_uc001bgl.2_Silent_p.T702T|LUZP1_uc001bgm.1_Silent_p.T702T	NM_033631	NP_361013	Q86V48	LUZP1_HUMAN	leucine zipper protein 1	702						nucleus					0		Colorectal(325;3.46e-05)|Lung NSC(340;4.15e-05)|all_lung(284;6.64e-05)|Renal(390;0.000219)|Ovarian(437;0.00373)|Breast(348;0.00815)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;4.88e-27)|Colorectal(126;8.36e-08)|COAD - Colon adenocarcinoma(152;4.31e-06)|GBM - Glioblastoma multiforme(114;8.64e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00112)|KIRC - Kidney renal clear cell carcinoma(1967;0.00176)|STAD - Stomach adenocarcinoma(196;0.0146)|READ - Rectum adenocarcinoma(331;0.0686)|Lung(427;0.0967)|LUSC - Lung squamous cell carcinoma(448;0.199)		CAAATAGGGAGGTTCTAGGTG	0.468000													16	393					2.32078e-09	2.59059e-09	0.003163	1	0	
IL28RA	163702	broad.mit.edu	37	1	24484052	24484052	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:24484052G>A	uc001bis.2	-	7	1144	c.1131C>T	c.(1129-1131)AGC>AGT	p.S377S	IL28RA_uc001bir.2_Silent_p.S348S|IL28RA_uc001bit.2_3'UTR|IL28RA_uc001biu.2_Silent_p.S293S	NM_170743	NP_734464	Q8IU57	I28RA_HUMAN	interleukin 28 receptor, alpha isoform 1	377	Cytoplasmic (Potential).				cytokine-mediated signaling pathway|negative regulation of cell proliferation|regulation of defense response to virus by host	interleukin-28 receptor complex	protein binding|receptor activity				0		Colorectal(325;3.46e-05)|Renal(390;0.0007)|Lung NSC(340;0.00117)|all_lung(284;0.00151)|Ovarian(437;0.00348)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;3.21e-24)|Colorectal(126;6.61e-08)|COAD - Colon adenocarcinoma(152;3.56e-06)|GBM - Glioblastoma multiforme(114;0.000132)|BRCA - Breast invasive adenocarcinoma(304;0.00104)|KIRC - Kidney renal clear cell carcinoma(1967;0.00374)|STAD - Stomach adenocarcinoma(196;0.00918)|READ - Rectum adenocarcinoma(331;0.0656)|Lung(427;0.0853)|LUSC - Lung squamous cell carcinoma(448;0.185)		AGGAGCCTTCGCTTGGGACCA	0.622000													19	34					0	0	0.006122	0	0	
RUNX3	864	broad.mit.edu	37	1	25254159	25254159	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:25254159C>A	uc001bjq.2	-	2	756	c.345G>T	c.(343-345)GAG>GAT	p.E115D	RUNX3_uc010oen.1_Missense_Mutation_p.E115D|RUNX3_uc009vrj.2_Missense_Mutation_p.E129D|RUNX3_uc001bjr.2_Missense_Mutation_p.E129D	NM_004350	NP_004341	Q13761	RUNX3_HUMAN	runt-related transcription factor 3 isoform 2	115	Runt.				cell proliferation|induction of apoptosis|negative regulation of cell cycle|negative regulation of epithelial cell proliferation|protein phosphorylation|transcription from RNA polymerase II promoter	cytoplasm|nucleus	ATP binding|DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0		Colorectal(325;3.46e-05)|Renal(390;0.0007)|Lung NSC(340;0.000946)|all_lung(284;0.00131)|Ovarian(437;0.00764)|Breast(348;0.0148)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0936)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0419)|OV - Ovarian serous cystadenocarcinoma(117;2.85e-26)|Colorectal(126;4.35e-08)|COAD - Colon adenocarcinoma(152;1.92e-06)|GBM - Glioblastoma multiforme(114;0.000102)|STAD - Stomach adenocarcinoma(196;0.000766)|KIRC - Kidney renal clear cell carcinoma(1967;0.00148)|BRCA - Breast invasive adenocarcinoma(304;0.00173)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.136)		CGGAGTAGTTCTCGTCATTGC	0.627000													30	175					6.00712e-18	6.92566e-18	0.012213	1	0	
SEPN1	57190	broad.mit.edu	37	1	26135608	26135608	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:26135608C>A	uc010oer.1	+	8	894	c.839C>A	c.(838-840)GCC>GAC	p.A280D	SEPN1_uc010oes.1_Missense_Mutation_p.A246D	NM_020451	NP_065184	Q9NZV5	SELN_HUMAN	selenoprotein N, 1 isoform 1 precursor	280						endoplasmic reticulum membrane|extracellular region	protein binding			ovary(2)	2		Colorectal(325;3.46e-05)|Lung NSC(340;0.00038)|all_lung(284;0.00051)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0155)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0505)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0421)|OV - Ovarian serous cystadenocarcinoma(117;1.26e-25)|Colorectal(126;3.01e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000751)|BRCA - Breast invasive adenocarcinoma(304;0.00099)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.0143)|READ - Rectum adenocarcinoma(331;0.0649)		TGCCTGACTGCCATCAGCGAC	0.627000													28	97					2.65835e-16	3.04767e-16	0.007291	1	0	
CATSPER4	378807	broad.mit.edu	37	1	26524495	26524495	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:26524495G>A	uc010oez.1	+	5	605	c.605G>A	c.(604-606)CGG>CAG	p.R202Q	CATSPER4_uc010oey.1_Missense_Mutation_p.R24Q|CATSPER4_uc009vsf.2_RNA	NM_198137	NP_937770	Q7RTX7	CTSR4_HUMAN	cation channel, sperm associated 4	202	Cytoplasmic (Potential).				cell differentiation|multicellular organismal development|spermatogenesis	cilium|flagellar membrane|integral to membrane	calcium channel activity|voltage-gated ion channel activity			ovary(1)	1		all_cancers(24;2.05e-18)|Colorectal(325;0.000147)|Renal(390;0.00211)|all_lung(284;0.00218)|Lung NSC(340;0.00239)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.051)|Breast(348;0.0589)|all_neural(195;0.0687)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;3.52e-26)|Colorectal(126;1.34e-08)|COAD - Colon adenocarcinoma(152;9.31e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.000755)|BRCA - Breast invasive adenocarcinoma(304;0.000995)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.00878)|READ - Rectum adenocarcinoma(331;0.0649)		CCCCTCGCCCGGATCATCCGC	0.652000													38	172					0	0	0.005524	0	0	
DHDDS	79947	broad.mit.edu	37	1	26795537	26795537	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:26795537G>A	uc001bml.2	+	9	1038	c.917G>A	c.(916-918)CGG>CAG	p.R306Q	DHDDS_uc001bmk.2_Missense_Mutation_p.R307Q|DHDDS_uc001bmm.2_Missense_Mutation_p.R213Q|DHDDS_uc001bmn.2_Missense_Mutation_p.R267Q|DHDDS_uc010ofd.1_Missense_Mutation_p.R272Q|uc001bmo.1_5'Flank	NM_205861	NP_995583	Q86SQ9	DHDDS_HUMAN	dehydrodolichyl diphosphate synthase isoform b	306							protein binding|transferase activity, transferring alkyl or aryl (other than methyl) groups			breast(3)	3		all_cancers(24;2.04e-25)|Colorectal(325;3.46e-05)|all_lung(284;5.94e-05)|Lung NSC(340;7.26e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.00637)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;1.11e-27)|Colorectal(126;1.61e-08)|COAD - Colon adenocarcinoma(152;9.32e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|BRCA - Breast invasive adenocarcinoma(304;0.00104)|STAD - Stomach adenocarcinoma(196;0.00154)|GBM - Glioblastoma multiforme(114;0.0161)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.166)|LUSC - Lung squamous cell carcinoma(448;0.239)		TCGGCCAGACGGGAAGAGCGA	0.637000													4	82					0	0	0.009096	0	0	
XKR8	55113	broad.mit.edu	37	1	28293529	28293529	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:28293529G>T	uc001bph.1	+	3	1083	c.1006G>T	c.(1006-1008)GTG>TTG	p.V336L		NM_018053	NP_060523	Q9H6D3	XKR8_HUMAN	XK, Kell blood group complex subunit-related	336						integral to membrane					0		Colorectal(325;0.000147)|Renal(390;0.00357)|Lung NSC(340;0.00588)|all_lung(284;0.00645)|Breast(348;0.0174)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0545)|all_neural(195;0.0557)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0416)|OV - Ovarian serous cystadenocarcinoma(117;4.72e-24)|Colorectal(126;1.52e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00269)|STAD - Stomach adenocarcinoma(196;0.00303)|BRCA - Breast invasive adenocarcinoma(304;0.00572)|READ - Rectum adenocarcinoma(331;0.0526)		TCTGCGGCTTGTGTACTACCA	0.637000													5	34					3.52763e-06	3.7997e-06	0.004990	1	0	
SDC3	9672	broad.mit.edu	37	1	31349853	31349853	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:31349853G>A	uc001bse.2	-	3	463	c.416C>T	c.(415-417)GCC>GTC	p.A139V	SDC3_uc001bsd.2_Missense_Mutation_p.A81V	NM_014654	NP_055469	O75056	SDC3_HUMAN	syndecan 3	139	Extracellular (Potential).|Ser/Thr-rich (mucin-like).					integral to membrane	cytoskeletal protein binding			ovary(1)|central_nervous_system(1)	2		Myeloproliferative disorder(586;0.0393)|Colorectal(325;0.0466)|all_neural(195;0.0966)|Ovarian(437;0.127)|Medulloblastoma(700;0.151)		STAD - Stomach adenocarcinoma(196;0.0197)|READ - Rectum adenocarcinoma(331;0.0649)		GGGGCTGGTGGCTGGCTCCAG	0.652000													3	48					0	0	0.009096	0	0	
KPNA6	23633	broad.mit.edu	37	1	32628122	32628122	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:32628122T>C	uc001bug.2	+	9	996	c.908T>C	c.(907-909)CTG>CCG	p.L303P	KPNA6_uc001buh.2_Missense_Mutation_p.L78P|KPNA6_uc010ogx.1_Missense_Mutation_p.L300P|KPNA6_uc010ogy.1_Missense_Mutation_p.L308P|KPNA6_uc009vtz.2_Missense_Mutation_p.L198P	NM_012316	NP_036448	O60684	IMA7_HUMAN	karyopherin alpha 6	303	ARM 6.				NLS-bearing substrate import into nucleus	cytoplasm|nuclear pore	protein binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.101)|Breast(348;0.174)				GTAGAGCTGCTGATGTGAGTG	0.353000													7	66					0	0	0.001984	0	0	
TRIM62	55223	broad.mit.edu	37	1	33623854	33623854	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:33623854C>A	uc001bxb.2	-	4	1515	c.877G>T	c.(877-879)GTG>TTG	p.V293L		NM_018207	NP_060677	Q9BVG3	TRI62_HUMAN	tripartite motif-containing 62	293	B30.2/SPRY.					intracellular	zinc ion binding				0		Myeloproliferative disorder(586;0.0393)				CATGCCTTACCTGGGTGGATG	0.567000													15	86					1.49906e-05	1.60065e-05	0.002450	1	0	
NCDN	23154	broad.mit.edu	37	1	36031043	36031043	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:36031043G>A	uc001bza.2	+	8	2096	c.1969G>A	c.(1969-1971)GCT>ACT	p.A657T	NCDN_uc001bzb.2_Missense_Mutation_p.A657T|NCDN_uc001bzc.2_Missense_Mutation_p.A640T	NM_001014839	NP_001014839	Q9UBB6	NCDN_HUMAN	neurochondrin isoform 1	657					neuron projection development	cytosol|dendrite|neuronal cell body				large_intestine(2)|pancreas(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				GCTGGCCCCCGCTGCCCTGCG	0.677000													7	27					0	0	0.001984	0	0	
EIF2C4	192670	broad.mit.edu	37	1	36306800	36306800	+	Nonsense_Mutation	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:36306800G>T	uc001bzj.1	+	14	1949	c.1759G>T	c.(1759-1761)GGA>TGA	p.G587*		NM_017629	NP_060099	Q9HCK5	AGO4_HUMAN	eukaryotic translation initiation factor 2C, 4	587	Piwi.				mRNA catabolic process|negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|cytosol	protein binding|RNA binding			ovary(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				CATCTTCCTGGGAGCGGATGT	0.532000													12	47					5.50884e-06	5.91815e-06	0.013537	1	0	
EIF2C3	192669	broad.mit.edu	37	1	36520603	36520603	+	Silent	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:36520603A>G	uc001bzp.2	+	18	2587	c.2331A>G	c.(2329-2331)GCA>GCG	p.A777A	EIF2C3_uc001bzq.2_Silent_p.A543A	NM_024852	NP_079128	Q9H9G7	AGO3_HUMAN	eukaryotic translation initiation factor 2C, 3	777	Piwi.				mRNA catabolic process|negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|cytosol	protein binding|RNA binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				GCTTTACTGCAGATGAACTTC	0.433000													13	65					0	0	0.002450	0	0	
HEYL	26508	broad.mit.edu	37	1	40098329	40098329	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:40098329G>A	uc001cdp.2	-	2	190	c.139C>T	c.(139-141)CGC>TGC	p.R47C	HEYL_uc010oiw.1_Missense_Mutation_p.H19Y	NM_014571	NP_055386	Q9NQ87	HEYL_HUMAN	hairy/enhancer-of-split related with YRPW	47	Transcriptional repression and interaction with NCOR1 and SIN3A (By similarity).|Basic motif.				multicellular organismal development|Notch signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1	Lung NSC(20;3.81e-06)|Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1.1e-18)|Epithelial(16;2.77e-17)|all cancers(16;5.64e-16)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			ACCCCTCTGTGTTTCTTCCTG	0.567000													14	261					0	0	0.004990	0	0	
HPCAL4	51440	broad.mit.edu	37	1	40149756	40149756	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:40149756G>A	uc001cdr.2	-	3	351	c.231C>T	c.(229-231)GAC>GAT	p.D77D	HPCAL4_uc010oix.1_Intron	NM_016257	NP_057341	Q9UM19	HPCL4_HUMAN	hippocalcin-like protein 4	77	EF-hand 2.|1 (Potential).				central nervous system development	intracellular	calcium ion binding			central_nervous_system(1)	1	all_cancers(7;4.65e-13)|Lung NSC(20;2.88e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1.87e-18)|Epithelial(16;4.3e-17)|all cancers(16;8.48e-16)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			CGATGGTGCCGTCGCCGTTCT	0.647000													7	45					0	0	0.001984	0	0	
RLF	6018	broad.mit.edu	37	1	40705239	40705239	+	Missense_Mutation	SNP	G	A	A	rs150236303		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:40705239G>A	uc001cfc.3	+	8	4896	c.4865G>A	c.(4864-4866)CGC>CAC	p.R1622H	RLF_uc001cfd.3_Missense_Mutation_p.R1313H	NM_012421	NP_036553	Q13129	RLF_HUMAN	rearranged L-myc fusion	1622					chromosome organization|DNA integration|DNA mediated transformation|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			ovary(2)|pancreas(1)	3	Lung NSC(20;4.38e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;5.87e-19)|Epithelial(16;7.02e-16)|all cancers(16;1.69e-14)|Lung(16;0.0427)|LUSC - Lung squamous cell carcinoma(16;0.0461)			GAATCAGAGCGCACAGAACAC	0.463000													14	44					0	0	0.002450	0	0	
RIMKLA	284716	broad.mit.edu	37	1	42880412	42880412	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:42880412C>A	uc001chi.2	+	5	1081	c.943C>A	c.(943-945)CCA>ACA	p.P315T		NM_173642	NP_775913	Q8IXN7	RIMKA_HUMAN	ribosomal modification protein rimK-like family	315					protein modification process	cytoplasm	acid-amino acid ligase activity|ATP binding|metal ion binding				0						GGCTGTCCTCCCAGGACTGTC	0.532000													19	81					6.49762e-13	7.38721e-13	0.006122	1	0	
ZSWIM5	57643	broad.mit.edu	37	1	45484698	45484698	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:45484698T>C	uc001cnd.2	-	14	3214	c.2986A>G	c.(2986-2988)ACC>GCC	p.T996A		NM_020883	NP_065934	Q9P217	ZSWM5_HUMAN	zinc finger, SWIM domain containing 5	996							zinc ion binding				0	Acute lymphoblastic leukemia(166;0.155)					TGTGAATGGGTCATACCACCA	0.552000											OREG0013450	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	32	91					0	0	0.010818	0	0	
ZFYVE9	9372	broad.mit.edu	37	1	52705193	52705193	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:52705193G>A	uc001cto.2	+	4	2276	c.2104G>A	c.(2104-2106)GCT>ACT	p.A702T	ZFYVE9_uc001ctn.2_Missense_Mutation_p.A702T|ZFYVE9_uc001ctp.2_Missense_Mutation_p.A702T	NM_004799	NP_004790	O95405	ZFYV9_HUMAN	zinc finger, FYVE domain containing 9 isoform 3	702	FYVE-type.				endocytosis|SMAD protein complex assembly|SMAD protein import into nucleus|transforming growth factor beta receptor signaling pathway	early endosome membrane	metal ion binding|protein binding|receptor activity|serine-type peptidase activity			ovary(2)|lung(2)|central_nervous_system(2)|skin(2)	8						GGATTCTCAGGCTCCAAATTG	0.473000													9	72					0	0	0.004482	0	0	
ZCCHC11	23318	broad.mit.edu	37	1	52911986	52911986	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:52911986C>T	uc001ctx.2	-	22	3876	c.3642G>A	c.(3640-3642)CTG>CTA	p.L1214L	ZCCHC11_uc001cty.2_Silent_p.L1214L|ZCCHC11_uc001ctz.2_Silent_p.L1214L|ZCCHC11_uc009vze.1_Silent_p.L1214L|ZCCHC11_uc009vzf.1_Silent_p.L935L|ZCCHC11_uc001cua.1_Silent_p.L131L	NM_015269	NP_056084	Q5TAX3	TUT4_HUMAN	zinc finger, CCHC domain containing 11 isoform	1214	PAP-associated 2.				miRNA catabolic process|pre-miRNA processing|RNA 3'-end processing|stem cell maintenance	cytoplasm|nucleolus	nucleic acid binding|protein binding|protein binding|RNA uridylyltransferase activity|zinc ion binding			ovary(2)|skin(1)	3						AAGTTGTCAACAGCTTTTTCT	0.388000													19	121					0	0	0.008871	0	0	
TTC4	7268	broad.mit.edu	37	1	55197241	55197241	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:55197241G>T	uc001cxx.3	+	7	817	c.764G>T	c.(763-765)GGA>GTA	p.G255V	C1orf175_uc001cxq.2_Intron|TTC4_uc001cxw.3_Intron|TTC4_uc001cxv.2_Missense_Mutation_p.G266V	NM_004623	NP_004614	O95801	TTC4_HUMAN	tetratricopeptide repeat domain 4	255							binding				0						TTCCTGGATGGACTCAGCACT	0.542000													14	27					9.16793e-09	1.01691e-08	0.004990	1	0	
C1orf177	163747	broad.mit.edu	37	1	55273338	55273338	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:55273338C>T	uc001cyb.3	+	3	386	c.332C>T	c.(331-333)GCC>GTC	p.A111V	C1orf177_uc001cya.3_Missense_Mutation_p.A111V	NM_001110533	NP_001104003	Q3ZCV2	CA177_HUMAN	hypothetical protein LOC163747 isoform 2	111											0						CAGTACCAGGCCATCATGAAA	0.607000													6	23					0	0	0.001984	0	0	
EFCAB7	84455	broad.mit.edu	37	1	63998360	63998360	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:63998360G>A	uc001dbf.2	+	4	713	c.419G>A	c.(418-420)CGA>CAA	p.R140Q		NM_032437	NP_115813	A8K855	EFCB7_HUMAN	EF-hand calcium binding domain 7	140	EF-hand 2.						calcium ion binding				0						AAGATGACTCGAGAAGAAGTA	0.323000													13	51					0	0	0.013537	0	0	
NEGR1	257194	broad.mit.edu	37	1	72241870	72241870	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:72241870G>A	uc001dfw.2	-	3	620	c.520C>T	c.(520-522)CAC>TAC	p.H174Y	NEGR1_uc001dfv.2_Missense_Mutation_p.H46Y|NEGR1_uc010oqs.1_Missense_Mutation_p.H174Y	NM_173808	NP_776169	Q7Z3B1	NEGR1_HUMAN	neuronal growth regulator 1 precursor	174	Ig-like C2-type 2.				cell adhesion	anchored to membrane|plasma membrane				ovary(1)	1		all_cancers(4;1.26e-06)|Renal(4;1.32e-08)|all_epithelial(4;5.39e-07)|Hepatocellular(141;0.117)		KIRC - Kidney renal clear cell carcinoma(4;0.00529)|Kidney(4;0.00609)|all cancers(265;0.022)|GBM - Glioblastoma multiforme(62;0.0382)|Epithelial(280;0.242)		GGGGAGATGTGTCGCCAAGAA	0.423000													5	32					0	0	0.001168	0	0	
CCBL2	56267	broad.mit.edu	37	1	89408705	89408705	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:89408705G>A	uc001dmp.2	-	13	1662	c.1285C>T	c.(1285-1287)CGT>TGT	p.R429C	CCBL2_uc001dmq.2_Missense_Mutation_p.R395C|CCBL2_uc001dmr.2_Missense_Mutation_p.R265C	NM_001008661	NP_001008661	Q6YP21	KAT3_HUMAN	kynurenine aminotransferase III isoform 1	429		Substrate (By similarity).			biosynthetic process|kynurenine metabolic process|tryptophan catabolic process		cysteine-S-conjugate beta-lyase activity|kynurenine-glyoxylate transaminase activity|kynurenine-oxoglutarate transaminase activity|pyridoxal phosphate binding			ovary(1)	1		Lung NSC(277;0.123)		all cancers(265;0.0117)|Epithelial(280;0.0341)	L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	AAGCAAAAACGCACAAACTTC	0.294000													24	178					0	0	0.008361	0	0	
GBP5	115362	broad.mit.edu	37	1	89730595	89730595	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:89730595G>T	uc001dnc.2	-	8	1460	c.923C>A	c.(922-924)CCT>CAT	p.P308H	GBP5_uc001dnd.2_Missense_Mutation_p.P308H|GBP5_uc001dne.1_Missense_Mutation_p.P308H	NM_052942	NP_443174	Q96PP8	GBP5_HUMAN	guanylate-binding protein 5	308						plasma membrane	GTP binding|GTPase activity			ovary(1)	1				all cancers(265;0.00784)|Epithelial(280;0.0286)		CTCTATGCAAGGCAGATCCCC	0.468000													9	69					0.000274275	0.000289094	0.004482	1	0	
GBP5	115362	broad.mit.edu	37	1	89732816	89732816	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:89732816T>C	uc001dnc.2	-	6	986	c.449A>G	c.(448-450)GAT>GGT	p.D150G	GBP5_uc001dnd.2_Missense_Mutation_p.D150G|GBP5_uc001dne.1_Missense_Mutation_p.D150G	NM_052942	NP_443174	Q96PP8	GBP5_HUMAN	guanylate-binding protein 5	150						plasma membrane	GTP binding|GTPase activity			ovary(1)	1				all cancers(265;0.00784)|Epithelial(280;0.0286)		CTTGAGCAGATCTGTCAGTTC	0.448000													17	73					0	0	0.004007	0	0	
LRRC8D	55144	broad.mit.edu	37	1	90399510	90399510	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:90399510C>T	uc001dnm.2	+	3	1308	c.883C>T	c.(883-885)CGT>TGT	p.R295C	LRRC8D_uc001dnn.2_Missense_Mutation_p.R295C	NM_001134479	NP_001127951	Q7L1W4	LRC8D_HUMAN	leucine rich repeat containing 8 family, member	295						integral to membrane	protein binding			ovary(2)	2		all_lung(203;0.0894)|Lung NSC(277;0.227)		all cancers(265;0.0109)|Epithelial(280;0.0427)		GAGGAAGTTCCGTGCCCATGT	0.428000													5	40					0	0	0.000602	0	0	
RPAP2	79871	broad.mit.edu	37	1	92811469	92811469	+	Silent	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:92811469A>G	uc001dot.2	+	11	1795	c.1686A>G	c.(1684-1686)TCA>TCG	p.S562S	RPAP2_uc009wdh.2_RNA	NM_024813	NP_079089	Q8IXW5	RPAP2_HUMAN	RNA polymerase II associated protein 2	562	Helical; (Potential).					integral to membrane|nucleus	metal ion binding|phosphoprotein phosphatase activity			ovary(1)	1		all_lung(203;0.0565)|Lung NSC(277;0.152)|Glioma(108;0.222)		all cancers(265;0.00647)|GBM - Glioblastoma multiforme(16;0.0234)|Epithelial(280;0.115)		TGTTGCTGTCATTGTAAGTAC	0.323000													7	60					0	0	0.003080	0	0	
ABCA4	24	broad.mit.edu	37	1	94476454	94476454	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:94476454C>A	uc001dqh.2	-	40	5720	c.5616G>T	c.(5614-5616)TGG>TGT	p.W1872C	ABCA4_uc001dqi.1_5'UTR|ABCA4_uc009wdp.1_Missense_Mutation_p.W140C	NM_000350	NP_000341	P78363	ABCA4_HUMAN	ATP-binding cassette, sub-family A member 4	1872					phototransduction, visible light|visual perception	integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)|skin(4)|central_nervous_system(2)|upper_aerodigestive_tract(1)|breast(1)	12		all_lung(203;0.000757)|Lung NSC(277;0.00335)		all cancers(265;0.00432)|GBM - Glioblastoma multiforme(16;0.00715)|Epithelial(280;0.171)		CAATCAGGTCCCAGTGGAACG	0.582000													17	67					1.15088e-07	1.26855e-07	0.004007	1	0	
DPH5	51611	broad.mit.edu	37	1	101456138	101456138	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:101456138G>A	uc001dts.2	-	8	831	c.684C>T	c.(682-684)GAC>GAT	p.D228D	DPH5_uc001dtr.2_Silent_p.D227D|DPH5_uc001dtq.2_RNA|DPH5_uc001dtt.2_Silent_p.D228D|DPH5_uc001dtu.2_RNA|DPH5_uc001dtv.2_RNA|DPH5_uc001dtw.2_RNA|DPH5_uc001dtx.2_Nonsense_Mutation_p.R193*|DPH5_uc001dty.2_Silent_p.D107D|DPH5_uc001dtz.2_RNA	NM_015958	NP_057042	Q9H2P9	DPH5_HUMAN	diphthine synthase isoform a	228					peptidyl-diphthamide biosynthetic process from peptidyl-histidine		diphthine synthase activity				0		all_epithelial(167;3.1e-06)|all_lung(203;0.000414)|Lung NSC(277;0.000946)		Epithelial(280;0.0385)|all cancers(265;0.043)|COAD - Colon adenocarcinoma(174;0.151)|Colorectal(144;0.173)|Lung(183;0.198)		TTTTCTGGTCGTCGGCTCCAA	0.443000													18	65					0	0	0.008871	0	0	
NTNG1	22854	broad.mit.edu	37	1	107691419	107691419	+	Silent	SNP	G	A	A	rs147345058	byFrequency	TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:107691419G>A	uc001dvh.3	+	2	922	c.204G>A	c.(202-204)CCG>CCA	p.P68P	NTNG1_uc001dvf.3_Silent_p.P68P|NTNG1_uc010out.1_Silent_p.P68P|NTNG1_uc001dvc.3_Silent_p.P68P|NTNG1_uc001dvd.1_Silent_p.P68P	NM_001113226	NP_001106697	Q9Y2I2	NTNG1_HUMAN	netrin G1 isoform 1	68	Laminin N-terminal.				axonogenesis	anchored to plasma membrane	protein binding			large_intestine(2)|ovary(2)|skin(2)	6		all_epithelial(167;1.39e-05)|all_lung(203;0.000115)|Lung NSC(277;0.000238)|Breast(1374;0.243)		Lung(183;0.0946)|BRCA - Breast invasive adenocarcinoma(282;0.237)|Epithelial(280;0.245)		TCGATCCTCCGGATATTACCT	0.438000													23	83					0	0	0.002780	0	0	
EPS8L3	79574	broad.mit.edu	37	1	110301215	110301215	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:110301215T>C	uc001dyr.1	-	7	677	c.532A>G	c.(532-534)ATG>GTG	p.M178V	EPS8L3_uc001dys.1_Missense_Mutation_p.M178V|EPS8L3_uc001dyq.1_Missense_Mutation_p.M179V|EPS8L3_uc009wfm.1_Missense_Mutation_p.M145V|EPS8L3_uc009wfn.1_Missense_Mutation_p.M145V|EPS8L3_uc009wfo.1_Missense_Mutation_p.M125V	NM_133181	NP_573444	Q8TE67	ES8L3_HUMAN	epidermal growth factor receptor pathway	178	Pro-rich.					cytoplasm	protein binding			ovary(2)|skin(1)	3		all_epithelial(167;1.95e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)		Lung(183;0.0245)|Colorectal(144;0.0365)|all cancers(265;0.103)|Epithelial(280;0.109)|LUSC - Lung squamous cell carcinoma(189;0.137)|COAD - Colon adenocarcinoma(174;0.141)		GCCTGCTCCATAGGGAGCGGC	0.617000													6	75					0	0	0.001984	0	0	
C1orf103	55791	broad.mit.edu	37	1	111490937	111490937	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:111490937C>T	uc001eaa.2	-	4	2210	c.1954G>A	c.(1954-1956)GCA>ACA	p.A652T	C1orf103_uc001dzz.2_Missense_Mutation_p.A116T|C1orf103_uc001eab.2_Missense_Mutation_p.A116T|C1orf103_uc001eac.1_Missense_Mutation_p.A115T	NM_018372	NP_060842	Q5T3J3	LRIF1_HUMAN	receptor-interacting factor 1 isoform 1	652					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear matrix	protein binding				0		all_cancers(81;1.02e-05)|all_epithelial(167;1.87e-05)|all_lung(203;0.000234)|Lung NSC(277;0.000451)		Lung(183;0.0155)|Colorectal(144;0.0314)|all cancers(265;0.082)|LUSC - Lung squamous cell carcinoma(189;0.0826)|Epithelial(280;0.0891)|COAD - Colon adenocarcinoma(174;0.134)		TTTATGATTGCGTTATAAGCA	0.348000													16	77					0	0	0.003163	0	0	
DDX20	11218	broad.mit.edu	37	1	112308658	112308658	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:112308658T>C	uc001ebs.2	+	11	1969	c.1612T>C	c.(1612-1614)TGT>CGT	p.C538R	DDX20_uc010owf.1_Missense_Mutation_p.C300R|DDX20_uc001ebt.2_Missense_Mutation_p.C146R	NM_007204	NP_009135	Q9UHI6	DDX20_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 20	538	SMN interacting.				assembly of spliceosomal tri-snRNP|ncRNA metabolic process	Cajal body|cytoskeleton|cytosol|spliceosomal complex	ATP binding|ATP-dependent RNA helicase activity|DNA binding|protein binding			lung(1)|kidney(1)	2		all_cancers(81;1.06e-05)|all_epithelial(167;7.36e-06)|all_lung(203;2.44e-05)|Lung NSC(69;4.15e-05)		Lung(183;0.0234)|Colorectal(144;0.0282)|all cancers(265;0.0614)|Epithelial(280;0.0999)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		AGAACTGGGCTGTGACAGGCA	0.418000													4	75					0	0	0.009096	0	0	
SPAG17	200162	broad.mit.edu	37	1	118609480	118609480	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:118609480A>G	uc001ehk.2	-	18	2496	c.2428T>C	c.(2428-2430)TAC>CAC	p.Y810H		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	810						cilium|flagellar axoneme|microtubule				upper_aerodigestive_tract(2)|ovary(2)|large_intestine(1)|skin(1)	6	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)		GTGTGGTAGTAAGAATCAACA	0.363000													7	46					0	0	0.003080	0	0	
GJA8	2703	broad.mit.edu	37	1	147380281	147380281	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:147380281G>A	uc001epu.1	+	2	262	c.199G>A	c.(199-201)GAC>AAC	p.D67N		NM_005267	NP_005258	P48165	CXA8_HUMAN	connexin 50	67	Extracellular (Potential).				cell communication|visual perception	connexon complex|integral to plasma membrane	channel activity			ovary(2)|large_intestine(2)|breast(1)|skin(1)	6	all_hematologic(923;0.0276)					CGTCTGCTACGACGAGGCCTT	0.612000													19	52					0	0	0.008871	0	0	
HIST2H2BF	440689	broad.mit.edu	37	1	149398890	149398890	+	RNA	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:149398890G>A	uc010pbi.1	-	1		c.340C>T						Q5QNW6	H2B2F_HUMAN	Homo sapiens histone cluster 2, H3, pseudogene 2, mRNA (cDNA clone IMAGE:5190019).						nucleosome assembly	nucleosome|nucleus	DNA binding				0	Breast(34;0.0124)|all_hematologic(923;0.127)					GCGCACGGCCGTCTGGATCTC	0.647000													11	96					0	0	0.013537	0	0	
POGZ	23126	broad.mit.edu	37	1	151378226	151378226	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:151378226C>A	uc001eyd.1	-	19	3591	c.3285G>T	c.(3283-3285)AAG>AAT	p.K1095N	POGZ_uc001eye.1_Missense_Mutation_p.K1042N|POGZ_uc010pdb.1_Missense_Mutation_p.K1086N|POGZ_uc001eyf.1_Missense_Mutation_p.K1051N|POGZ_uc010pdc.1_Missense_Mutation_p.K1033N|POGZ_uc009wmv.1_Missense_Mutation_p.K1000N|POGZ_uc010pdd.1_Missense_Mutation_p.K586N	NM_015100	NP_055915	Q7Z3K3	POGZ_HUMAN	pogo transposable element with ZNF domain	1095				TLPKDVAENAGLFIDF -> PTLLFCLFVFSSPSTL (in Ref. 4; BAB87117/BAE45744).	cell division|kinetochore assembly|mitotic sister chromatid cohesion|regulation of transcription, DNA-dependent	cytoplasm|nuclear chromatin	DNA binding|protein binding|zinc ion binding			ovary(3)	3	Lung SC(34;0.00471)|Ovarian(49;0.00672)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			CTGCTACATCCTTAGGTAGGG	0.512000													32	87					9.65021e-13	1.09613e-12	0.010818	1	0	
TCHH	7062	broad.mit.edu	37	1	152080709	152080709	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:152080709G>A	uc001ezp.2	-	2	4984	c.4984C>T	c.(4984-4986)CGT>TGT	p.R1662C	TCHH_uc009wne.1_Missense_Mutation_p.R1662C	NM_007113	NP_009044	Q07283	TRHY_HUMAN	trichohyalin	1662	23 X 26 AA approximate tandem repeats.				keratinization	cytoskeleton	calcium ion binding			ovary(3)|kidney(1)|central_nervous_system(1)	5	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CGGTCGTGACGCAGCTGTTGT	0.597000													19	178					0	0	0.007413	0	0	
FLG	2312	broad.mit.edu	37	1	152277576	152277576	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:152277576G>A	uc001ezu.1	-	3	9822	c.9786C>T	c.(9784-9786)GCC>GCT	p.A3262A		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	3262	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GCCCGTGACCGGCTCTGTCTT	0.582000									Ichthyosis				18	555					0	0	0.007413	0	0	
FLG	2312	broad.mit.edu	37	1	152280923	152280923	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:152280923C>G	uc001ezu.1	-	3	6475	c.6439G>C	c.(6439-6441)GGA>CGA	p.G2147R		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	2147	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TGTCTTCCTCCTCTGCTTGGC	0.567000									Ichthyosis				139	403					0	0	0.014410	0	0	
LOR	4014	broad.mit.edu	37	1	153233517	153233517	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:153233517G>A	uc001fbm.2	+	2	146	c.92G>A	c.(91-93)GGT>GAT	p.G31D		NM_000427	NP_000418	P23490	LORI_HUMAN	loricrin	31					keratinization|peptide cross-linking	cornified envelope|cytoplasm|insoluble fraction|nucleoplasm	protein binding, bridging|structural constituent of cytoskeleton				0	all_lung(78;3.35e-32)|Lung NSC(65;1.22e-30)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.171)			ggcagcggcggtggtggctgc	0.184000													5	32					0	0	0.000602	0	0	
PGLYRP3	114771	broad.mit.edu	37	1	153270514	153270514	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:153270514C>T	uc001fbn.1	-	7	997	c.944G>A	c.(943-945)GGC>GAC	p.G315D		NM_052891	NP_443123	Q96LB9	PGRP3_HUMAN	peptidoglycan recognition protein 3 precursor	315					defense response to Gram-positive bacterium|detection of bacterium|innate immune response|peptidoglycan catabolic process	extracellular region|intracellular|membrane	N-acetylmuramoyl-L-alanine amidase activity|peptidoglycan receptor activity|zinc ion binding			ovary(2)|pancreas(1)|skin(1)	4	all_lung(78;3.35e-32)|Lung NSC(65;1.22e-30)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.171)			GTCACTGTGGCCCATCAGCAG	0.577000													10	378					0	0	0.008291	0	0	
ILF2	3608	broad.mit.edu	37	1	153642708	153642708	+	Splice_Site	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:153642708T>C	uc001fcr.2	-	2	87	c.6_splice	c.e2-1	p.R2_splice	ILF2_uc010pdy.1_Splice_Site|ILF2_uc009wok.2_Splice_Site_p.R2_splice|ILF2_uc009wol.1_Splice_Site	NM_004515	NP_004506	Q12905	ILF2_HUMAN	interleukin enhancer binding factor 2						immune response|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus|ribonucleoprotein complex	ATP binding|DNA binding|double-stranded RNA binding|protein binding|transferase activity				0	all_lung(78;1.84e-32)|Lung NSC(65;6.67e-31)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.171)			CTGTCACCCCTAGAAATGCAG	0.522000													22	70					0	0	0.010504	0	0	
DENND4B	9909	broad.mit.edu	37	1	153907329	153907329	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:153907329G>A	uc001fdd.1	-	18	3081	c.2680C>T	c.(2680-2682)CGG>TGG	p.R894W	uc001fdc.1_RNA	NM_014856	NP_055671	O75064	DEN4B_HUMAN	DENN/MADD domain containing 4B	894	Gln-rich.									ovary(1)	1	all_lung(78;2.89e-32)|Lung NSC(65;2.27e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			tgctgttgcCGTTCTCTCAAG	0.463000													21	97					0	0	0.002780	0	0	
ATP8B2	57198	broad.mit.edu	37	1	154318321	154318321	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:154318321A>C	uc001fex.2	+	24	2839	c.2839A>C	c.(2839-2841)ACC>CCC	p.T947P		NM_020452	NP_065185	P98198	AT8B2_HUMAN	ATPase, class I, type 8B, member 2 isoform a	933	Helical; (Potential).				ATP biosynthetic process	plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(1)|skin(1)	2	all_lung(78;2.62e-30)|Lung NSC(65;3.94e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			CATCGTGTACACCTCCCTGCC	0.507000													5	111					0	0	0.013537	0	0	
RXFP4	339403	broad.mit.edu	37	1	155911718	155911718	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:155911718G>A	uc010pgs.1	+	1	239	c.218G>A	c.(217-219)GGC>GAC	p.G73D		NM_181885	NP_871001	Q8TDU9	RL3R2_HUMAN	relaxin 3 receptor 2	73	Cytoplasmic (Potential).					integral to membrane|plasma membrane	angiotensin type II receptor activity				0	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)					AGAGCCCCTGGCCCACCTTCA	0.612000													27	65					0	0	0.004656	0	0	
SMG5	23381	broad.mit.edu	37	1	156235649	156235649	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:156235649T>C	uc001foc.3	-	12	1927	c.1778A>G	c.(1777-1779)CAG>CGG	p.Q593R	SMG5_uc009wrv.2_Missense_Mutation_p.Q78R	NM_015327	NP_056142	Q9UPR3	SMG5_HUMAN	SMG5 homolog nonsense mediated mRNA decay	593					mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation	cytoplasm|nucleus	protein phosphatase 2A binding			ovary(2)|skin(2)|pancreas(1)	5	Hepatocellular(266;0.158)					GGTGGTGGGCTGGAGGAGCAG	0.567000													20	119					0	0	0.008871	0	0	
SMG5	23381	broad.mit.edu	37	1	156235910	156235910	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:156235910G>A	uc001foc.3	-	12	1666	c.1517C>T	c.(1516-1518)ACG>ATG	p.T506M	SMG5_uc009wrv.2_Translation_Start_Site	NM_015327	NP_056142	Q9UPR3	SMG5_HUMAN	SMG5 homolog nonsense mediated mRNA decay	506					mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation	cytoplasm|nucleus	protein phosphatase 2A binding			ovary(2)|skin(2)|pancreas(1)	5	Hepatocellular(266;0.158)					ATCAAAGGCCGTTCCCCCACC	0.552000													35	101					0	0	0.004878	0	0	
APOA1BP	128240	broad.mit.edu	37	1	156563292	156563292	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:156563292C>T	uc001fph.2	+	5	648	c.609C>T	c.(607-609)ATC>ATT	p.I203I	APOA1BP_uc001fpg.2_Silent_p.I203I|APOA1BP_uc001fpi.2_Missense_Mutation_p.P185S|APOA1BP_uc001fpj.2_Silent_p.I120I|APOA1BP_uc001fpk.2_Silent_p.I100I|APOA1BP_uc010php.1_Silent_p.I100I	NM_144772	NP_658985	Q8NCW5	AIBP_HUMAN	apolipoprotein A-I binding protein precursor	203	YjeF N-terminal.					extracellular region	protein binding			central_nervous_system(1)	1	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					TCCACAGCATCCTGAGTGTCC	0.572000													14	57					0	0	0.002450	0	0	
PEAR1	375033	broad.mit.edu	37	1	156875185	156875185	+	Silent	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:156875185T>C	uc001fqj.1	+	4	392	c.276T>C	c.(274-276)CAT>CAC	p.H92H	PEAR1_uc009wsl.1_5'Flank|PEAR1_uc001fqk.1_5'Flank	NM_001080471	NP_001073940	Q5VY43	PEAR1_HUMAN	platelet endothelial aggregation receptor 1	92	EMI.					integral to membrane				ovary(2)|central_nervous_system(1)	3	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					AGTGCTGCCATGGCTTCTATG	0.637000													5	60					0	0	0.001984	0	0	
CD5L	922	broad.mit.edu	37	1	157804431	157804431	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:157804431C>T	uc001frk.3	-	4	627	c.484G>A	c.(484-486)GTG>ATG	p.V162M		NM_005894	NP_005885	O43866	CD5L_HUMAN	CD5 molecule-like precursor	162	SRCR 2.				apoptosis|cellular defense response	extracellular space|membrane	scavenger receptor activity			ovary(1)	1	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			GTCTGGCACACGGTATACCAC	0.617000													29	102					0	0	0.008361	0	0	
CD1D	912	broad.mit.edu	37	1	158152844	158152844	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:158152844T>C	uc001frr.2	+	5	1283	c.784T>C	c.(784-786)TAT>CAT	p.Y262H	CD1D_uc009wss.2_Intron	NM_001766	NP_001757	P15813	CD1D_HUMAN	CD1D antigen precursor	262	Ig-like.|Extracellular (Potential).				antigen processing and presentation, endogenous lipid antigen via MHC class Ib|detection of bacterium|innate immune response|interspecies interaction between organisms|positive regulation of innate immune response|T cell selection	endosome membrane|integral to plasma membrane|lysosomal membrane	beta-2-microglobulin binding|exogenous lipid antigen binding|histone binding			ovary(1)	1	all_hematologic(112;0.0378)					CGAGACATGGTATCTCCGAGC	0.602000													20	110					0	0	0.010504	0	0	
SPTA1	6708	broad.mit.edu	37	1	158632648	158632648	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:158632648A>G	uc001fst.1	-	17	2507	c.2308T>C	c.(2308-2310)TCC>CCC	p.S770P		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	770	Spectrin 8.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					CATACCAAGGACTCTTGCCTT	0.458000													11	57					0	0	0.008291	0	0	
OR6K3	391114	broad.mit.edu	37	1	158687066	158687066	+	Silent	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:158687066A>G	uc010pip.1	-	1	888	c.888T>C	c.(886-888)CTT>CTC	p.L296L		NM_001005327	NP_001005327	Q8NGY3	OR6K3_HUMAN	olfactory receptor, family 6, subfamily K,	296	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	all_hematologic(112;0.0378)					AGAATGGAGCAAGTACAGTAA	0.408000													21	96					0	0	0.012319	0	0	
DCAF8	50717	broad.mit.edu	37	1	160208501	160208501	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:160208501C>T	uc001fvo.2	-	5	1072	c.760G>A	c.(760-762)GCC>ACC	p.A254T	DCAF8_uc001fvn.2_Missense_Mutation_p.A254T|DCAF8_uc009wth.2_Missense_Mutation_p.A254T|DCAF8_uc010pjb.1_Missense_Mutation_p.A254T|DCAF8_uc010pjc.1_Missense_Mutation_p.A408T|uc010pjd.1_5'Flank	NM_015726	NP_056541	Q5TAQ9	DCAF8_HUMAN	DDB1 and CUL4 associated factor 8	254	WD 2.					CUL4 RING ubiquitin ligase complex	protein binding			skin(2)	2						GCACACATGGCCAGAGTAGAA	0.473000													7	20					0	0	0.003080	0	0	
B4GALT3	8703	broad.mit.edu	37	1	161143511	161143511	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:161143511C>T	uc001fyq.1	-	6	949	c.687G>A	c.(685-687)CCG>CCA	p.P229P	PPOX_uc010pkh.1_Intron|PPOX_uc001fyi.2_Intron|B4GALT3_uc001fyo.1_Silent_p.P9P|B4GALT3_uc001fyp.1_RNA|B4GALT3_uc001fyr.1_Silent_p.P229P|B4GALT3_uc001fys.1_Silent_p.P229P|B4GALT3_uc009wud.1_3'UTR	NM_003779	NP_003770	O60512	B4GT3_HUMAN	UDP-Gal:betaGlcNAc beta 1,4-	229	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	beta-N-acetylglucosaminylglycopeptide beta-1,4-galactosyltransferase activity|metal ion binding|N-acetyllactosamine synthase activity				0	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)		N-Acetyl-D-glucosamine(DB00141)	ACTGGGGGTACGGGAGGCTAG	0.552000													6	95					0	0	0.001168	0	0	
FCRLB	127943	broad.mit.edu	37	1	161695837	161695837	+	Silent	SNP	C	T	T	rs3738330		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:161695837C>T	uc001gbh.2	+	6	768	c.534C>T	c.(532-534)AGC>AGT	p.S178S	FCRLB_uc009wus.2_Silent_p.S178S|FCRLB_uc001gbj.2_Silent_p.S178S|FCRLB_uc001gbk.2_Silent_p.S178S|FCRLB_uc001gbl.2_Silent_p.S171S|FCRLB_uc001gbm.2_Silent_p.S171S|FCRLB_uc001gbi.2_Silent_p.S178S|FCRLB_uc001gbn.3_5'UTR	NM_001002901	NP_001002901	Q6BAA4	FCRLB_HUMAN	Fc receptor-like B	178	Ig-like C2-type 2.					endoplasmic reticulum					0	all_hematologic(112;0.0359)		BRCA - Breast invasive adenocarcinoma(70;0.00634)			CGGTGGAGAGCGCGCCCATGT	0.627000											OREG0013944	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	34					0	0	0.004007	0	0	
HSD17B7	51478	broad.mit.edu	37	1	162769680	162769680	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:162769680G>A	uc001gci.2	+	5	690	c.595G>A	c.(595-597)GCC>ACC	p.A199T	HSD17B7_uc009wuv.2_RNA	NM_016371	NP_057455	P56937	DHB7_HUMAN	hydroxysteroid (17-beta) dehydrogenase 7	199	Extracellular (Potential).				cholesterol biosynthetic process	endoplasmic reticulum membrane|integral to membrane|plasma membrane	3-keto sterol reductase activity|estradiol 17-beta-dehydrogenase activity			ovary(1)	1	all_hematologic(112;0.115)				NADH(DB00157)	TTCCAAATATGCCACTGACCT	0.483000													10	26					0	0	0.008291	0	0	
RXRG	6258	broad.mit.edu	37	1	165386448	165386448	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:165386448T>C	uc001gda.2	-	4	752	c.452A>G	c.(451-453)TAC>TGC	p.Y151C		NM_006917	NP_008848	P48443	RXRG_HUMAN	retinoid X receptor, gamma isoform a	151	NR C4-type.|Nuclear receptor.				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	retinoid-X receptor activity|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding				0	all_hematologic(923;0.0773)|Acute lymphoblastic leukemia(8;0.155)				Acitretin(DB00459)|Adapalene(DB00210)|Alitretinoin(DB00523)|Etretinate(DB00926)|Tretinoin(DB00755)	GTATACCCCGTAGTGCTTTCC	0.428000													39	96					0	0	0.011902	0	0	
SLC19A2	10560	broad.mit.edu	37	1	169446496	169446496	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:169446496C>T	uc001gge.3	-	2	908	c.704G>A	c.(703-705)GGT>GAT	p.G235D	SLC19A2_uc001ggf.3_Intron	NM_006996	NP_008927	O60779	S19A2_HUMAN	solute carrier family 19, member 2	235	Cytoplasmic (Potential).				thiamine-containing compound metabolic process	integral to membrane|plasma membrane	folic acid binding|folic acid transporter activity|reduced folate carrier activity|thiamine uptake transmembrane transporter activity				0	all_hematologic(923;0.208)					AACAATGCCACCATTTTGTAC	0.488000													4	112					0	0	0.009096	0	0	
MYOC	4653	broad.mit.edu	37	1	171605701	171605701	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:171605701C>T	uc001ghu.2	-	3	901	c.879G>A	c.(877-879)ACG>ACA	p.T293T	MYOC_uc010pmk.1_Silent_p.T235T	NM_000261	NP_000252	Q99972	MYOC_HUMAN	myocilin precursor	293	Olfactomedin-like.		T -> K (in GLC1A).		anatomical structure morphogenesis	cilium|extracellular space|rough endoplasmic reticulum	structural molecule activity			lung(1)	1	all_cancers(6;5.47e-10)|all_hematologic(923;0.088)|Acute lymphoblastic leukemia(37;0.181)					GGCGGACATCCGTGCCAACTG	0.537000													8	80					0	0	0.004482	0	0	
IVNS1ABP	10625	broad.mit.edu	37	1	185267231	185267231	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:185267231G>A	uc001grl.2	-	15	2488	c.1865C>T	c.(1864-1866)ACG>ATG	p.T622M	IVNS1ABP_uc001gri.2_Missense_Mutation_p.T282M|IVNS1ABP_uc001grj.2_Missense_Mutation_p.T282M|IVNS1ABP_uc009wyj.2_Missense_Mutation_p.T404M|IVNS1ABP_uc009wyk.2_RNA	NM_006469	NP_006460	Q9Y6Y0	NS1BP_HUMAN	influenza virus NS1A binding protein	622	Kelch 6.				interspecies interaction between organisms|response to virus|RNA splicing|transcription from RNA polymerase III promoter	cytoplasm|cytoskeleton|spliceosomal complex|transcription factor complex				ovary(4)|central_nervous_system(1)	5						GACTTCCACCGTATTCAGAAA	0.408000													46	143					0	0	0.014410	0	0	
HMCN1	83872	broad.mit.edu	37	1	185892699	185892699	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:185892699C>A	uc001grq.1	+	8	1428	c.1199C>A	c.(1198-1200)GCT>GAT	p.A400D		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	400					response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						CCAAATGAAGCTTTCTTTCTC	0.358000													4	79					0.00116845	0.001218	0.001168	1	0	
PRG4	10216	broad.mit.edu	37	1	186275472	186275472	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:186275472A>T	uc001gru.3	+	7	672	c.621A>T	c.(619-621)AGA>AGT	p.R207S	PRG4_uc001grt.3_Missense_Mutation_p.R166S|PRG4_uc009wyl.2_Missense_Mutation_p.R114S|PRG4_uc009wym.2_Missense_Mutation_p.R73S|PRG4_uc010poo.1_RNA	NM_005807	NP_005798	Q92954	PRG4_HUMAN	proteoglycan 4 isoform A	207					cell proliferation|immune response	extracellular region	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						AGAAGAACAGAACTAAAAAGA	0.323000													5	137					0	0	0.001168	0	0	
RGS18	64407	broad.mit.edu	37	1	192128397	192128397	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:192128397A>T	uc001gsg.2	+	2	343	c.167A>T	c.(166-168)GAG>GTG	p.E56V		NM_130782	NP_570138	Q9NS28	RGS18_HUMAN	regulator of G-protein signalling 18	56					negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity			ovary(3)	3						CAGAAACCTGAGTTTCATGAA	0.373000													11	41					0	0	0.010729	0	0	
KIF21B	23046	broad.mit.edu	37	1	200973959	200973959	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:200973959G>A	uc001gvs.1	-	6	1152	c.835C>T	c.(835-837)CGG>TGG	p.R279W	KIF21B_uc001gvr.1_Missense_Mutation_p.R279W|KIF21B_uc009wzl.1_Missense_Mutation_p.R279W|KIF21B_uc010ppn.1_Missense_Mutation_p.R279W|KIF21B_uc001gvt.1_Missense_Mutation_p.R62W	NM_017596	NP_060066	O75037	KI21B_HUMAN	kinesin family member 21B	279	Kinesin-motor.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)|skin(3)	6						CGCTTCAGCCGCTCTGAGCCG	0.602000													15	36					0	0	0.004990	0	0	
CACNA1S	779	broad.mit.edu	37	1	201058527	201058527	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:201058527C>T	uc001gvv.2	-	6	986	c.759G>A	c.(757-759)CGG>CGA	p.R253R		NM_000069	NP_000060	Q13698	CAC1S_HUMAN	calcium channel, voltage-dependent, L type,	253	Extracellular (Potential).|I.				axon guidance	I band|T-tubule|voltage-gated calcium channel complex	high voltage-gated calcium channel activity			ovary(3)|central_nervous_system(1)|skin(1)	5					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	TGATGGTGCACCGGCGCCCTG	0.622000													8	28					0	0	0.003080	0	0	
DSTYK	25778	broad.mit.edu	37	1	205117339	205117339	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:205117339G>A	uc001hbw.2	-	12	2660	c.2596C>T	c.(2596-2598)CGG>TGG	p.R866W	DSTYK_uc001hbx.2_Intron	NM_015375	NP_056190	Q6XUX3	DUSTY_HUMAN	receptor interacting protein kinase 5 isoform 1	866	Protein kinase.					cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(1)	1						TTACCCCTCCGCACATTGTTC	0.532000													29	80					0	0	0.012213	0	0	
C4BPB	725	broad.mit.edu	37	1	207269950	207269950	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:207269950T>C	uc001hfj.2	+	5	623	c.493T>C	c.(493-495)TGT>CGT	p.C165R	C4BPB_uc001hfi.2_Missense_Mutation_p.C164R|C4BPB_uc001hfk.2_Missense_Mutation_p.C164R|C4BPB_uc001hfl.2_Missense_Mutation_p.C165R|C4BPB_uc009xcd.2_Missense_Mutation_p.C216R|C4BPB_uc001hfm.2_Missense_Mutation_p.C165R	NM_001017365	NP_001017365	P20851	C4BPB_HUMAN	complement component 4 binding protein, beta	165	Sushi 3.				blood coagulation|complement activation, classical pathway|innate immune response	extracellular region				ovary(1)	1						TAGTTATTACTGTGAAGACAG	0.463000													12	46					0	0	0.013537	0	0	
RD3	343035	broad.mit.edu	37	1	211652526	211652526	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:211652526C>T	uc001him.2	-	3	1604	c.440G>A	c.(439-441)CGC>CAC	p.R147H	RD3_uc001hin.2_RNA|RD3_uc009xda.2_RNA	NM_183059	NP_898882	Q7Z3Z2	RD3_HUMAN	retinal degeneration 3	147					response to stimulus|visual perception					ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.00284)|all cancers(67;0.0279)|Epithelial(68;0.0689)		CAGGCTGCCGCGGGGCCGCAG	0.687000													5	22					0	0	0.001168	0	0	
SLC30A1	7779	broad.mit.edu	37	1	211748999	211748999	+	Missense_Mutation	SNP	G	A	A	rs148119372		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:211748999G>A	uc001hio.1	-	2	1400	c.1255C>T	c.(1255-1257)CCT>TCT	p.P419S		NM_021194	NP_067017	Q9Y6M5	ZNT1_HUMAN	solute carrier family 30 (zinc transporter),	419	Cytoplasmic (Potential).				cadmium ion transmembrane transport|cellular calcium ion homeostasis|cellular zinc ion homeostasis|negative regulation of calcium ion import|negative regulation of neurotransmitter secretion|negative regulation of zinc ion import	integral to membrane|T-tubule	calcium channel inhibitor activity|zinc ion transmembrane transporter activity			ovary(3)|central_nervous_system(1)	4				OV - Ovarian serous cystadenocarcinoma(81;0.00535)|GBM - Glioblastoma multiforme(131;0.051)|all cancers(67;0.0604)|Epithelial(68;0.0978)		GCAAATTCAGGCTGAATGGTA	0.423000													27	85					0	0	0.006320	0	0	
HLX	3142	broad.mit.edu	37	1	221053526	221053526	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:221053526G>A	uc001hmv.3	+	1	784	c.327G>A	c.(325-327)CCG>CCA	p.P109P		NM_021958	NP_068777	Q14774	HLX_HUMAN	H2.0-like homeobox	109	Pro-rich.				cell differentiation	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2				GBM - Glioblastoma multiforme(131;0.00914)		CTGGCTTCCCGCAGCGGCTGT	0.572000													10	44					0	0	0.006214	0	0	
DISP1	84976	broad.mit.edu	37	1	223177225	223177225	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:223177225A>G	uc001hnu.1	+	8	2633	c.2486A>G	c.(2485-2487)CAC>CGC	p.H829R		NM_032890	NP_116279	Q96F81	DISP1_HUMAN	dispatched A	829					diaphragm development|protein homotrimerization|regulation of protein secretion|smoothened signaling pathway	basolateral plasma membrane|integral to membrane	hedgehog receptor activity|peptide transporter activity				0				GBM - Glioblastoma multiforme(131;0.102)		TGGATTTTGCACTTCTGTCAA	0.433000													24	65					0	0	0.003954	0	0	
TLR5	7100	broad.mit.edu	37	1	223286273	223286273	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:223286273C>T	uc001hnv.1	-	4	547	c.101G>A	c.(100-102)CGT>CAT	p.R34H	TLR5_uc001hnw.1_Missense_Mutation_p.R34H	NM_003268	NP_003259	O60602	TLR5_HUMAN	toll-like receptor 5 precursor	34	Extracellular (Potential).				cellular response to mechanical stimulus|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of interleukin-8 production|positive regulation of toll-like receptor signaling pathway	integral to membrane|plasma membrane	interleukin-1 receptor binding|transmembrane receptor activity			ovary(2)|lung(1)|skin(1)	4				GBM - Glioblastoma multiforme(131;0.0851)		GTTGCAGAAACGATAAAAGGC	0.542000													9	58					0	0	0.006214	0	0	
OBSCN	84033	broad.mit.edu	37	1	228475418	228475418	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:228475418G>A	uc009xez.1	+	36	9612	c.9568G>A	c.(9568-9570)GCC>ACC	p.A3190T	OBSCN_uc001hsn.2_Missense_Mutation_p.A3190T|OBSCN_uc001hsq.1_Missense_Mutation_p.A446T	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	3190	Ig-like 32.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				GTTCCAGGAGGCCCTGAAGGA	0.637000													14	47					0	0	0.002450	0	0	
OBSCN	84033	broad.mit.edu	37	1	228554800	228554800	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:228554800G>A	uc009xez.1	+	86	19596	c.19552G>A	c.(19552-19554)GCG>ACG	p.A6518T	OBSCN_uc001hsr.1_Missense_Mutation_p.A1147T	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	6518	Protein kinase 1.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				CATCCTGGCCGCGCTGAGCCA	0.612000													5	19					0	0	0.000602	0	0	
EXOC8	149371	broad.mit.edu	37	1	231471552	231471552	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:231471552A>G	uc001huq.2	-	1	2027	c.1940T>C	c.(1939-1941)CTG>CCG	p.L647P		NM_175876	NP_787072	Q8IYI6	EXOC8_HUMAN	exocyst complex 84-kDa subunit	647					exocytosis|protein transport	growth cone|nucleus	protein binding			skin(1)	1	Breast(184;0.0871)	all_cancers(173;0.151)|Prostate(94;0.183)				GATTTCCACCAGGCTCTCCAA	0.453000													12	134					0	0	0.010729	0	0	
NID1	4811	broad.mit.edu	37	1	236228195	236228195	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:236228195G>A	uc001hxo.2	-	1	287	c.185C>T	c.(184-186)GCG>GTG	p.A62V	NID1_uc009xgd.2_Missense_Mutation_p.A62V|uc001hxp.1_Silent_p.A112A	NM_002508	NP_002499	P14543	NID1_HUMAN	nidogen 1 precursor	62					cell-matrix adhesion	basement membrane	calcium ion binding			large_intestine(1)|pancreas(1)	2	Ovarian(103;0.0544)|Breast(184;0.23)	all_cancers(173;0.00491)|Prostate(94;0.184)|Acute lymphoblastic leukemia(190;0.229)	OV - Ovarian serous cystadenocarcinoma(106;0.00162)		Becaplermin(DB00102)|Urokinase(DB00013)	GAAGCGGAGCGCCCCACTCAG	0.597000													3	31					0	0	0.004672	0	0	
ZP4	57829	broad.mit.edu	37	1	238048859	238048859	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:238048859T>C	uc001hym.2	-	8	992	c.992A>G	c.(991-993)TAC>TGC	p.Y331C	LOC100130331_uc010pyc.1_Intron	NM_021186	NP_067009	Q12836	ZP4_HUMAN	zona pellucida glycoprotein 4 preproprotein	331	ZP.|Extracellular (Potential).				acrosomal vesicle exocytosis|negative regulation of binding of sperm to zona pellucida|positive regulation of acrosome reaction|positive regulation of humoral immune response|positive regulation of protein kinase activity|positive regulation of T cell proliferation|protein kinase A signaling cascade|protein kinase C signaling cascade	integral to membrane|intracellular|plasma membrane|proteinaceous extracellular matrix	acrosin binding|receptor activity			ovary(2)|skin(1)	3	Ovarian(103;0.103)	all_cancers(173;0.00175)|all_epithelial(177;0.162)|all_neural(198;0.164)|Melanoma(53;0.211)|Prostate(94;0.214)	OV - Ovarian serous cystadenocarcinoma(106;0.00989)			ACCAACACCGTAGTAAGAGCC	0.483000													4	48					0	0	0.009096	0	0	
KIF26B	55083	broad.mit.edu	37	1	245704075	245704075	+	Silent	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:245704075C>A	uc001ibf.1	+	5	1613	c.1173C>A	c.(1171-1173)GCC>GCA	p.A391A	KIF26B_uc010pyq.1_Silent_p.A391A|KIF26B_uc001ibg.1_Silent_p.A9A	NM_018012	NP_060482	Q2KJY2	KI26B_HUMAN	kinesin family member 26B	391					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)	3	all_cancers(71;3.86e-05)|all_epithelial(71;0.000121)|Ovarian(71;0.0412)|all_lung(81;0.0498)|Lung NSC(105;0.0708)|Breast(184;0.127)		OV - Ovarian serous cystadenocarcinoma(106;0.022)			CCAGAGCTGCCCAGAAGTTAA	0.453000													30	139					1.39806e-14	1.59982e-14	0.008361	1	0	
OR2M3	127062	broad.mit.edu	37	1	248367276	248367276	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr1:248367276A>G	uc010pzg.1	+	1	907	c.907A>G	c.(907-909)AAG>GAG	p.K303E		NM_001004689	NP_001004689	Q8NG83	OR2M3_HUMAN	olfactory receptor, family 2, subfamily M,	303	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			AGCATTCATGAAGATCTTAGG	0.423000													4	140					0	0	0.000602	0	0	
ZMYND11	10771	broad.mit.edu	37	10	255850	255850	+	Silent	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:255850T>C	uc010pzt.1	+	3	566	c.138T>C	c.(136-138)GGT>GGC	p.G46G	ZMYND11_uc001ifk.2_Silent_p.G46G|ZMYND11_uc010pzu.1_Silent_p.G46G|ZMYND11_uc010pzv.1_Silent_p.G46G|ZMYND11_uc010pzw.1_Silent_p.G46G|ZMYND11_uc001ifm.2_Silent_p.G46G|ZMYND11_uc010pzx.1_Silent_p.G46G|ZMYND11_uc001ifn.2_Silent_p.G46G|ZMYND11_uc009xhg.2_Silent_p.G29G|ZMYND11_uc009xhh.2_5'UTR|ZMYND11_uc010pzy.1_5'UTR	NM_006624	NP_006615	Q15326	ZMY11_HUMAN	zinc finger, MYND domain containing 11 isoform	6					cell cycle|cell proliferation|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(4;1.32e-05)|all_lung(4;3.67e-05)|Lung NSC(4;0.000301)|all_epithelial(10;0.000416)|Colorectal(49;0.14)	OV - Ovarian serous cystadenocarcinoma(33;0.132)	Epithelial(11;0.00289)|all cancers(11;0.0108)|Lung(33;0.0689)|OV - Ovarian serous cystadenocarcinoma(14;0.106)		GAGTCCACGGTATGCACCCTA	0.393000													20	82					0	0	0.014323	0	0	
DIP2C	22982	broad.mit.edu	37	10	486873	486873	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:486873G>T	uc001ifp.2	-	4	422	c.332C>A	c.(331-333)CCT>CAT	p.P111H	DIP2C_uc009xhk.1_Missense_Mutation_p.L113I	NM_014974	NP_055789	Q9Y2E4	DIP2C_HUMAN	DIP2 disco-interacting protein 2 homolog C	111						nucleus	catalytic activity|transcription factor binding			breast(4)|ovary(2)|large_intestine(1)	7		all_cancers(4;0.00336)|all_lung(4;0.00732)|Lung NSC(4;0.00785)|all_epithelial(10;0.0159)|Colorectal(49;0.235)	OV - Ovarian serous cystadenocarcinoma(33;0.136)	Epithelial(11;0.0123)|all cancers(11;0.0467)|Lung(33;0.0864)|OV - Ovarian serous cystadenocarcinoma(14;0.106)		GGAAGGCATAGGCACTGCCAT	0.602000													11	37					0.00829132	0.00853436	0.008291	1	0	
ITIH2	3698	broad.mit.edu	37	10	7788613	7788613	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:7788613C>A	uc001ijs.2	+	20	2801	c.2639C>A	c.(2638-2640)CCT>CAT	p.P880H		NM_002216	NP_002207	P19823	ITIH2_HUMAN	inter-alpha globulin inhibitor H2 polypeptide	880					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(1)|pancreas(1)|skin(1)	3						GGAAAGGACCCTGAGAAGCCA	0.483000													5	26					0.000602214	0.000629355	0.000602	1	0	
USP6NL	9712	broad.mit.edu	37	10	11505504	11505504	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:11505504C>T	uc001ikt.3	-	15	1744	c.1423G>A	c.(1423-1425)GCC>ACC	p.A475T	USP6NL_uc001iks.1_Missense_Mutation_p.A492T	NM_014688	NP_055503	Q92738	US6NL_HUMAN	USP6 N-terminal like isoform 1	475						intracellular	Rab GTPase activator activity				0						TTTGAAGTGGCGTTGCTATTT	0.453000													46	246					0	0	0.014410	0	0	
ST8SIA6	338596	broad.mit.edu	37	10	17363280	17363280	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:17363280A>C	uc001ipd.2	-	8	794	c.794T>G	c.(793-795)TTT>TGT	p.F265C	ST8SIA6_uc010qce.1_RNA	NM_001004470	NP_001004470	P61647	SIA8F_HUMAN	ST8 alpha-N-acetyl-neuraminide	265	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			ovary(1)	1						CAGAAGAAAAAATGCATCTCC	0.378000													18	71					0	0	0.010504	0	0	
PLXDC2	84898	broad.mit.edu	37	10	20432315	20432315	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:20432315C>T	uc001iqg.1	+	5	1270	c.633C>T	c.(631-633)TCC>TCT	p.S211S	PLXDC2_uc001iqh.1_Silent_p.S162S|PLXDC2_uc009xkc.1_RNA	NM_032812	NP_116201	Q6UX71	PXDC2_HUMAN	plexin domain containing 2 precursor	211	Extracellular (Potential).					integral to membrane				ovary(2)|central_nervous_system(1)|skin(1)	4						CCAGTGTATCCAGAAATTCAA	0.353000													24	70					0	0	0.005443	0	0	
NEBL	10529	broad.mit.edu	37	10	21097514	21097514	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:21097514C>A	uc001iqi.2	-	26	3083	c.2686G>T	c.(2686-2688)GAC>TAC	p.D896Y	NEBL_uc001iqj.2_RNA|NEBL_uc001iqk.2_Intron	NM_006393	NP_006384	O76041	NEBL_HUMAN	nebulette sarcomeric isoform	896	Linker.				regulation of actin filament length		actin binding|structural constituent of muscle			ovary(2)	2						TCTGACCTGTCGTCTCCGAGA	0.453000													25	88					4.26978e-12	4.832e-12	0.003330	1	0	
NEBL	10529	broad.mit.edu	37	10	21139364	21139364	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:21139364G>A	uc001iqi.2	-	11	1473	c.1076C>T	c.(1075-1077)TCA>TTA	p.S359L	NEBL_uc001iqj.2_RNA|NEBL_uc001iqk.2_Intron	NM_006393	NP_006384	O76041	NEBL_HUMAN	nebulette sarcomeric isoform	359	Nebulin 10.				regulation of actin filament length		actin binding|structural constituent of muscle			ovary(2)	2						AGCTTGATATGATGGTGTCTC	0.303000													29	96					0	0	0.012213	0	0	
NEBL	10529	broad.mit.edu	37	10	21177122	21177122	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:21177122G>A	uc001iqi.2	-	4	670	c.273C>T	c.(271-273)GGC>GGT	p.G91G	NEBL_uc001iqj.2_RNA|NEBL_uc001iqk.2_Intron	NM_006393	NP_006384	O76041	NEBL_HUMAN	nebulette sarcomeric isoform	91	Nebulin 2.				regulation of actin filament length		actin binding|structural constituent of muscle			ovary(2)	2						CTTTAATGGTGCCTTTGTATT	0.343000													8	33					0	0	0.003080	0	0	
C10orf140	387640	broad.mit.edu	37	10	21805337	21805337	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:21805337C>T	uc009xkd.2	-	4	3668	c.1415G>A	c.(1414-1416)TGC>TAC	p.C472Y	uc001iqp.1_RNA	NM_207371	NP_997254	Q1XH10	DLN1_HUMAN	hypothetical protein LOC387640	391						nucleus	nucleotide binding			ovary(1)	1						GGGAGGCTTGCAGAAGCTGGT	0.637000													17	49					0	0	0.006122	0	0	
GAD2	2572	broad.mit.edu	37	10	26506598	26506598	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:26506598G>A	uc001isp.2	+	2	639	c.136G>A	c.(136-138)GCC>ACC	p.A46T	GAD2_uc009xkr.2_Missense_Mutation_p.A46T|GAD2_uc001isq.2_Missense_Mutation_p.A46T	NM_001134366	NP_001127838	Q05329	DCE2_HUMAN	glutamate decarboxylase 2	46					glutamate decarboxylation to succinate|neurotransmitter biosynthetic process|neurotransmitter secretion	cell junction|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|cytosol|Golgi membrane|presynaptic membrane	glutamate decarboxylase activity|protein binding|pyridoxal phosphate binding			central_nervous_system(1)|skin(1)	2					L-Glutamic Acid(DB00142)	CAAACTGTGCGGTGAGTGCCC	0.642000													9	16					0	0	0.004482	0	0	
ZNF33A	7581	broad.mit.edu	37	10	38299639	38299639	+	Translation_Start_Site	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:38299639G>A	uc001izh.2	+	1	62	c.-116G>A	c.(-118--114)GCGTG>GCATG		ZNF33A_uc001izg.2_Translation_Start_Site|ZNF33A_uc010qev.1_Translation_Start_Site|ZNF33A_uc001izi.1_Translation_Start_Site	NM_006974	NP_008905	Q06730	ZN33A_HUMAN	zinc finger protein 33A isoform b							nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(1)	3						CAGGTTTTGCGTGGGAGGCGG	0.607000													9	53					0	0	0.004482	0	0	
ZNF32	7580	broad.mit.edu	37	10	44139888	44139888	+	Silent	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:44139888T>C	uc001jbb.2	-	3	621	c.432A>G	c.(430-432)CAA>CAG	p.Q144Q	uc001jba.2_Intron|ZNF32_uc001jbc.2_Silent_p.Q144Q	NM_001005368	NP_001005368	P17041	ZNF32_HUMAN	zinc finger protein 32	144	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)	1		all_neural(218;0.0182)|Ovarian(717;0.0443)|Renal(717;0.157)		Lung(62;0.179)		GACTACCTCGTTGACTGAAGC	0.488000													3	68					0	0	0.009096	0	0	
GDF10	2662	broad.mit.edu	37	10	48429293	48429293	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:48429293C>T	uc001jfb.2	-	2	1049	c.593G>A	c.(592-594)CGC>CAC	p.R198H	GDF10_uc009xnp.2_Missense_Mutation_p.R197H|GDF10_uc009xnq.1_Missense_Mutation_p.R198H	NM_004962	NP_004953	P55107	BMP3B_HUMAN	growth differentiation factor 10 precursor	198					growth|skeletal system development|transforming growth factor beta receptor signaling pathway	extracellular space	cytokine activity|growth factor activity			lung(1)|central_nervous_system(1)	2						CCACAGGCCGCGCGGTGGGGG	0.721000													7	28					0	0	0.004482	0	0	
NCOA4	8031	broad.mit.edu	37	10	51579211	51579211	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:51579211C>T	uc001jis.3	+	2	273	c.70C>T	c.(70-72)CGG>TGG	p.R24W	PARG_uc001jih.2_Intron|uc010qha.1_Intron|uc001jin.2_Intron|uc010qhb.1_Intron|uc010qhc.1_Intron|NCOA4_uc009xon.2_Missense_Mutation_p.R40W|NCOA4_uc010qhd.1_Missense_Mutation_p.R40W|NCOA4_uc010qhe.1_Intron|NCOA4_uc010qhf.1_Intron|NCOA4_uc001jit.2_Missense_Mutation_p.R24W|NCOA4_uc009xoo.2_Missense_Mutation_p.R24W	NM_001145263	NP_001138735	Q13772	NCOA4_HUMAN	nuclear receptor coactivator 4 isoform 3	24					androgen receptor signaling pathway|male gonad development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	androgen receptor binding|transcription coactivator activity			central_nervous_system(1)|kidney(1)	2						TAGTGATGCACGGAGGGACTT	0.448000			T	RET	papillary thyroid 								35	104					0	0	0.013726	0	0	
FAM13C	220965	broad.mit.edu	37	10	61022345	61022345	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:61022345A>C	uc001jkn.2	-	11	1219	c.1085T>G	c.(1084-1086)CTG>CGG	p.L362R	FAM13C_uc001jko.2_Intron|FAM13C_uc010qid.1_Missense_Mutation_p.L279R|FAM13C_uc010qie.1_Missense_Mutation_p.L279R|FAM13C_uc010qif.1_Missense_Mutation_p.L384R|FAM13C_uc001jkp.2_Missense_Mutation_p.L279R	NM_198215	NP_937858	Q8NE31	FA13C_HUMAN	hypothetical protein LOC220965 isoform 1	362										ovary(2)	2						CTCACACAACAGGTTTCTAGG	0.502000													21	60					0	0	0.014323	0	0	
SLC16A9	220963	broad.mit.edu	37	10	61414261	61414261	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:61414261C>T	uc010qig.1	-	5	972	c.523G>A	c.(523-525)GGT>AGT	p.G175S		NM_194298	NP_919274	Q7RTY1	MOT9_HUMAN	solute carrier family 16 (monocarboxylic acid	175	Helical; (Potential).				urate metabolic process	integral to membrane|plasma membrane	symporter activity			skin(2)|ovary(1)	3						GCTAAAGCACCCACAATCAGC	0.438000													19	98					0	0	0.008871	0	0	
ANK3	288	broad.mit.edu	37	10	61843307	61843307	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:61843307C>T	uc001jky.2	-	33	4335	c.4143G>A	c.(4141-4143)CAG>CAA	p.Q1381Q	ANK3_uc001jkw.2_Silent_p.Q515Q|ANK3_uc009xpa.2_Silent_p.Q515Q|ANK3_uc001jkx.2_Silent_p.Q559Q|ANK3_uc010qih.1_Silent_p.Q1382Q|ANK3_uc001jkz.3_Silent_p.Q1375Q|ANK3_uc001jla.1_Silent_p.Q447Q|ANK3_uc001jkv.2_5'Flank|ANK3_uc009xpb.1_5'Flank|ANK3_uc009xpc.1_5'Flank	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	1381					establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						AAACAAGTTGCTGTCCTCCTT	0.313000													14	47					0	0	0.001855	0	0	
ZNF365	22891	broad.mit.edu	37	10	64425917	64425917	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:64425917A>C	uc001jmd.1	+	6	845	c.511A>C	c.(511-513)AAT>CAT	p.N171H	ZNF365_uc001jmc.2_Missense_Mutation_p.N417H|ZNF365_uc001jme.1_RNA|ZNF365_uc001jmf.1_RNA|ZNF365_uc009xpg.1_Intron	NM_199452	NP_955524	Q70YC4	TALAN_HUMAN	zinc finger protein 365 isoform D	171										ovary(1)|skin(1)	2	Prostate(12;0.0297)|all_hematologic(501;0.228)					TCAAAGCAGGAATATCAGCCT	0.388000													3	35					0	0	0.001168	0	0	
TET1	80312	broad.mit.edu	37	10	70446170	70446170	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:70446170C>T	uc001jok.3	+	11	5615	c.5110C>T	c.(5110-5112)CAG>TAG	p.Q1704*		NM_030625	NP_085128	Q8NFU7	TET1_HUMAN	CXXC finger 6	1704					DNA demethylation|inner cell mass cell differentiation|negative regulation of methylation-dependent chromatin silencing|stem cell maintenance		iron ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|structure-specific DNA binding|zinc ion binding			ovary(5)|lung(2)|prostate(1)|breast(1)	9						TCAAGATGAGCAGCTCCATGT	0.453000													16	103					0	0	0.003163	0	0	
HK1	3098	broad.mit.edu	37	10	71129308	71129308	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:71129308G>A	uc001jpl.3	+	7	904	c.803G>A	c.(802-804)GGA>GAA	p.G268E	HK1_uc001jpg.3_Missense_Mutation_p.G256E|HK1_uc001jph.3_Missense_Mutation_p.G272E|HK1_uc001jpi.3_Missense_Mutation_p.G272E|HK1_uc001jpj.3_Missense_Mutation_p.G303E|HK1_uc001jpk.3_Missense_Mutation_p.G267E|HK1_uc009xqd.2_Missense_Mutation_p.G146E	NM_000188	NP_000179	P19367	HXK1_HUMAN	hexokinase 1 isoform HKI	268	Regulatory.				glucose transport|glycolysis|transmembrane transport	cytosol|mitochondrial outer membrane|nucleus	ATP binding|glucokinase activity			ovary(1)	1						GGAGACGATGGATCATTAGAA	0.493000													6	69					0	0	0.001168	0	0	
NEUROG3	50674	broad.mit.edu	37	10	71332527	71332527	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:71332527G>A	uc001jpp.2	-	2	431	c.273C>T	c.(271-273)CGC>CGT	p.R91R		NM_020999	NP_066279	Q9Y4Z2	NGN3_HUMAN	neurogenin 3	91	Basic motif.				central nervous system development|endocrine pancreas development|peripheral nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity	nucleus	transcription coactivator activity				0						GATTGCGCTCGCGGTCGTTGG	0.662000													5	42					0	0	0.000602	0	0	
SEC24C	9632	broad.mit.edu	37	10	75529233	75529233	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:75529233G>T	uc001juw.2	+	19	2732	c.2553G>T	c.(2551-2553)ATG>ATT	p.M851I	SEC24C_uc009xrj.1_3'UTR|SEC24C_uc001jux.2_Missense_Mutation_p.M851I|SEC24C_uc010qko.1_Missense_Mutation_p.M732I|SEC24C_uc010qkp.1_Missense_Mutation_p.M99I|SEC24C_uc010qkq.1_Missense_Mutation_p.M99I|FUT11_uc001juy.1_5'Flank|FUT11_uc001juz.1_5'Flank|FUT11_uc001jva.2_5'Flank	NM_004922	NP_004913	P53992	SC24C_HUMAN	SEC24-related protein C	851					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	protein binding|zinc ion binding			skin(2)|central_nervous_system(1)	3	Prostate(51;0.0112)					TCAACTACATGGCCAAGTTTG	0.552000													8	56					5.4927e-09	6.09804e-09	0.004482	1	0	
MBL1P	8512	broad.mit.edu	37	10	81667509	81667509	+	RNA	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:81667509A>G	uc001kbf.2	+	3		c.447A>G								Homo sapiens mannose-binding protein-A pseudogene (MBL1P1) mRNA sequence.												0						GGTAGTGGTGACGGGGCCTCC	0.443000													16	72					0	0	0.004990	0	0	
ACTA2	59	broad.mit.edu	37	10	90708573	90708573	+	Missense_Mutation	SNP	G	A	A	rs112901682		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:90708573G>A	uc001kfp.2	-	2	231	c.115C>T	c.(115-117)CGT>TGT	p.R39C	STAMBPL1_uc010qmx.1_Intron|ACTA2_uc010qmy.1_Intron|ACTA2_uc001kfq.2_Missense_Mutation_p.R39C|ACTA2_uc010qmz.1_Missense_Mutation_p.R39C	NM_001613	NP_001604	P62736	ACTA_HUMAN	alpha 2 actin	39			R -> H (in AAT6).		response to virus	cytosol	ATP binding				0		Colorectal(252;0.0161)		Colorectal(12;0.000123)|COAD - Colon adenocarcinoma(12;0.00018)		TGTCTGGGACGTCCCACAATG	0.502000													17	136					0	0	0.006122	0	0	
IFIT1B	439996	broad.mit.edu	37	10	91143709	91143709	+	Silent	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:91143709T>C	uc001kgh.2	+	2	719	c.639T>C	c.(637-639)AAT>AAC	p.N213N	LIPA_uc001kgb.3_Intron|LIPA_uc001kgc.3_Intron	NM_001010987	NP_001010987	Q5T764	IFT1B_HUMAN	interferon-induced protein with	213	TPR 4.						binding				0						TCAGGCTAAATCCAGATGATG	0.448000													89	298					0	0	0.014410	0	0	
IDE	3416	broad.mit.edu	37	10	94294397	94294397	+	Silent	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:94294397A>G	uc001kia.2	-	3	505	c.429T>C	c.(427-429)AGT>AGC	p.S143S		NM_004969	NP_004960	P14735	IDE_HUMAN	insulin-degrading enzyme isoform 1 precursor	143					beta-amyloid metabolic process|bradykinin catabolic process|interspecies interaction between organisms|sex differentiation	cell surface|extracellular space|soluble fraction	ATP binding|metalloendopeptidase activity|protein homodimerization activity|signal transducer activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3					Bacitracin(DB00626)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	TATGCTCTCCACTAGTAAAGG	0.378000													23	87					0	0	0.003330	0	0	
PLCE1	51196	broad.mit.edu	37	10	96013971	96013971	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:96013971G>A	uc001kjk.2	+	10	3938	c.3304G>A	c.(3304-3306)GAT>AAT	p.D1102N	PLCE1_uc010qnx.1_Missense_Mutation_p.D1102N|PLCE1_uc001kjm.2_Missense_Mutation_p.D794N	NM_016341	NP_057425	Q9P212	PLCE1_HUMAN	phospholipase C, epsilon 1 isoform 1	1102					activation of MAPK activity|activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|calcium-mediated signaling|cell proliferation|cytoskeleton organization|diacylglycerol biosynthetic process|elevation of cytosolic calcium ion concentration|epidermal growth factor receptor signaling pathway|glomerulus development|heart development|lipid catabolic process|Ras protein signal transduction|regulation of cell growth|regulation of G-protein coupled receptor protein signaling pathway|regulation of Ras protein signal transduction|regulation of smooth muscle contraction	cytosol|Golgi membrane|membrane fraction|plasma membrane	calcium ion binding|guanyl-nucleotide exchange factor activity|phosphatidylinositol phospholipase C activity|Ras GTPase binding|receptor signaling protein activity			ovary(2)|skin(1)	3		Colorectal(252;0.0458)				GGTAACTGACGATGAGATGGC	0.478000													13	50					0	0	0.001855	0	0	
NOC3L	64318	broad.mit.edu	37	10	96116929	96116929	+	Splice_Site	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:96116929A>G	uc001kjq.1	-	4	596	c.508_splice	c.e4+1	p.V170_splice	NOC3L_uc009xuk.1_Splice_Site	NM_022451	NP_071896	Q8WTT2	NOC3L_HUMAN	nucleolar complex associated 3 homolog							nuclear speck|nucleolus	binding			ovary(1)	1		Colorectal(252;0.0897)				TATTAGACTCACCTGGCTTCT	0.338000													14	89					0	0	0.002450	0	0	
CUTC	51076	broad.mit.edu	37	10	101503026	101503026	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:101503026C>T	uc001kqd.3	+	4	458	c.310C>T	c.(310-312)CGT>TGT	p.R104C	CUTC_uc010qpk.1_Missense_Mutation_p.R104C|CUTC_uc001kqe.3_RNA	NM_015960	NP_057044	Q9NTM9	CUTC_HUMAN	cutC copper transporter homolog	104					copper ion homeostasis|copper ion transport|protein tetramerization	cytoplasm|nucleus	copper ion binding			breast(1)	1		Colorectal(252;0.234)		Epithelial(162;3e-10)|all cancers(201;2.37e-08)		GGCTGACATTCGTCTTGCCAA	0.443000													44	110					0	0	0.007835	0	0	
SFXN3	81855	broad.mit.edu	37	10	102798404	102798404	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:102798404G>A	uc001ksp.2	+	10	1244	c.788G>A	c.(787-789)CGC>CAC	p.R263H	SFXN3_uc001ksq.2_Missense_Mutation_p.R263H|SFXN3_uc010qpx.1_Missense_Mutation_p.R267H	NM_030971	NP_112233	Q9BWM7	SFXN3_HUMAN	sideroflexin 3	263					iron ion homeostasis	integral to membrane|mitochondrial membrane	cation transmembrane transporter activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;6.98e-09)|all cancers(201;3.55e-07)		CCACAGCGCCGCCCCTGGCTG	0.597000											OREG0020454	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	78					0	0	0.002450	0	0	
KAZALD1	81621	broad.mit.edu	37	10	102824653	102824653	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:102824653T>G	uc001ksr.2	+	5	1816	c.891T>G	c.(889-891)AGT>AGG	p.S297R	KAZALD1_uc001kss.3_RNA|uc001ksu.2_5'Flank	NM_030929	NP_112191	Q96I82	KAZD1_HUMAN	Kazal-type serine peptidase inhibitor domain 1	297					cell differentiation|multicellular organismal development|ossification|regulation of cell growth		insulin-like growth factor binding				0				Epithelial(162;6.21e-09)|all cancers(201;3.14e-07)		AGGCTGAGAGTGAAGAGAATG	0.532000													4	63					0	0	0.000602	0	0	
HPS6	79803	broad.mit.edu	37	10	103826834	103826834	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:103826834C>T	uc001kuj.2	+	1	1688	c.1603C>T	c.(1603-1605)CTG>TTG	p.L535L		NM_024747	NP_079023	Q86YV9	HPS6_HUMAN	Hermansky-Pudlak syndrome-6	535						cytosol|early endosome membrane|endoplasmic reticulum|microsome					0		Colorectal(252;0.122)		Epithelial(162;5.93e-08)|all cancers(201;1.03e-06)		GAATGGCAAGCTGAGGTCCCA	0.582000									Hermansky-Pudlak_syndrome				26	79					0	0	0.005443	0	0	
LDB1	8861	broad.mit.edu	37	10	103867975	103867975	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:103867975C>T	uc009xwz.2	-	11	1454	c.1111G>A	c.(1111-1113)GGC>AGC	p.G371S	LDB1_uc001kuk.3_Missense_Mutation_p.G335S	NM_001113407	NP_001106878	Q86U70	LDB1_HUMAN	LIM domain binding 1 isoform 1	371	LIM-binding domain (LID) (By similarity).				histone H3-K4 acetylation|negative regulation of erythrocyte differentiation|negative regulation of transcription, DNA-dependent|positive regulation of hemoglobin biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription elongation, DNA-dependent|transcription, DNA-dependent|transcription-dependent tethering of RNA polymerase II gene DNA at nuclear periphery	nuclear chromatin|protein complex	LIM domain binding|protein homodimerization activity|transcription corepressor activity			large_intestine(1)	1		Colorectal(252;0.122)		Epithelial(162;1.11e-07)|all cancers(201;1.82e-06)		TCGTCAATGCCGTTGGCTGCG	0.617000													8	121					0	0	0.003080	0	0	
LOC729020	729020	broad.mit.edu	37	10	105005846	105005846	+	Silent	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:105005846C>A	uc009xxi.2	+	1	203	c.93C>A	c.(91-93)GCC>GCA	p.A31A	uc001kwr.2_Intron	NM_001143909	NP_001137381	Q2QD12	Q2QD12_HUMAN	rcRPE protein	31					carbohydrate metabolic process		ribulose-phosphate 3-epimerase activity				0						ACTCTGGGGCCGATTATCTGC	0.557000													40	126					5.71845e-15	6.54984e-15	0.005524	1	0	
SORCS1	114815	broad.mit.edu	37	10	108924061	108924061	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:108924061C>T	uc001kym.2	-	1	232	c.224G>A	c.(223-225)CGT>CAT	p.R75H	SORCS1_uc001kyl.2_Missense_Mutation_p.R75H|SORCS1_uc009xxs.2_Missense_Mutation_p.R75H|SORCS1_uc001kyn.1_Missense_Mutation_p.R75H|SORCS1_uc001kyo.2_Missense_Mutation_p.R75H	NM_052918	NP_443150	Q8WY21	SORC1_HUMAN	SORCS receptor 1 isoform a	75	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)		GAACAGGGGACGCACTACGAG	0.736000													3	16					0	0	0.009096	0	0	
RAB11FIP2	22841	broad.mit.edu	37	10	119805671	119805671	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:119805671T>G	uc001ldj.1	-	1	444	c.4A>C	c.(4-6)ATG>CTG	p.M2L	RAB11FIP2_uc009xyz.1_Missense_Mutation_p.M2L|CASC2_uc001ldm.3_5'Flank|CASC2_uc009xzc.2_5'Flank|CASC2_uc001ldk.2_5'Flank|CASC2_uc009xza.2_5'Flank|CASC2_uc009xzb.2_5'Flank	NM_014904	NP_055719	Q7L804	RFIP2_HUMAN	RAB11 family interacting protein 2	2	C2.				protein transport	plasma membrane|recycling endosome membrane	protein homodimerization activity				0		Colorectal(252;0.235)		all cancers(201;0.0238)		TCGGACAGCATCATCCTGTCC	0.532000													13	149					0	0	0.003163	0	0	
FGFR2	2263	broad.mit.edu	37	10	123256201	123256201	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:123256201C>G	uc010qtk.1	-	14	2355	c.1708G>C	c.(1708-1710)GGC>CGC	p.G570R	FGFR2_uc010qtg.1_Missense_Mutation_p.G458R|FGFR2_uc010qth.1_Missense_Mutation_p.G455R|FGFR2_uc010qti.1_Missense_Mutation_p.G481R|FGFR2_uc010qtj.1_Missense_Mutation_p.G571R|FGFR2_uc010qtl.1_Missense_Mutation_p.G454R|FGFR2_uc010qtm.1_Missense_Mutation_p.G453R|FGFR2_uc001lfl.3_Missense_Mutation_p.G571R|FGFR2_uc001lfm.2_Missense_Mutation_p.G482R|FGFR2_uc001lfg.3_Missense_Mutation_p.G178R	NM_000141	NP_000132	P21802	FGFR2_HUMAN	fibroblast growth factor receptor 2 isoform 1	570	Cytoplasmic (Potential).|Protein kinase.				angiogenesis|axonogenesis|bone mineralization|bone morphogenesis|branch elongation involved in salivary gland morphogenesis|branching involved in embryonic placenta morphogenesis|branching morphogenesis of a nerve|bud elongation involved in lung branching|cell fate commitment|cell growth|cell-cell signaling|cellular response to protein stimulus|embryonic digestive tract morphogenesis|embryonic pattern specification|epithelial cell proliferation involved in salivary gland morphogenesis|fibroblast growth factor receptor signaling pathway involved in hemopoiesis|fibroblast growth factor receptor signaling pathway involved in mammary gland specification|fibroblast growth factor receptor signaling pathway involved in negative regulation of apoptosis in bone marrow|fibroblast growth factor receptor signaling pathway involved in orbitofrontal cortex development|fibroblast growth factor receptor signaling pathway involved in positive regulation of cell proliferation in bone marrow|hair follicle morphogenesis|insulin receptor signaling pathway|lacrimal gland development|lateral sprouting from an epithelium|limb bud formation|lung alveolus development|lung lobe morphogenesis|lung-associated mesenchyme development|mammary gland bud formation|membranous septum morphogenesis|mesenchymal cell differentiation involved in lung development|mesenchymal cell proliferation involved in lung development|midbrain development|multicellular organism growth|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|organ growth|otic vesicle formation|outflow tract septum morphogenesis|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of cell cycle|positive regulation of cell division|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of ERK1 and ERK2 cascade|positive regulation of mesenchymal cell proliferation|positive regulation of transcription from RNA polymerase II promoter|post-embryonic development|prostate epithelial cord arborization involved in prostate glandular acinus morphogenesis|prostate epithelial cord elongation|pyramidal neuron development|regulation of branching involved in prostate gland morphogenesis|regulation of cell fate commitment|regulation of fibroblast growth factor receptor signaling pathway|regulation of multicellular organism growth|regulation of smooth muscle cell differentiation|regulation of smoothened signaling pathway|squamous basal epithelial stem cell differentiation involved in prostate gland acinus development|ureteric bud development|ventricular cardiac muscle tissue morphogenesis|ventricular zone neuroblast division	cell cortex|cell surface|excitatory synapse|extracellular region|integral to membrane|nucleus|plasma membrane	ATP binding|fibroblast growth factor binding|fibroblast growth factor binding|fibroblast growth factor receptor activity|heparin binding|protein binding			endometrium(44)|skin(28)|lung(11)|ovary(4)|cervix(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|soft_tissue(1)|central_nervous_system(1)	96		Lung NSC(174;0.0841)|all_lung(145;0.106)|all_neural(114;0.107)	STAD - Stomach adenocarcinoma(1;7.52e-05)|all cancers(1;0.0722)	all cancers(201;9.73e-05)|GBM - Glioblastoma multiforme(135;0.0845)	Palifermin(DB00039)	CGGAGGTTGCCTTTAGAGGCA	0.522000		5	Mis		gastric. NSCLC|endometrial		Crouzon|Pfeiffer|and Apert syndromes		Apert_syndrome|Saethre-Chotzen_syndrome				22	133					0	0	0.012319	0	0	
NPS	594857	broad.mit.edu	37	10	129347763	129347763	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:129347763C>T	uc001ljx.1	+	2	39	c.19C>T	c.(19-21)CTC>TTC	p.L7F		NM_001030013	NP_001025184	P0C0P6	NPS_HUMAN	neuropeptide S precursor	7					neuropeptide signaling pathway	extracellular region					0						CTCAGTAAAACTCAATCTCAT	0.358000													19	76					0	0	0.012319	0	0	
JAKMIP3	282973	broad.mit.edu	37	10	133963530	133963530	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr10:133963530C>T	uc001lkx.3	+	15	1992	c.1992C>T	c.(1990-1992)GGC>GGT	p.G664G	JAKMIP3_uc009yba.1_Silent_p.G101G	NM_001105521	NP_001098991			Janus kinase and microtubule interacting protein											breast(1)	1		all_cancers(35;5.63e-09)|all_epithelial(44;9.25e-07)|Lung NSC(174;0.0108)|all_lung(145;0.0173)|Colorectal(31;0.0721)|all_neural(114;0.0726)|Breast(234;0.0949)|Glioma(114;0.172)|Melanoma(40;0.175)		OV - Ovarian serous cystadenocarcinoma(35;0.000104)|Epithelial(32;0.000142)|all cancers(32;0.000185)|BRCA - Breast invasive adenocarcinoma(275;0.224)		ACATCCTGGGCGATAACGCCG	0.587000													5	22					0	0	0.000602	0	0	
CDHR5	53841	broad.mit.edu	37	11	618634	618634	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:618634T>C	uc001lqj.2	-	13	2030	c.1925A>G	c.(1924-1926)CAG>CGG	p.Q642R	IRF7_uc010qwf.1_5'Flank|IRF7_uc001lqf.2_5'Flank|IRF7_uc010qwg.1_5'Flank|IRF7_uc001lqg.2_5'Flank|IRF7_uc001lqh.2_5'Flank|IRF7_uc001lqi.2_5'Flank|IRF7_uc010qwh.1_5'Flank|CDHR5_uc001lqk.2_Intron|CDHR5_uc009ycc.2_Missense_Mutation_p.Q476R|CDHR5_uc009ycd.2_Missense_Mutation_p.Q636R|CDHR5_uc001lql.2_Missense_Mutation_p.Q642R	NM_021924	NP_068743	Q9HBB8	CDHR5_HUMAN	mucin and cadherin-like isoform 1	642	4 X 31 AA approximate tandem repeats.|Extracellular (Potential).|4; truncated.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0						GGGCATCGGCTGAGAGGTTCC	0.622000													4	117					0	0	0.000602	0	0	
CTSD	1509	broad.mit.edu	37	11	1774897	1774897	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:1774897A>G	uc001luc.1	-	9	1208	c.1075T>C	c.(1075-1077)TCG>CCG	p.S359P	CTSD_uc009yda.1_RNA	NM_001909	NP_001900	P07339	CATD_HUMAN	cathepsin D preproprotein	359					cell death|proteolysis	extracellular space|lysosome|melanosome	aspartic-type endopeptidase activity				0		all_epithelial(84;0.00018)|Ovarian(85;0.0014)|Breast(177;0.00147)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00136)|Lung(200;0.0684)|LUSC - Lung squamous cell carcinoma(625;0.0822)	Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	CCGGCCTGCGACACCTGGGAC	0.711000													3	49					0	0	0.004672	0	0	
OR52I2	143502	broad.mit.edu	37	11	4608670	4608670	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:4608670G>A	uc010qyh.1	+	1	628	c.628G>A	c.(628-630)GAG>AAG	p.E210K		NM_001005170	NP_001005170	Q8NH67	O52I2_HUMAN	olfactory receptor, family 52, subfamily I,	210	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;8.45e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0285)|LUSC - Lung squamous cell carcinoma(625;0.19)		CTCCTACTGTGAGCACATAGC	0.517000													4	212					0	0	0.001984	0	0	
OR52I1	390037	broad.mit.edu	37	11	4615645	4615645	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:4615645G>A	uc010qyi.1	+	1	377	c.377G>A	c.(376-378)CGC>CAC	p.R126H		NM_001005169	NP_001005169	Q8NGK6	O52I1_HUMAN	olfactory receptor, family 52, subfamily I,	126	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)	2		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;7.98e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0284)|LUSC - Lung squamous cell carcinoma(625;0.19)		GCTTTTGACCGCTATGTAGCC	0.502000													6	40					0	0	0.004482	0	0	
OR51B6	390058	broad.mit.edu	37	11	5373205	5373205	+	Silent	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:5373205A>G	uc010qzb.1	+	1	468	c.468A>G	c.(466-468)CCA>CCG	p.P156P	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,	156	Helical; Name=4; (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)		CCATTATGCCAATAGTTGTTC	0.493000													9	98					0	0	0.008291	0	0	
OR51I2	390064	broad.mit.edu	37	11	5475541	5475541	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:5475541C>A	uc010qzf.1	+	1	823	c.823C>A	c.(823-825)CTC>ATC	p.L275I	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001004754	NP_001004754	Q9H344	O51I2_HUMAN	olfactory receptor, family 51, subfamily I,	275	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(2)	4		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;1.09e-10)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CATACATGTCCTCATGTCAAA	0.473000													20	171					3.99206e-14	4.5597e-14	0.007413	1	0	
OR52B6	340980	broad.mit.edu	37	11	5602431	5602431	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:5602431T>A	uc010qzi.1	+	1	325	c.325T>A	c.(325-327)TAT>AAT	p.Y109N	HBG2_uc001mak.1_Intron	NM_001005162	NP_001005162	Q8NGF0	O52B6_HUMAN	olfactory receptor, family 52, subfamily B,	109	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)		Epithelial(150;3.56e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GTGGCTAGGTTATAGCCTCAT	0.498000													21	103					0	0	0.010504	0	0	
OR52E4	390081	broad.mit.edu	37	11	5906226	5906226	+	Missense_Mutation	SNP	G	A	A	rs141226100		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:5906226G>A	uc010qzs.1	+	1	704	c.704G>A	c.(703-705)CGA>CAA	p.R235Q	TRIM5_uc001mbq.1_Intron	NM_001005165	NP_001005165	Q8NGH9	O52E4_HUMAN	olfactory receptor, family 52, subfamily E,	235	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;1.24e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CAAGATGTCCGACTAAAGGCC	0.398000													14	169					0	0	0.008871	0	0	
CCKBR	887	broad.mit.edu	37	11	6292358	6292358	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:6292358C>T	uc001mcp.2	+	5	1122	c.929C>T	c.(928-930)ACG>ATG	p.T310M	CCKBR_uc001mcq.2_Missense_Mutation_p.T238M|CCKBR_uc001mcr.2_Missense_Mutation_p.T310M|CCKBR_uc001mcs.2_Missense_Mutation_p.T379M|CCKBR_uc001mct.1_RNA	NM_176875	NP_795344	P32239	GASR_HUMAN	cholecystokinin B receptor	310	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|cell proliferation|digestion|elevation of cytosolic calcium ion concentration|feeding behavior|positive regulation of cell proliferation|sensory perception		1-phosphatidylinositol-3-kinase regulator activity|gastrin receptor activity|phosphatidylinositol phospholipase C activity|type B gastrin/cholecystokinin receptor binding			lung(5)|ovary(2)|breast(1)	8		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;2.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.139)	Pentagastrin(DB00183)	ACGGCGCTGACGGCTCCTGGG	0.652000													20	85					0	0	0.012319	0	0	
DNHD1	144132	broad.mit.edu	37	11	6520167	6520167	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:6520167A>T	uc001mdw.3	+	3	1286	c.722A>T	c.(721-723)GAG>GTG	p.E241V	DNHD1_uc001mdp.2_Missense_Mutation_p.E241V	NM_144666	NP_653267	Q96M86	DNHD1_HUMAN	dynein heavy chain domain 1 isoform 1	241					microtubule-based movement	dynein complex	microtubule motor activity			ovary(2)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.171)		Epithelial(150;3.93e-08)|BRCA - Breast invasive adenocarcinoma(625;0.13)		GCAGAGGTGGAGCCTGTTGGA	0.527000													10	51					0	0	0.008291	0	0	
AMPD3	272	broad.mit.edu	37	11	10483162	10483162	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:10483162G>T	uc001mio.1	+	2	431	c.96G>T	c.(94-96)GAG>GAT	p.E32D	AMPD3_uc010rbz.1_Translation_Start_Site|AMPD3_uc001min.1_Missense_Mutation_p.E41D|AMPD3_uc009yfw.1_RNA|AMPD3_uc009yfx.1_Missense_Mutation_p.E32D|AMPD3_uc009yfz.2_RNA|AMPD3_uc001mip.1_Missense_Mutation_p.E39D|AMPD3_uc009yfy.2_Missense_Mutation_p.E32D	NM_001025389	NP_001020560	Q01432	AMPD3_HUMAN	adenosine monophosphate deaminase 3 isoform 1B	32					AMP catabolic process|purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			large_intestine(1)|ovary(1)	2				all cancers(16;1.14e-08)|Epithelial(150;2.83e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0291)		TCCGAGAAGAGGACAGCAAAG	0.577000													23	78					2.21704e-12	2.51592e-12	0.002780	1	0	
MRVI1	10335	broad.mit.edu	37	11	10673666	10673666	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:10673666C>T	uc010rcc.1	-	2	517	c.131G>A	c.(130-132)CGT>CAT	p.R44H	MRVI1_uc001miw.2_Missense_Mutation_p.R35H|MRVI1_uc010rcb.1_Missense_Mutation_p.R35H|MRVI1_uc009ygb.1_Translation_Start_Site|MRVI1_uc001mix.2_Translation_Start_Site|MRVI1_uc001miz.2_Intron|MRVI1_uc009ygc.1_Intron|MRVI1_uc010rcd.1_Missense_Mutation_p.R44H|MRVI1_uc009ygd.1_Intron	NM_001100167	NP_001093637	Q9Y6F6	MRVI1_HUMAN	JAW1-related protein isoform c	35					platelet activation	endoplasmic reticulum membrane|integral to membrane|perinuclear region of cytoplasm|platelet dense tubular network membrane|sarcoplasmic reticulum		p.M44I(1)		ovary(2)|central_nervous_system(1)	3				all cancers(16;2.68e-07)|Epithelial(150;3.04e-07)|BRCA - Breast invasive adenocarcinoma(625;0.0723)		GGAGTGGCCACGTGTGCCCGG	0.647000													3	24					0	0	0.004672	0	0	
SPON1	10418	broad.mit.edu	37	11	14156984	14156984	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:14156984C>T	uc001mle.2	+	7	1233	c.695C>T	c.(694-696)TCT>TTT	p.S232F		NM_006108	NP_006099	Q9HCB6	SPON1_HUMAN	spondin 1, extracellular matrix protein	232	Spondin.				cell adhesion	extracellular space|proteinaceous extracellular matrix	protein binding				0				Epithelial(150;0.00898)		AACCACTGGTCTGCGATCATC	0.522000													16	84					0	0	0.003163	0	0	
SPON1	10418	broad.mit.edu	37	11	14156987	14156987	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:14156987C>T	uc001mle.2	+	7	1236	c.698C>T	c.(697-699)GCG>GTG	p.A233V		NM_006108	NP_006099	Q9HCB6	SPON1_HUMAN	spondin 1, extracellular matrix protein	233	Spondin.				cell adhesion	extracellular space|proteinaceous extracellular matrix	protein binding				0				Epithelial(150;0.00898)		CACTGGTCTGCGATCATCGGA	0.532000													27	76					0	0	0.005443	0	0	
PDE3B	5140	broad.mit.edu	37	11	14852374	14852374	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:14852374G>T	uc001mln.2	+	8	2291	c.1938G>T	c.(1936-1938)CAG>CAT	p.Q646H	PDE3B_uc010rcr.1_Missense_Mutation_p.Q595H	NM_000922	NP_000913	Q13370	PDE3B_HUMAN	phosphodiesterase 3B	646					cAMP catabolic process|insulin receptor signaling pathway|negative regulation of lipid catabolic process|platelet activation	cytosol|endoplasmic reticulum|Golgi apparatus|guanyl-nucleotide exchange factor complex|integral to membrane|microsome	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding|protein kinase B binding				0						AAGAGGCACAGAGTGAACAGC	0.338000													4	93					0.000602214	0.000629355	0.000602	1	0	
ABCC8	6833	broad.mit.edu	37	11	17428671	17428671	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:17428671C>T	uc001mnc.2	-	25	3052	c.2926G>A	c.(2926-2928)GCA>ACA	p.A976T		NM_000352	NP_000343	Q09428	ABCC8_HUMAN	ATP-binding cassette, sub-family C, member 8	976	Cytoplasmic (By similarity).				carbohydrate metabolic process|energy reserve metabolic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium ion transmembrane transporter activity|sulfonylurea receptor activity			ovary(1)	1				READ - Rectum adenocarcinoma(2;0.0325)|Colorectal(2;0.1)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)|Gliclazide(DB01120)|Mitiglinide(DB01252)|Nateglinide(DB00731)|Repaglinide(DB00912)	CTCTCAGCTGCCTCCTCTGCA	0.443000													7	21					0	0	0.003080	0	0	
E2F8	79733	broad.mit.edu	37	11	19253779	19253779	+	Splice_Site	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:19253779A>G	uc001mpm.2	-	7	1588	c.1066_splice	c.e7+1	p.G356_splice	E2F8_uc009yhv.2_Intron|E2F8_uc001mpn.3_Splice_Site_p.G356_splice	NM_024680	NP_078956	A0AVK6	E2F8_HUMAN	E2F family member 8						cell cycle	transcription factor complex	DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1						AAAAATACATACCACTGGTAT	0.303000													8	169					0	0	0.003080	0	0	
KCNA4	3739	broad.mit.edu	37	11	30033234	30033234	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:30033234T>G	uc001msk.2	-	2	2144	c.992A>C	c.(991-993)GAG>GCG	p.E331A		NM_002233	NP_002224	P22459	KCNA4_HUMAN	potassium voltage-gated channel, shaker-related	331						voltage-gated potassium channel complex	potassium ion binding|protein binding|voltage-gated potassium channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						GTCCCTAAACTCAGGCAAGGT	0.527000													18	65					0	0	0.008871	0	0	
FSHB	2488	broad.mit.edu	37	11	30255240	30255240	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:30255240C>A	uc001msl.2	+	3	352	c.283C>A	c.(283-285)CCA>ACA	p.P95T	FSHB_uc001msm.2_Missense_Mutation_p.P95T|FSHB_uc001msn.2_Missense_Mutation_p.P95T	NM_000510	NP_000501	P01225	FSHB_HUMAN	follicle stimulating hormone, beta polypeptide	95					cellular nitrogen compound metabolic process|female gamete generation|female pregnancy|ovarian follicle development|peptide hormone processing|progesterone biosynthetic process|spermatogenesis|transforming growth factor beta receptor signaling pathway	cytoplasm|extracellular region|soluble fraction	follicle-stimulating hormone activity|protein heterodimerization activity			ovary(3)	3					Follitropin beta(DB00066)|Thyrotropin Alfa(DB00024)|Urofollitropin(DB00094)	GTATACATACCCAGTGGCCAC	0.522000													6	67					2.0095e-06	2.17401e-06	0.001984	1	0	
TP53I11	9537	broad.mit.edu	37	11	44956568	44956568	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:44956568A>G	uc001myi.2	-	10	1042	c.437T>C	c.(436-438)GTG>GCG	p.V146A	TP53I11_uc001myf.1_Intron|TP53I11_uc001myj.2_Missense_Mutation_p.V146A|TP53I11_uc001myk.2_Missense_Mutation_p.V146A|TP53I11_uc001myl.2_Missense_Mutation_p.V146A|TP53I11_uc001mym.2_Missense_Mutation_p.V93A	NM_006034	NP_006025	O14683	P5I11_HUMAN	p53-induced protein	146	Helical; (Potential).				negative regulation of cell proliferation|response to stress	integral to membrane				ovary(1)	1						GGCAGTGACCACTGTGGGAGA	0.622000													9	102					0	0	0.004482	0	0	
GYLTL1B	120071	broad.mit.edu	37	11	45949811	45949811	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:45949811C>T	uc001nbv.1	+	13	1949	c.1838C>T	c.(1837-1839)GCG>GTG	p.A613V	GYLTL1B_uc001nbw.1_Missense_Mutation_p.A582V|GYLTL1B_uc001nbx.1_Missense_Mutation_p.A613V|GYLTL1B_uc001nby.1_Missense_Mutation_p.A296V|GYLTL1B_uc001nbz.1_Intron	NM_152312	NP_689525	Q8N3Y3	LARG2_HUMAN	glycosyltransferase-like 1B	613	Lumenal (Potential).				muscle cell homeostasis	Golgi membrane|integral to membrane	transferase activity, transferring glycosyl groups			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(35;0.226)		GTGCAATGGGCGGCCAACTAT	0.642000													14	167					0	0	0.004007	0	0	
AMBRA1	55626	broad.mit.edu	37	11	46465080	46465080	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:46465080A>G	uc010rgu.1	-	12	2950	c.2590T>C	c.(2590-2592)TGG>CGG	p.W864R	AMBRA1_uc010rgt.1_Missense_Mutation_p.W430R|AMBRA1_uc009ylc.1_Missense_Mutation_p.W835R|AMBRA1_uc001ncu.1_Missense_Mutation_p.W774R|AMBRA1_uc001ncv.2_Missense_Mutation_p.W867R|AMBRA1_uc001ncw.2_Missense_Mutation_p.W745R|AMBRA1_uc001ncx.2_Missense_Mutation_p.W804R	NM_017749	NP_060219	Q9C0C7	AMRA1_HUMAN	activating molecule in beclin-1-regulated	864					autophagy|cell differentiation|nervous system development	autophagic vacuole|cytoplasmic vesicle				large_intestine(1)|ovary(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(35;0.0435)|Lung(87;0.182)		AAGTCCCACCACTGGAGCCGG	0.473000													4	30					0	0	0.000602	0	0	
ARHGAP1	392	broad.mit.edu	37	11	46700719	46700719	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:46700719G>A	uc001ndd.2	-	13	1257	c.1188C>T	c.(1186-1188)TTC>TTT	p.F396F		NM_004308	NP_004299	Q07960	RHG01_HUMAN	Rho GTPase activating protein 1	396	Rho-GAP.				Rho protein signal transduction	cytosol|intracellular membrane-bounded organelle	SH3 domain binding|SH3/SH2 adaptor activity			skin(1)	1		Lung NSC(402;1.76e-12)|all_lung(304;1.3e-11)		GBM - Glioblastoma multiforme(35;5.17e-06)|BRCA - Breast invasive adenocarcinoma(625;0.00112)|Lung(87;0.153)		GGTTAGGGCCGAAAACAACAG	0.537000													29	120					0	0	0.012213	0	0	
CKAP5	9793	broad.mit.edu	37	11	46829626	46829626	+	Silent	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:46829626T>C	uc001ndi.1	-	8	1043	c.933A>G	c.(931-933)AAA>AAG	p.K311K	CKAP5_uc009ylg.1_Silent_p.K197K|CKAP5_uc001ndj.1_Silent_p.K311K	NM_001008938	NP_001008938	Q14008	CKAP5_HUMAN	colonic and hepatic tumor over-expressed protein	311					cell division|centrosome organization|establishment or maintenance of microtubule cytoskeleton polarity|G2/M transition of mitotic cell cycle|mitotic prometaphase|RNA transport|spindle organization	centrosome|cytosol	protein binding|protein binding			ovary(1)|skin(1)	2						CAGCTTCCAGTTTGGGGTTTT	0.388000													48	231					0	0	0.014410	0	0	
SLC39A13	91252	broad.mit.edu	37	11	47431758	47431758	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:47431758G>A	uc009ylq.2	+	2	284	c.113G>A	c.(112-114)CGG>CAG	p.R38Q	SLC39A13_uc001nfd.2_Missense_Mutation_p.R38Q|SLC39A13_uc001nfe.1_RNA|SLC39A13_uc001nff.3_Missense_Mutation_p.R38Q|SLC39A13_uc001nfg.3_Missense_Mutation_p.R38Q	NM_001128225	NP_001121697	Q96H72	S39AD_HUMAN	solute carrier family 39 (zinc transporter),	38	Cytoplasmic (Potential).				zinc ion transport	integral to membrane	metal ion transmembrane transporter activity				0				Lung(87;0.0936)		CCGGCCCTCCGGAGCCGGGGG	0.692000													16	91					0	0	0.004990	0	0	
OR4S1	256148	broad.mit.edu	37	11	48328082	48328082	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:48328082A>G	uc010rhu.1	+	1	308	c.308A>G	c.(307-309)CAC>CGC	p.H103R		NM_001004725	NP_001004725	Q8NGB4	OR4S1_HUMAN	olfactory receptor, family 4, subfamily S,	103	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						TTTTCTGCCCACTTCTTTGGT	0.498000													10	112					0	0	0.006214	0	0	
OR8I2	120586	broad.mit.edu	37	11	55861106	55861106	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:55861106T>C	uc010rix.1	+	1	323	c.323T>C	c.(322-324)GTG>GCG	p.V108A		NM_001003750	NP_001003750	Q8N0Y5	OR8I2_HUMAN	olfactory receptor, family 8, subfamily I,	108	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)	1	Esophageal squamous(21;0.00693)					GTTGGATTGGTGTGTTGTGAG	0.418000													29	106					0	0	0.006320	0	0	
SLC43A3	29015	broad.mit.edu	37	11	57185246	57185246	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:57185246G>T	uc001nkg.2	-	8	1056	c.646C>A	c.(646-648)CCA>ACA	p.P216T	PRG2_uc001nke.2_Missense_Mutation_p.P115T|SLC43A3_uc001nkh.2_Missense_Mutation_p.P216T|SLC43A3_uc010rjr.1_Missense_Mutation_p.P229T|SLC43A3_uc009yme.2_Missense_Mutation_p.P216T|SLC43A3_uc001nki.2_Missense_Mutation_p.P216T|SLC43A3_uc009ymf.1_Missense_Mutation_p.P216T|SLC43A3_uc010rjs.1_Missense_Mutation_p.P216T|SLC43A3_uc009ymg.1_Missense_Mutation_p.P229T	NM_014096	NP_054815	Q8NBI5	S43A3_HUMAN	solute carrier family 43, member 3	216					transmembrane transport	integral to membrane				central_nervous_system(1)	1						GGGGGCAGTGGGTATGGGATG	0.577000													9	73					2.74318e-10	3.07326e-10	0.006214	1	0	
CTNND1	1500	broad.mit.edu	37	11	57575890	57575890	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:57575890G>A	uc001nmc.3	+	14	2691	c.2120G>A	c.(2119-2121)CGT>CAT	p.R707H	CTNND1_uc001nlh.1_Missense_Mutation_p.R707H|CTNND1_uc001nlu.3_Missense_Mutation_p.R600H|CTNND1_uc001nlt.3_Missense_Mutation_p.R600H|CTNND1_uc001nls.3_Missense_Mutation_p.R600H|CTNND1_uc001nlw.3_Missense_Mutation_p.R600H|CTNND1_uc001nmf.3_Missense_Mutation_p.R707H|CTNND1_uc001nmd.3_Missense_Mutation_p.R653H|CTNND1_uc001nlk.3_Missense_Mutation_p.R653H|CTNND1_uc001nme.3_Missense_Mutation_p.R701H|CTNND1_uc001nll.3_Missense_Mutation_p.R647H|CTNND1_uc001nmg.3_Missense_Mutation_p.R647H|CTNND1_uc001nlj.3_Missense_Mutation_p.R647H|CTNND1_uc001nlr.3_Missense_Mutation_p.R647H|CTNND1_uc001nlp.3_Missense_Mutation_p.R647H|CTNND1_uc001nlx.3_Missense_Mutation_p.R384H|CTNND1_uc001nlz.3_Missense_Mutation_p.R384H|CTNND1_uc009ymn.2_Missense_Mutation_p.R378H|CTNND1_uc001nlm.3_Missense_Mutation_p.R701H|CTNND1_uc001nly.3_Missense_Mutation_p.R378H|CTNND1_uc001nmb.3_Missense_Mutation_p.R378H|CTNND1_uc001nma.3_Missense_Mutation_p.R378H|CTNND1_uc001nmi.3_Missense_Mutation_p.R606H|CTNND1_uc001nmh.3_Missense_Mutation_p.R701H|CTNND1_uc001nlq.3_Missense_Mutation_p.R606H|CTNND1_uc001nln.3_Missense_Mutation_p.R701H|CTNND1_uc001nli.3_Missense_Mutation_p.R701H|CTNND1_uc001nlo.3_Missense_Mutation_p.R600H|CTNND1_uc001nlv.3_Missense_Mutation_p.R600H	NM_001085458	NP_001078927	O60716	CTND1_HUMAN	catenin, delta 1 isoform 1ABC	707	ARM 8.				adherens junction organization|cell junction assembly|negative regulation of canonical Wnt receptor signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	cytosol|midbody|nucleus	cadherin binding|protein binding|receptor binding			breast(4)|ovary(1)|kidney(1)	6		all_epithelial(135;0.155)				TCTGCTCTGCGTCAAGAGAAG	0.458000													4	131					0	0	0.000602	0	0	
TCN1	6947	broad.mit.edu	37	11	59622135	59622135	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:59622135T>C	uc001noj.2	-	7	1209	c.1111A>G	c.(1111-1113)ACT>GCT	p.T371A		NM_001062	NP_001053	P20061	TCO1_HUMAN	transcobalamin I precursor	371					cobalamin metabolic process|cobalamin transport|cobalt ion transport	extracellular region	cobalamin binding			ovary(2)	2		all_epithelial(135;0.198)			Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	CCAAATATAGTATCATTCATT	0.358000													8	90					0	0	0.003080	0	0	
TMEM109	79073	broad.mit.edu	37	11	60689416	60689416	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:60689416G>A	uc001nqg.2	+	4	889	c.511G>A	c.(511-513)GGC>AGC	p.G171S	TMEM109_uc001nqh.2_Missense_Mutation_p.G171S|TMEM132A_uc001nqi.2_5'Flank|TMEM132A_uc001nqj.2_5'Flank	NM_024092	NP_076997	Q9BVC6	TM109_HUMAN	transmembrane protein 109 precursor	171	Helical; (Potential).					integral to membrane|nuclear outer membrane|sarcoplasmic reticulum membrane					0						CTTCCTGGCCGGCTTCGTGGC	0.657000													11	124					0	0	0.010729	0	0	
INCENP	3619	broad.mit.edu	37	11	61912511	61912511	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:61912511C>T	uc001nsw.1	+	12	1865	c.1663C>T	c.(1663-1665)CGC>TGC	p.R555C	INCENP_uc009ynw.1_Missense_Mutation_p.R555C|INCENP_uc001nsx.1_Missense_Mutation_p.R551C|INCENP_uc001nsy.1_5'UTR	NM_001040694	NP_001035784	Q9NQS7	INCE_HUMAN	inner centromere protein antigens 135/155kDa	555	Potential.				chromosome segregation|cytokinesis|mitotic prometaphase	centromeric heterochromatin|condensed chromosome kinetochore|cytosol|microtubule|spindle	protein binding			lung(1)	1						CGAGCAGCTGCGCAGGCAGAA	0.672000													9	43					0	0	0.006214	0	0	
ATL3	25923	broad.mit.edu	37	11	63398579	63398579	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:63398579C>A	uc001nxk.1	-	12	1748	c.1472G>T	c.(1471-1473)AGG>ATG	p.R491M	ATL3_uc010rms.1_Missense_Mutation_p.R473M|ATL3_uc010rmr.1_Missense_Mutation_p.R149M	NM_015459	NP_056274	Q6DD88	ATLA3_HUMAN	atlastin 3	491	Cytoplasmic.				endoplasmic reticulum organization|Golgi organization|protein homooligomerization	endoplasmic reticulum membrane|integral to membrane	GTP binding|GTPase activity|identical protein binding			pancreas(1)	1						ACCAGAATACCTGATGTAGCC	0.502000													7	96					5.18039e-06	5.57504e-06	0.003080	1	0	
ATL3	25923	broad.mit.edu	37	11	63398938	63398938	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:63398938A>C	uc001nxk.1	-	12	1389	c.1113T>G	c.(1111-1113)TGT>TGG	p.C371W	ATL3_uc010rms.1_Missense_Mutation_p.C353W|ATL3_uc010rmr.1_Missense_Mutation_p.C29W	NM_015459	NP_056274	Q6DD88	ATLA3_HUMAN	atlastin 3	371	Cytoplasmic.				endoplasmic reticulum organization|Golgi organization|protein homooligomerization	endoplasmic reticulum membrane|integral to membrane	GTP binding|GTPase activity|identical protein binding			pancreas(1)	1						TCTCTCCCCCACAAACCTAAA	0.338000													10	25					0	0	0.010729	0	0	
PLCB3	5331	broad.mit.edu	37	11	64028918	64028918	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:64028918T>G	uc001nzb.2	+	15	1778	c.1778T>G	c.(1777-1779)CTT>CGT	p.L593R	PLCB3_uc009ypg.1_Missense_Mutation_p.L593R|PLCB3_uc009yph.1_Missense_Mutation_p.L526R|PLCB3_uc009ypi.2_Missense_Mutation_p.L593R	NM_000932	NP_000923	Q01970	PLCB3_HUMAN	phospholipase C beta 3	593	PI-PLC Y-box.				intracellular signal transduction|lipid catabolic process|synaptic transmission	cytosol	calcium ion binding|calmodulin binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|pancreas(1)	2						ATGTCCACGCTTGTCAACTAC	0.612000													19	76					0	0	0.012319	0	0	
LTBP3	4054	broad.mit.edu	37	11	65315479	65315479	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:65315479G>A	uc001oej.2	-	12	2027	c.1758C>T	c.(1756-1758)GGC>GGT	p.G586G	LTBP3_uc001oeg.2_5'Flank|LTBP3_uc001oeh.2_Silent_p.G16G|LTBP3_uc010roi.1_Silent_p.G469G|LTBP3_uc001oei.2_Silent_p.G586G|LTBP3_uc010roj.1_Silent_p.G287G|LTBP3_uc010rok.1_Silent_p.G497G	NM_001130144	NP_001123616	Q9NS15	LTBP3_HUMAN	latent transforming growth factor beta binding	586	Cys-rich.|EGF-like 3.					extracellular region	calcium ion binding|growth factor binding			central_nervous_system(2)|lung(1)	3						ACTCTCCGTGGCCACAGATGT	0.657000													17	68					0	0	0.004007	0	0	
MUS81	80198	broad.mit.edu	37	11	65629422	65629422	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:65629422C>T	uc001ofv.3	+	4	709	c.356C>T	c.(355-357)CCT>CTT	p.P119L	CFL1_uc001oft.2_5'Flank|MUS81_uc001ofw.3_RNA|MUS81_uc001ofx.3_5'Flank	NM_025128	NP_079404	Q96NY9	MUS81_HUMAN	MUS81 endonuclease homolog	119					DNA recombination|DNA repair	nucleolus	3'-flap endonuclease activity|DNA binding|metal ion binding|protein binding				0				READ - Rectum adenocarcinoma(159;0.166)		TTTCAGGTTCCTGCCCAGCCC	0.458000								Homologous_recombination					6	15					0	0	0.001168	0	0	
RBM4	5936	broad.mit.edu	37	11	66411100	66411100	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:66411100C>T	uc009yrj.2	+	3	1080	c.592C>T	c.(592-594)CGT>TGT	p.R198C	RBM4_uc009yrk.2_Missense_Mutation_p.R173C|RBM4_uc001oiw.1_Missense_Mutation_p.R198C|RBM4_uc001oix.1_Intron|RBM4_uc010rpj.1_Intron|RBM4_uc001oiy.1_Missense_Mutation_p.R198C|RBM4_uc001oiz.1_Missense_Mutation_p.R198C	NM_002896	NP_002887	Q9BWF3	RBM4_HUMAN	RNA binding motif protein 4	198	Interaction with TNPO3.				circadian regulation of gene expression|entrainment of circadian clock by photoperiod|mRNA processing|negative regulation of translation in response to stress|negative regulation of translation involved in gene silencing by miRNA|negative regulation of translational initiation|positive regulation of muscle cell differentiation|regulation of alternative nuclear mRNA splicing, via spliceosome|regulation of nucleocytoplasmic transport|RNA splicing|stress-activated MAPK cascade	nuclear speck|nucleolus|stress granule	miRNA binding|mRNA 3'-UTR binding|nucleotide binding|protein binding|zinc ion binding			ovary(1)	1				Lung(977;0.0112)|LUSC - Lung squamous cell carcinoma(976;0.0266)		CGGAGCAGTGCGTACGCCTTA	0.552000													22	56					0	0	0.012319	0	0	
ADRBK1	156	broad.mit.edu	37	11	67048584	67048584	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:67048584C>T	uc009yrn.1	+	8	842	c.576C>T	c.(574-576)AGC>AGT	p.S192S	ADRBK1_uc009yrm.1_Silent_p.S192S	NM_001619	NP_001610	P25098	ARBK1_HUMAN	beta-adrenergic receptor kinase 1	192	Protein kinase.				activation of phospholipase C activity|cardiac muscle contraction|desensitization of G-protein coupled receptor protein signaling pathway|muscarinic acetylcholine receptor signaling pathway|negative regulation of striated muscle contraction|negative regulation of the force of heart contraction by chemical signal|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|positive regulation of catecholamine secretion|tachykinin receptor signaling pathway	cytosol|soluble fraction	alpha-2A adrenergic receptor binding|ATP binding|beta-adrenergic receptor kinase activity|Edg-2 lysophosphatidic acid receptor binding|G-protein coupled receptor kinase activity|signal transducer activity			large_intestine(1)	1			BRCA - Breast invasive adenocarcinoma(15;2.26e-06)		Adenosine triphosphate(DB00171)	ATGACTTCAGCGTGCATCGCA	0.657000													18	60					0	0	0.010504	0	0	
SLCO2B1	11309	broad.mit.edu	37	11	74876908	74876908	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:74876908G>T	uc001owb.2	+	4	749	c.362G>T	c.(361-363)GGG>GTG	p.G121V	SLCO2B1_uc010rrq.1_Intron|SLCO2B1_uc010rrr.1_Intron|SLCO2B1_uc010rrs.1_Missense_Mutation_p.G5V|SLCO2B1_uc001owc.2_Missense_Mutation_p.G5V|SLCO2B1_uc001owd.2_Missense_Mutation_p.G99V	NM_007256	NP_009187	O94956	SO2B1_HUMAN	solute carrier organic anion transporter family,	121	Helical; Name=3; (Potential).				sodium-independent organic anion transport	integral to membrane	sodium-independent organic anion transmembrane transporter activity			ovary(1)|breast(1)	2					Ergoloid mesylate(DB01049)	ATTGGCTATGGGGCTATCCTT	0.582000													10	196					0.00829132	0.00853436	0.008291	1	0	
USP35	57558	broad.mit.edu	37	11	77916960	77916960	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:77916960G>A	uc009yva.1	+	7	1516	c.1270G>A	c.(1270-1272)GAG>AAG	p.E424K	USP35_uc001oze.2_Missense_Mutation_p.E180K|USP35_uc001ozc.2_5'UTR|USP35_uc010rsp.1_Intron|USP35_uc001ozd.2_Silent_p.A33A|USP35_uc001ozf.2_Missense_Mutation_p.E155K	NM_020798	NP_065849	Q9P2H5	UBP35_HUMAN	ubiquitin specific protease 35	424					ubiquitin-dependent protein catabolic process		binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|ovary(1)	3	all_cancers(14;3.77e-18)|all_epithelial(13;6.16e-21)|Breast(9;5.6e-16)|Ovarian(111;0.152)		OV - Ovarian serous cystadenocarcinoma(8;1.04e-25)			GCAGAAGAGCGAGCTGGCGGG	0.572000													15	279					0	0	0.006122	0	0	
GAB2	9846	broad.mit.edu	37	11	77936163	77936163	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:77936163G>A	uc001ozh.2	-	5	1293	c.1293C>T	c.(1291-1293)GGC>GGT	p.G431G	GAB2_uc001ozg.2_Silent_p.G393G	NM_080491	NP_536739	Q9UQC2	GAB2_HUMAN	GRB2-associated binding protein 2 isoform a	431					osteoclast differentiation|phosphatidylinositol-mediated signaling|positive regulation of cell proliferation|positive regulation of mast cell degranulation	cytosol|plasma membrane	phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|transmembrane receptor protein tyrosine kinase adaptor activity			ovary(5)|lung(1)	6	all_cancers(14;3.31e-18)|all_epithelial(13;5.3e-21)|Breast(9;5.6e-16)|Ovarian(111;0.152)		OV - Ovarian serous cystadenocarcinoma(8;1.58e-23)			CCAGGAAAGAGCCAACTCCAT	0.522000													9	96					0	0	0.008291	0	0	
CCDC89	220388	broad.mit.edu	37	11	85396904	85396904	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:85396904G>A	uc001pau.1	-	1	417	c.270C>T	c.(268-270)CGC>CGT	p.R90R		NM_152723	NP_689936	Q8N998	CCD89_HUMAN	coiled-coil domain containing 89	90	Potential.					cytoplasm|nucleus					0		Acute lymphoblastic leukemia(157;4.88e-06)|all_hematologic(158;0.00572)				GGATCTGGCAGCGCTCCAGGG	0.577000													7	57					0	0	0.003080	0	0	
NAALAD2	10003	broad.mit.edu	37	11	89883713	89883713	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:89883713G>T	uc001pdf.3	+	5	656	c.547G>T	c.(547-549)GGC>TGC	p.G183C	NAALAD2_uc009yvx.2_Missense_Mutation_p.G183C|NAALAD2_uc009yvy.2_Missense_Mutation_p.G183C|NAALAD2_uc001pdd.2_Missense_Mutation_p.G183C|NAALAD2_uc001pde.2_Missense_Mutation_p.G183C	NM_005467	NP_005458	Q9Y3Q0	NALD2_HUMAN	N-acetylated alpha-linked acidic dipeptidase 2	183	Extracellular (Potential).				proteolysis	integral to membrane	carboxypeptidase activity|dipeptidase activity|dipeptidyl-peptidase activity|metal ion binding|metallopeptidase activity|serine-type peptidase activity			pancreas(1)|skin(1)	2		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00556)				AAGAGAGATGGGCATCAACTG	0.328000													16	42					6.49762e-13	7.38721e-13	0.006122	1	0	
FAT3	120114	broad.mit.edu	37	11	92087030	92087030	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:92087030G>T	uc001pdj.3	+	1	1769	c.1752G>T	c.(1750-1752)CAG>CAT	p.Q584H		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	584	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				TGGCTTGCCAGGGAGTTATTT	0.428000										TCGA Ovarian(4;0.039)			12	35					9.31168e-06	9.99481e-06	0.001855	1	0	
FOLR4	390243	broad.mit.edu	37	11	94038823	94038823	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:94038823C>T	uc010rud.1	+	1	21	c.21C>T	c.(19-21)CTC>CTT	p.L7L		NM_001080486	NP_001073955	A6ND01	FOLR4_HUMAN	folate receptor 4 (delta) homolog	7						extracellular region	folic acid binding|receptor activity			ovary(1)	1						GGTGGCCGCTCCTGCTAGAGC	0.582000													30	107					0	0	0.003271	0	0	
CNTN5	53942	broad.mit.edu	37	11	100211267	100211267	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:100211267G>A	uc001pga.2	+	22	3142	c.2803G>A	c.(2803-2805)GTC>ATC	p.V935I	CNTN5_uc001pgb.2_Missense_Mutation_p.V861I|CNTN5_uc010ruk.1_Missense_Mutation_p.V206I	NM_014361	NP_055176	O94779	CNTN5_HUMAN	contactin 5 isoform long	935	Fibronectin type-III 3.				cell adhesion	anchored to membrane|plasma membrane	protein binding			skin(3)|ovary(2)|pancreas(2)|breast(1)	8		all_hematologic(158;1.22e-05)|Acute lymphoblastic leukemia(157;3.81e-05)|Melanoma(852;0.219)		BRCA - Breast invasive adenocarcinoma(274;0.00146)|KIRC - Kidney renal clear cell carcinoma(183;0.156)|Kidney(183;0.196)		TGAGTCTTTCGTCATCCTAAC	0.428000													6	26					0	0	0.001168	0	0	
ATM	472	broad.mit.edu	37	11	108216545	108216545	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:108216545C>T	uc001pkb.1	+	58	8879	c.8494C>T	c.(8494-8496)CGT>TGT	p.R2832C	ATM_uc009yxr.1_Missense_Mutation_p.R2832C|C11orf65_uc010rvx.1_Intron|C11orf65_uc009yxu.1_Intron|ATM_uc001pke.1_Missense_Mutation_p.R1484C	NM_000051	NP_000042	Q13315	ATM_HUMAN	ataxia telangiectasia mutated isoform 1	2832	PI3K/PI4K.		R -> C (in AT and B-cell non-Hodgkin lymphoma).		cell cycle arrest|cellular response to gamma radiation|DNA damage induced protein phosphorylation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|double-strand break repair via homologous recombination|G2/M transition DNA damage checkpoint|histone mRNA catabolic process|mitotic cell cycle spindle assembly checkpoint|negative regulation of B cell proliferation|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|pre-B cell allelic exclusion|protein autophosphorylation|reciprocal meiotic recombination|replicative senescence	cytoplasmic membrane-bounded vesicle|nucleoplasm	1-phosphatidylinositol-3-kinase activity|ATP binding|DNA binding|DNA-dependent protein kinase activity|identical protein binding|protein complex binding|protein dimerization activity|protein N-terminus binding	p.R2832C(1)		haematopoietic_and_lymphoid_tissue(174)|lung(25)|breast(15)|large_intestine(9)|ovary(5)|kidney(5)|central_nervous_system(4)|upper_aerodigestive_tract(1)|stomach(1)|NS(1)	240		all_cancers(61;9.64e-12)|all_epithelial(67;9.97e-08)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;9.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.06e-05)|all cancers(92;0.000208)|Colorectal(284;0.116)|OV - Ovarian serous cystadenocarcinoma(223;0.147)		ACCAGTTTTCCGTTACTTCTG	0.343000			D|Mis|N|F|S		T-PLL	leukemia|lymphoma|medulloblastoma|glioma		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Ataxia_Telangiectasia	TSP Lung(14;0.12)			33	133					0	0	0.004289	0	0	
EXPH5	23086	broad.mit.edu	37	11	108381075	108381075	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:108381075G>A	uc001pkk.2	-	6	5270	c.5159C>T	c.(5158-5160)ACA>ATA	p.T1720I	EXPH5_uc010rvy.1_Missense_Mutation_p.T1532I|EXPH5_uc010rvz.1_Missense_Mutation_p.T1564I|EXPH5_uc010rwa.1_Missense_Mutation_p.T1644I	NM_015065	NP_055880	Q8NEV8	EXPH5_HUMAN	exophilin 5 isoform a	1720					intracellular protein transport		Rab GTPase binding			skin(3)|ovary(2)	5		all_cancers(61;3.99e-08)|Acute lymphoblastic leukemia(157;3.97e-05)|Melanoma(852;4.04e-05)|all_epithelial(67;0.000116)|all_hematologic(158;0.000315)|Breast(348;0.104)|all_neural(303;0.16)		Epithelial(105;8.1e-06)|BRCA - Breast invasive adenocarcinoma(274;1.22e-05)|all cancers(92;0.000129)|OV - Ovarian serous cystadenocarcinoma(223;0.11)|Colorectal(284;0.184)		CTGAGCTGCTGTGACGTCTTT	0.448000													33	150					0	0	0.012213	0	0	
USP28	57646	broad.mit.edu	37	11	113704196	113704196	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:113704196C>T	uc001poh.2	-	7	738	c.705G>A	c.(703-705)CCG>CCA	p.P235P	USP28_uc010rwy.1_Silent_p.P110P|USP28_uc001poi.2_5'UTR|USP28_uc001poj.3_Silent_p.P235P|USP28_uc010rwz.1_Silent_p.P235P	NM_020886	NP_065937	Q96RU2	UBP28_HUMAN	ubiquitin specific protease 28	235					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)		GGGCTGCAGACGGGTCTACAA	0.398000													10	146					0	0	0.008291	0	0	
RBM7	10179	broad.mit.edu	37	11	114278312	114278312	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:114278312C>T	uc001pov.2	+	5	594	c.584C>T	c.(583-585)TCA>TTA	p.S195L	RBM7_uc001pow.2_Missense_Mutation_p.S196L|RBM7_uc001pox.2_Missense_Mutation_p.S75L	NM_016090	NP_057174	Q9Y580	RBM7_HUMAN	RNA binding motif protein 7	195					meiosis		nucleotide binding|protein binding|RNA binding			ovary(2)	2		all_cancers(61;5.06e-12)|all_epithelial(67;5.3e-06)|all_hematologic(158;7.68e-05)|Acute lymphoblastic leukemia(157;0.000966)|Melanoma(852;0.00153)|Medulloblastoma(222;0.0523)|all_neural(223;0.0663)|Breast(348;0.0818)|Prostate(24;0.104)		BRCA - Breast invasive adenocarcinoma(274;2.56e-06)|Epithelial(105;4.17e-05)|all cancers(92;0.000348)		GGTACACCATCATCACAGCGT	0.443000													22	72					0	0	0.012319	0	0	
RNF214	257160	broad.mit.edu	37	11	117152774	117152774	+	Silent	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:117152774C>A	uc001pqt.2	+	11	1545	c.1500C>A	c.(1498-1500)TCC>TCA	p.S500S	RNF214_uc001pqu.2_Silent_p.S500S|RNF214_uc010rxf.1_Silent_p.S345S	NM_207343	NP_997226	Q8ND24	RN214_HUMAN	ring finger protein 214	500	Pro-rich.						zinc ion binding				0	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.88e-05)|Epithelial(105;0.000397)|all cancers(92;0.00258)		GCCAGCCTTCCTCACCCCTTC	0.622000													9	286					5.16669e-11	5.80426e-11	0.010729	1	0	
MLL	4297	broad.mit.edu	37	11	118344459	118344459	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:118344459G>A	uc001pta.2	+	3	2608	c.2585G>A	c.(2584-2586)CGA>CAA	p.R862Q	MLL_uc001ptb.2_Missense_Mutation_p.R862Q|MLL_uc001psz.1_Missense_Mutation_p.R895Q|MLL_uc001ptd.1_Intron	NM_005933	NP_005924	Q03164	MLL1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	862					apoptosis|embryonic hemopoiesis|histone H4-K16 acetylation|positive regulation of transcription, DNA-dependent|protein complex assembly|transcription from RNA polymerase II promoter	MLL1 complex	AT DNA binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-K4 specific)|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|unmethylated CpG binding|zinc ion binding			lung(7)|ovary(5)|kidney(5)|central_nervous_system(3)|pancreas(2)|urinary_tract(1)|breast(1)|skin(1)	25	all_hematologic(175;0.046)	all_hematologic(192;1.13e-50)|all_neural(223;3.18e-06)|Breast(348;1.07e-05)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.244)		OV - Ovarian serous cystadenocarcinoma(223;2.77e-44)|BRCA - Breast invasive adenocarcinoma(274;1.2e-11)|Lung(307;3.48e-06)|LUSC - Lung squamous cell carcinoma(976;7.92e-05)|Colorectal(284;0.144)		TCCAAAGATCGAGATGCTGAC	0.303000			T|O	MLL|MLLT1|MLLT2|MLLT3|MLLT4|MLLT7|MLLT10|MLLT6|ELL|EPS15|AF1Q|CREBBP|SH3GL1|FNBP1|PNUTL1|MSF|GPHN|GMPS|SSH3BP1|ARHGEF12|GAS7|FOXO3A|LAF4|LCX|SEPT6|LPP|CBFA2T1|GRAF|EP300|PICALM|HEAB	AML|ALL								12	29					0	0	0.010729	0	0	
H2AFX	3014	broad.mit.edu	37	11	118965850	118965850	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:118965850C>T	uc001pvg.2	-	1	328	c.255G>A	c.(253-255)CAG>CAA	p.Q85Q	H2AFX_uc001pvh.1_RNA	NM_002105	NP_002096	P16104	H2AX_HUMAN	H2A histone family, member X	85					DNA damage checkpoint|double-strand break repair via homologous recombination|meiosis|nucleosome assembly|positive regulation of DNA repair|response to ionizing radiation	nucleoplasm|nucleosome	DNA binding|enzyme binding|histone binding				0	all_hematologic(175;0.0977)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.47e-05)		GGATGGCCAGCTGCAGGTGGC	0.667000								Chromatin_Structure|Direct_reversal_of_damage			OREG0021395	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	202					0	0	0.003080	0	0	
NLRX1	79671	broad.mit.edu	37	11	119045262	119045262	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:119045262T>C	uc001pvu.2	+	6	1165	c.950T>C	c.(949-951)CTG>CCG	p.L317P	NLRX1_uc010rzc.1_Missense_Mutation_p.L139P|NLRX1_uc001pvv.2_Missense_Mutation_p.L317P|NLRX1_uc001pvw.2_Missense_Mutation_p.L317P|NLRX1_uc001pvx.2_Missense_Mutation_p.L317P	NM_024618	NP_078894	Q86UT6	NLRX1_HUMAN	NLR family member X1 isoform 1	317	Required for interaction with MAVS.|NACHT.				innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production	mitochondrial outer membrane	ATP binding			ovary(1)|skin(1)	2	all_hematologic(175;0.0977)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.7e-05)		GATACCAACCTGCAGAAGCTC	0.602000													8	182					0	0	0.006214	0	0	
TECTA	7007	broad.mit.edu	37	11	120996278	120996278	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:120996278C>T	uc010rzo.1	+	7	1471	c.1471C>T	c.(1471-1473)CGT>TGT	p.R491C		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	491	VWFD 1.				cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		AGAGAGCTGGCGTGTGTACCA	0.582000													7	167					0	0	0.003080	0	0	
VWA5A	4013	broad.mit.edu	37	11	123994983	123994983	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:123994983A>G	uc001pzu.2	+	11	1413	c.1204A>G	c.(1204-1206)AGT>GGT	p.S402G	VWA5A_uc001pzr.2_Missense_Mutation_p.S402G|VWA5A_uc001pzs.2_Missense_Mutation_p.S402G|VWA5A_uc010sae.1_Missense_Mutation_p.S418G|VWA5A_uc001pzt.2_Missense_Mutation_p.S402G	NM_001130142	NP_001123614	O00534	VMA5A_HUMAN	BCSC-1 isoform 1	402	VWFA.									upper_aerodigestive_tract(1)|ovary(1)	2						AGACACGTTTAGTGTAATTAA	0.363000													3	48					0	0	0.004672	0	0	
OR8D1	283159	broad.mit.edu	37	11	124179741	124179741	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:124179741T>G	uc010sag.1	-	1	922	c.922A>C	c.(922-924)AAA>CAA	p.K308Q		NM_001002917	NP_001002917	Q8WZ84	OR8D1_HUMAN	olfactory receptor, family 8, subfamily D,	308	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0528)		AGGACTCATTTTCCTACTAAG	0.363000													9	55					0	0	0.010729	0	0	
ERC1	23085	broad.mit.edu	37	12	1372286	1372286	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:1372286G>A	uc001qjb.2	+	14	2815	c.2574G>A	c.(2572-2574)ATG>ATA	p.M858I	ERC1_uc001qiz.2_RNA|ERC1_uc001qjc.2_Missense_Mutation_p.M830I|ERC1_uc001qja.2_Intron|ERC1_uc001qjd.2_RNA|ERC1_uc001qjf.2_Missense_Mutation_p.M858I|ERC1_uc010sdv.1_Intron|ERC1_uc001qje.2_RNA	NM_178040	NP_829884	Q8IUD2	RB6I2_HUMAN	RAB6-interacting protein 2 isoform epsilon	858	Potential.				I-kappaB phosphorylation|multicellular organismal development|positive regulation of anti-apoptosis|positive regulation of NF-kappaB transcription factor activity|protein transport	Golgi membrane|IkappaB kinase complex|presynaptic membrane	leucine zipper domain binding			ovary(2)|lung(2)|breast(1)	5	all_epithelial(11;0.0698)|Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.00239)|BRCA - Breast invasive adenocarcinoma(9;0.0567)			AGCGGGAAATGGTGCTAGCAC	0.443000													7	36					0	0	0.003080	0	0	
LAG3	3902	broad.mit.edu	37	12	6882045	6882045	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:6882045G>A	uc001qqt.3	+	1	376	c.27G>A	c.(25-27)TTG>TTA	p.L9L	LAG3_uc001qqs.2_Silent_p.L9L|LAG3_uc001qqu.2_5'UTR	NM_002286	NP_002277	P18627	LAG3_HUMAN	lymphocyte-activation protein 3 precursor	9						integral to membrane	antigen binding|MHC class II protein binding				0						TCCTGGGCTTGCTGTTTCTGC	0.622000													6	28					0	0	0.001984	0	0	
GPR162	27239	broad.mit.edu	37	12	6933449	6933449	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:6933449A>G	uc001qqw.1	+	2	920	c.385A>G	c.(385-387)AAC>GAC	p.N129D	GPR162_uc010sfn.1_Missense_Mutation_p.N129D|GPR162_uc001qqx.1_Intron|GPR162_uc009zfd.1_Intron|GPR162_uc001qqy.1_5'Flank	NM_019858	NP_062832	Q16538	GP162_HUMAN	G protein-coupled receptor 162 isoform 2	129	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3						CCGCCTCAGCAACGCCAAGAA	0.622000													5	97					0	0	0.000602	0	0	
CD163L1	283316	broad.mit.edu	37	12	7526223	7526223	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:7526223C>T	uc001qsy.2	-	14	3449	c.3423G>A	c.(3421-3423)TTG>TTA	p.L1141L	CD163L1_uc010sge.1_Silent_p.L1151L	NM_174941	NP_777601	Q9NR16	C163B_HUMAN	scavenger receptor cysteine-rich type 1	1141	SRCR 11.|Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane	scavenger receptor activity			ovary(8)|skin(2)|central_nervous_system(1)	11						TGTAGAGCCTCAAGGCTGTGA	0.448000													8	203					0	0	0.004482	0	0	
LRP6	4040	broad.mit.edu	37	12	12278295	12278295	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:12278295G>A	uc001rah.3	-	21	4526	c.4384C>T	c.(4384-4386)CGA>TGA	p.R1462*	BCL2L14_uc001raf.1_Intron|LRP6_uc010shl.1_Nonsense_Mutation_p.R1417*	NM_002336	NP_002327	O75581	LRP6_HUMAN	low density lipoprotein receptor-related protein	1462	Cytoplasmic (Potential).				cellular response to cholesterol|negative regulation of protein phosphorylation|negative regulation of protein serine/threonine kinase activity|negative regulation of smooth muscle cell apoptosis|neural crest formation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell cycle|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway involved in dorsal/ventral axis specification|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	cell surface|cytoplasmic vesicle|endoplasmic reticulum|integral to membrane|plasma membrane	coreceptor activity|frizzled binding|kinase inhibitor activity|low-density lipoprotein receptor activity|protein homodimerization activity|toxin transporter activity|Wnt-protein binding			lung(4)|skin(4)|ovary(2)|kidney(1)|central_nervous_system(1)	12		Prostate(47;0.0865)				ACATGGGCTCGGTCATAGGGG	0.448000													3	32					0	0	0.004672	0	0	
GRIN2B	2904	broad.mit.edu	37	12	13716547	13716547	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:13716547G>A	uc001rbt.2	-	13	3804	c.3625C>T	c.(3625-3627)CGG>TGG	p.R1209W		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	1209	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding	p.R1209R(1)		central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	CCCCCGGACCGGTCCTCCCAC	0.642000													15	109					0	0	0.004007	0	0	
H2AFJ	55766	broad.mit.edu	37	12	14927697	14927697	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:14927697T>C	uc009zia.2	+	1	428	c.293T>C	c.(292-294)CTG>CCG	p.L98P	H2AFJ_uc001rch.3_RNA	NM_177925	NP_808760	Q9BTM1	H2AJ_HUMAN	H2A histone family, member J	98					nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(1)	1						AACAAGCTGCTGGGCAAAGTG	0.602000													6	136					0	0	0.004482	0	0	
PLCZ1	89869	broad.mit.edu	37	12	18865917	18865917	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:18865917G>A	uc010sid.1	-	6	764	c.573C>T	c.(571-573)GCC>GCT	p.A191A	PLCZ1_uc001rdv.3_Silent_p.A87A|PLCZ1_uc001rdw.3_Intron|PLCZ1_uc001rdu.1_5'UTR|PLCZ1_uc009zil.1_RNA	NM_033123	NP_149114	Q86YW0	PLCZ1_HUMAN	phospholipase C, zeta 1	191	PI-PLC X-box.				intracellular signal transduction|lipid catabolic process|multicellular organismal development	nucleus|perinuclear region of cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|lung(1)|skin(1)	3	Acute lymphoblastic leukemia(4;0.000455)|all_hematologic(4;0.0241)					CTTTCACAAGGGCACTAGCAA	0.348000													7	48					0	0	0.004482	0	0	
LST-3TM12	338821	broad.mit.edu	37	12	21207464	21207464	+	Nonsense_Mutation	SNP	A	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:21207464A>T	uc010sin.1	+	10	1435	c.1435A>T	c.(1435-1437)AGA>TGA	p.R479*	SLCO1B3_uc010sil.1_Intron|LST-3TM12_uc010sim.1_Nonsense_Mutation_p.R526*	NM_001009562	NP_001009562	Q71QF0	Q71QF0_HUMAN	liver-specific organic anion transporter 3TM12	479						membrane	transporter activity				0						TGAATGCCCAAGAGATGATGC	0.368000													10	71					0	0	0.006214	0	0	
SOX5	6660	broad.mit.edu	37	12	23728680	23728680	+	Silent	SNP	A	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:23728680A>C	uc001rfw.2	-	10	1359	c.1257T>G	c.(1255-1257)GCT>GCG	p.A419A	SOX5_uc001rfx.2_Silent_p.A406A|SOX5_uc001rfy.2_Intron|SOX5_uc001rfv.2_Silent_p.A33A|SOX5_uc010siv.1_Silent_p.A406A|SOX5_uc010siw.1_RNA|SOX5_uc001rfz.1_Silent_p.A371A	NM_006940	NP_008871	P35711	SOX5_HUMAN	SRY (sex determining region Y)-box 5 isoform a	419					transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(5)|lung(1)	6						TTATTCTCAGAGCTGGCATAT	0.517000													12	128					0	0	0.002450	0	0	
YARS2	51067	broad.mit.edu	37	12	32908133	32908133	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:32908133C>T	uc001rli.2	-	1	742	c.676G>A	c.(676-678)GCC>ACC	p.A226T		NM_001040436	NP_001035526	Q9Y2Z4	SYYM_HUMAN	tyrosyl-tRNA synthetase 2, mitochondrial	226					tyrosyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|protein binding|RNA binding|tyrosine-tRNA ligase activity				0	Lung NSC(5;2.43e-07)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.239)				L-Tyrosine(DB00135)	AAGTCATAGGCCTGGAGCACC	0.567000											OREG0021729	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	42	175					0	0	0.010771	0	0	
SYT10	341359	broad.mit.edu	37	12	33532785	33532785	+	Silent	SNP	G	A	A	rs150924840		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:33532785G>A	uc001rll.1	-	6	1779	c.1482C>T	c.(1480-1482)CAC>CAT	p.H494H	SYT10_uc009zju.1_Silent_p.H304H	NM_198992	NP_945343	Q6XYQ8	SYT10_HUMAN	synaptotagmin X	494	Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(1)|skin(1)	2	Lung NSC(5;8.37e-07)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0334)					ATGGGTGCCAGTGCGTTATTG	0.438000													6	103					0	0	0.001168	0	0	
LRRK2	120892	broad.mit.edu	37	12	40677742	40677742	+	Silent	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:40677742A>G	uc001rmg.3	+	19	2428	c.2307A>G	c.(2305-2307)CAA>CAG	p.Q769Q	LRRK2_uc001rmh.1_Silent_p.Q391Q	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	769					activation of MAPKK activity|determination of adult lifespan|exploration behavior|intracellular distribution of mitochondria|negative regulation of branching morphogenesis of a nerve|negative regulation of dendritic spine morphogenesis|negative regulation of neuroblast proliferation|negative regulation of neuron maturation|neuromuscular junction development|neuron death|peptidyl-serine phosphorylation|positive regulation of autophagy|positive regulation of dopamine receptor signaling pathway|positive regulation of programmed cell death|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of protein ubiquitination|protein autophosphorylation|regulation of kidney size|regulation of locomotion|regulation of membrane potential|response to oxidative stress|small GTPase mediated signal transduction|tangential migration from the subventricular zone to the olfactory bulb	external side of mitochondrial outer membrane	ATP binding|GTP binding|GTP-dependent protein kinase activity|GTPase activator activity|MAP kinase kinase activity|protein homodimerization activity|tubulin binding			ovary(12)|stomach(5)|upper_aerodigestive_tract(2)|lung(2)|large_intestine(1)|urinary_tract(1)|pancreas(1)	24	all_cancers(12;0.00108)|Breast(8;0.218)	Lung NSC(34;0.0942)|all_lung(34;0.11)				CTCGTGAACAAGATGTACGAA	0.408000													25	66					0	0	0.004656	0	0	
LRRK2	120892	broad.mit.edu	37	12	40734203	40734203	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:40734203G>A	uc001rmg.3	+	41	6177	c.6056G>A	c.(6055-6057)GGC>GAC	p.G2019D	LRRK2_uc009zjw.2_Missense_Mutation_p.G857D|LRRK2_uc001rmi.2_Missense_Mutation_p.G852D	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	2019	Protein kinase.				activation of MAPKK activity|determination of adult lifespan|exploration behavior|intracellular distribution of mitochondria|negative regulation of branching morphogenesis of a nerve|negative regulation of dendritic spine morphogenesis|negative regulation of neuroblast proliferation|negative regulation of neuron maturation|neuromuscular junction development|neuron death|peptidyl-serine phosphorylation|positive regulation of autophagy|positive regulation of dopamine receptor signaling pathway|positive regulation of programmed cell death|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of protein ubiquitination|protein autophosphorylation|regulation of kidney size|regulation of locomotion|regulation of membrane potential|response to oxidative stress|small GTPase mediated signal transduction|tangential migration from the subventricular zone to the olfactory bulb	external side of mitochondrial outer membrane	ATP binding|GTP binding|GTP-dependent protein kinase activity|GTPase activator activity|MAP kinase kinase activity|protein homodimerization activity|tubulin binding			ovary(12)|stomach(5)|upper_aerodigestive_tract(2)|lung(2)|large_intestine(1)|urinary_tract(1)|pancreas(1)	24	all_cancers(12;0.00108)|Breast(8;0.218)	Lung NSC(34;0.0942)|all_lung(34;0.11)				GCTGACTACGGCATTGCTCAG	0.453000													8	130					0	0	0.003080	0	0	
HDAC7	51564	broad.mit.edu	37	12	48191938	48191938	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:48191938C>T	uc009zkv.1	-	3	512	c.297G>A	c.(295-297)GCG>GCA	p.A99A	HDAC7_uc010slo.1_Silent_p.A138A|HDAC7_uc001rqj.3_Silent_p.A138A|HDAC7_uc001rqk.3_Silent_p.A121A			Q8WUI4	HDAC7_HUMAN	Synthetic construct DNA, clone: pF1KB0470, Homo sapiens HDAC7 gene for histone deacetylase 7, without stop codon, in Flexi system.	99	Interaction with MEF2A (By similarity).|Transcription repression 1 (By similarity).				negative regulation of interleukin-2 production|negative regulation of osteoblast differentiation|positive regulation of cell migration involved in sprouting angiogenesis|transcription, DNA-dependent	cytoplasm|histone deacetylase complex	activating transcription factor binding|histone deacetylase activity (H3-K16 specific)|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein kinase C binding|repressing transcription factor binding			lung(1)|breast(1)	2				GBM - Glioblastoma multiforme(48;0.137)		TTTCTAGGGCCGCCTGCTGTT	0.617000													18	370					0	0	0.007413	0	0	
MLL2	8085	broad.mit.edu	37	12	49444339	49444339	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:49444339G>A	uc001rta.3	-	11	3032	c.3032C>T	c.(3031-3033)CCG>CTG	p.P1011L		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	1011	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						GGGAGAAGCCGGCCCCACTGG	0.612000			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			5	57					0	0	0.000602	0	0	
KCNH3	23416	broad.mit.edu	37	12	49943878	49943878	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:49943878C>A	uc001ruh.1	+	10	1944	c.1684C>A	c.(1684-1686)CCT>ACT	p.P562T	KCNH3_uc010smj.1_Missense_Mutation_p.P502T	NM_012284	NP_036416	Q9ULD8	KCNH3_HUMAN	potassium voltage-gated channel, subfamily H	562	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	two-component sensor activity|voltage-gated potassium channel activity				0						GCAGAGCCTCCCTGACGAGCT	0.692000													5	34					1.23904e-05	1.32531e-05	0.000602	1	0	
RACGAP1	29127	broad.mit.edu	37	12	50399110	50399110	+	Silent	SNP	G	A	A	rs149574224		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:50399110G>A	uc001rvt.2	-	6	664	c.354C>T	c.(352-354)AGC>AGT	p.S118S	RACGAP1_uc009zlm.1_Silent_p.S118S|RACGAP1_uc001rvs.2_Silent_p.S118S|RACGAP1_uc001rvu.2_Silent_p.S118S	NM_013277	NP_037409	Q9H0H5	RGAP1_HUMAN	Rac GTPase activating protein 1	118	Interaction with SLC26A8.				blood coagulation|cytokinesis, actomyosin contractile ring assembly|cytokinesis, initiation of separation|embryo development|microtubule-based movement|neuroblast proliferation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|spermatogenesis|sulfate transport	acrosomal vesicle|cytosol|microtubule|midbody|nucleus|spindle	alpha-tubulin binding|beta-tubulin binding|gamma-tubulin binding|GTPase activator activity|metal ion binding			kidney(1)	1						TTTGCTCCTCGCTTAGTTGAA	0.453000													37	66					0	0	0.007835	0	0	
ACVR1B	91	broad.mit.edu	37	12	52374774	52374774	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:52374774G>A	uc001rzn.2	+	4	644	c.602G>A	c.(601-603)CGC>CAC	p.R201H	ACVR1B_uc001rzl.2_Missense_Mutation_p.R201H|ACVR1B_uc001rzm.2_Missense_Mutation_p.R201H|ACVR1B_uc010snn.1_Missense_Mutation_p.R201H	NM_004302	NP_004293	P36896	ACV1B_HUMAN	activin A receptor, type IB isoform a precursor	201	Cytoplasmic (Potential).|GS.				G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|peptidyl-threonine phosphorylation|positive regulation of activin receptor signaling pathway|positive regulation of erythrocyte differentiation|protein autophosphorylation|transmembrane receptor protein serine/threonine kinase signaling pathway	cell surface	activin receptor activity, type I|ATP binding|metal ion binding|SMAD binding|transforming growth factor beta receptor activity|ubiquitin protein ligase binding			pancreas(4)|breast(2)|ovary(1)|lung(1)|kidney(1)	9				BRCA - Breast invasive adenocarcinoma(357;0.104)	Adenosine triphosphate(DB00171)	TTTGTCCAGCGCACAGTGGCC	0.498000											OREG0021829	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	53					0	0	0.001984	0	0	
KRT75	9119	broad.mit.edu	37	12	52826980	52826980	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:52826980C>T	uc001saj.2	-	2	577	c.555G>A	c.(553-555)CAG>CAA	p.Q185Q		NM_004693	NP_004684	O95678	K2C75_HUMAN	keratin 75	185	Linker 1.|Rod.					keratin filament	structural molecule activity				0				BRCA - Breast invasive adenocarcinoma(357;0.192)		AGCCCTGCTCCTGCAGGAGGG	0.567000													11	108					0	0	0.008291	0	0	
GPR84	53831	broad.mit.edu	37	12	54756512	54756512	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:54756512C>T	uc001sfu.2	-	2	1214	c.1124G>A	c.(1123-1125)CGC>CAC	p.R375H		NM_020370	NP_065103	Q9NQS5	GPR84_HUMAN	G protein-coupled receptor 84	375	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			breast(2)	2						GCGGAATTGGCGGTTCATGGC	0.542000													5	356					0	0	0.001168	0	0	
NCKAP1L	3071	broad.mit.edu	37	12	54936413	54936413	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:54936413T>C	uc001sgc.3	+	31	3407	c.3328T>C	c.(3328-3330)TAT>CAT	p.Y1110H	NCKAP1L_uc010sox.1_Missense_Mutation_p.Y652H|NCKAP1L_uc010soy.1_Missense_Mutation_p.Y1060H	NM_005337	NP_005328	P55160	NCKPL_HUMAN	NCK-associated protein 1-like	1110					actin polymerization-dependent cell motility|B cell homeostasis|B cell receptor signaling pathway|cortical actin cytoskeleton organization|erythrocyte development|maintenance of cell polarity|myeloid cell homeostasis|negative regulation of apoptosis|negative regulation of interleukin-17 production|negative regulation of interleukin-6 production|negative regulation of myosin-light-chain-phosphatase activity|neutrophil chemotaxis|positive regulation of actin filament polymerization|positive regulation of B cell differentiation|positive regulation of B cell proliferation|positive regulation of CD4-positive, alpha-beta T cell differentiation|positive regulation of CD8-positive, alpha-beta T cell differentiation|positive regulation of cell adhesion mediated by integrin|positive regulation of erythrocyte differentiation|positive regulation of gamma-delta T cell differentiation|positive regulation of neutrophil chemotaxis|positive regulation of phagocytosis, engulfment|positive regulation of T cell proliferation|protein complex assembly|response to drug|T cell homeostasis	cytosol|integral to plasma membrane|membrane fraction|SCAR complex	protein complex binding|protein kinase activator activity|Rac GTPase activator activity			ovary(3)|central_nervous_system(1)	4						CTGTTTCCCTTATGTCCTGCT	0.532000													33	103					0	0	0.004878	0	0	
OR6C3	254786	broad.mit.edu	37	12	55725984	55725984	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:55725984C>T	uc010spj.1	+	1	500	c.500C>T	c.(499-501)GCT>GTT	p.A167V		NM_054104	NP_473445	Q9NZP0	OR6C3_HUMAN	olfactory receptor, family 6, subfamily C,	167	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						GATTACTGTGCTTCCAACGTC	0.438000													10	249					0	0	0.008291	0	0	
OR6C76	390326	broad.mit.edu	37	12	55820443	55820443	+	Silent	SNP	A	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:55820443A>C	uc010spm.1	+	1	406	c.406A>C	c.(406-408)AGG>CGG	p.R136R		NM_001005183	NP_001005183	A6NM76	O6C76_HUMAN	olfactory receptor, family 6, subfamily C,	136	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CATGAGTGACAGGATCTGTTA	0.453000													9	129					0	0	0.004482	0	0	
MYL6B	140465	broad.mit.edu	37	12	56549214	56549214	+	Missense_Mutation	SNP	C	T	T	rs149424698		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:56549214C>T	uc001sjs.2	+	5	485	c.358C>T	c.(358-360)CGG>TGG	p.R120W	MYL6B_uc009zoo.2_Missense_Mutation_p.R120W|MYL6B_uc001sjt.2_Missense_Mutation_p.R120W|MYL6B_uc001sju.1_Missense_Mutation_p.R120W|MYL6_uc001sjv.2_5'Flank|MYL6_uc001sjw.1_5'Flank|MYL6_uc001sjx.1_5'Flank|MYL6_uc010sqd.1_5'Flank|MYL6_uc001sjz.2_5'Flank	NM_002475	NP_002466	P14649	MYL6B_HUMAN	smooth muscle and non-muscle myosin alkali light	120					muscle filament sliding|skeletal muscle tissue development	cytosol|muscle myosin complex|unconventional myosin complex	calcium ion binding|motor activity|protein binding|structural constituent of muscle				0			OV - Ovarian serous cystadenocarcinoma(18;0.0979)			GCTGAAGTCGCGGCGTGTGGA	0.522000													4	157					0	0	0.009096	0	0	
COQ10A	93058	broad.mit.edu	37	12	56662937	56662937	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:56662937C>T	uc001sko.3	+	3	637	c.376C>T	c.(376-378)CGT>TGT	p.R126C	COQ10A_uc001skp.3_Missense_Mutation_p.R94C|COQ10A_uc001skq.3_Missense_Mutation_p.R109C	NM_144576	NP_653177	Q96MF6	CQ10A_HUMAN	coenzyme Q10 homolog A isoform a	126						mitochondrial inner membrane				ovary(1)	1						GGTATCCAGCCGTAAGGGTCA	0.507000													45	97					0	0	0.013114	0	0	
AVIL	10677	broad.mit.edu	37	12	58204205	58204205	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:58204205G>A	uc001sqj.1	-	6	717	c.688C>T	c.(688-690)CGC>TGC	p.R230C	AVIL_uc009zqe.1_Missense_Mutation_p.R223C|AVIL_uc001sqk.1_5'Flank|AVIL_uc001sql.3_Missense_Mutation_p.R207C	NM_006576	NP_006567	O75366	AVIL_HUMAN	advillin	230	Core (By similarity).				actin filament capping|cilium morphogenesis|cytoskeleton organization|positive regulation of neuron projection development	actin cytoskeleton|axon|cytoplasm	actin binding			central_nervous_system(1)	1	Glioma(12;6.95e-05)|all_neural(12;0.00016)|Melanoma(17;0.122)					ATAATGGAGCGTCGGCCAAGG	0.517000													8	91					0	0	0.003080	0	0	
SRGAP1	57522	broad.mit.edu	37	12	64488720	64488720	+	Silent	SNP	A	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:64488720A>T	uc010ssp.1	+	13	1604	c.1548A>T	c.(1546-1548)GGA>GGT	p.G516G	SRGAP1_uc001srv.2_Silent_p.G453G	NM_020762	NP_065813	Q7Z6B7	SRGP1_HUMAN	SLIT-ROBO Rho GTPase activating protein 1	516	Rho-GAP.				axon guidance	cytosol				ovary(2)|central_nervous_system(2)	4			GBM - Glioblastoma multiforme(3;0.000139)|BRCA - Breast invasive adenocarcinoma(9;0.225)	GBM - Glioblastoma multiforme(28;0.0608)		AGGACTCAGGACAGGTTATTC	0.368000													11	129					0	0	0.001855	0	0	
XPOT	11260	broad.mit.edu	37	12	64812808	64812808	+	Silent	SNP	C	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:64812808C>G	uc001ssb.2	+	6	849	c.423C>G	c.(421-423)CTC>CTG	p.L141L	XPOT_uc009zqm.1_Silent_p.L51L	NM_007235	NP_009166	O43592	XPOT_HUMAN	tRNA exportin	141	Necessary for interaction with Ran, nuclear localization and nuclear import.				intracellular protein transport|tRNA export from nucleus	cytoplasm|nucleoplasm	protein transporter activity|tRNA binding			ovary(2)	2				GBM - Glioblastoma multiforme(28;0.0404)		GAGTAGATCTCTACCTGCGAA	0.398000													8	136					0	0	0.006214	0	0	
GLIPR1L2	144321	broad.mit.edu	37	12	75784952	75784952	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:75784952C>A	uc001sxr.1	+	1	64	c.56C>A	c.(55-57)GCA>GAA	p.A19E	CAPS2_uc001sxm.3_5'Flank|CAPS2_uc009zsa.2_5'Flank|GLIPR1L2_uc001sxp.1_Missense_Mutation_p.A19E|GLIPR1L2_uc001sxq.1_5'UTR	NM_152436	NP_689649	Q4G1C9	GRPL2_HUMAN	GLI pathogenesis-related 1 like 2	19						integral to membrane				ovary(1)	1						CTACCCCTGGCAGTAGGGGGC	0.647000											OREG0021999	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	43					0.000308642	0.000325039	0.003163	1	0	
LIN7A	8825	broad.mit.edu	37	12	81331469	81331469	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:81331469C>T	uc001szj.1	-	1	226	c.33G>A	c.(31-33)ACG>ACA	p.T11T	LIN7A_uc001szk.1_RNA|MIR618_hsa-mir-618|MI0003632_5'Flank	NM_004664	NP_004655	O14910	LIN7A_HUMAN	lin-7 homolog A	11					exocytosis|protein complex assembly|protein transport	basolateral plasma membrane|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	L27 domain binding			ovary(1)|skin(1)	2						CCATGTCTGCCGTGGGAGCCG	0.498000													4	19					0	0	0.009096	0	0	
LRRIQ1	84125	broad.mit.edu	37	12	85626524	85626524	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:85626524T>C	uc001tac.2	+	26	5117	c.5006T>C	c.(5005-5007)GTT>GCT	p.V1669A		NM_001079910	NP_001073379	Q96JM4	LRIQ1_HUMAN	leucine-rich repeats and IQ motif containing 1	1669										ovary(4)|central_nervous_system(1)|skin(1)	6				GBM - Glioblastoma multiforme(134;0.212)		GGTGGAAGAGTTCAGCTTGTG	0.313000													12	36					0	0	0.003163	0	0	
DUSP6	1848	broad.mit.edu	37	12	89743155	89743155	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:89743155A>C	uc001tay.2	-	3	1502	c.1022T>G	c.(1021-1023)CTG>CGG	p.L341R	DUSP6_uc001taz.2_Missense_Mutation_p.L195R	NM_001946	NP_001937	Q16828	DUS6_HUMAN	dual specificity phosphatase 6 isoform a	341	Tyrosine-protein phosphatase.				dorsal/ventral pattern formation|inactivation of MAPK activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of ERK1 and ERK2 cascade|nerve growth factor receptor signaling pathway|positive regulation of apoptosis|regulation of endodermal cell fate specification|regulation of fibroblast growth factor receptor signaling pathway|regulation of heart growth|response to nitrosative stress|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	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity				0						CTCGAAGTCCAGCAGCTGACC	0.478000													6	139					0	0	0.001168	0	0	
ATP2B1	490	broad.mit.edu	37	12	90010761	90010761	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:90010761G>A	uc001tbh.2	-	11	2066	c.1885C>T	c.(1885-1887)CGT>TGT	p.R629C	ATP2B1_uc001tbg.2_Missense_Mutation_p.R629C|ATP2B1_uc001tbf.2_Missense_Mutation_p.R299C	NM_001682	NP_001673	P20020	AT2B1_HUMAN	plasma membrane calcium ATPase 1 isoform 1b	629	Cytoplasmic (Potential).				ATP biosynthetic process|platelet activation	integral to plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3						ATATCATCACGGTCCCTTGGT	0.373000													8	98					0	0	0.004482	0	0	
VEZT	55591	broad.mit.edu	37	12	95656840	95656840	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:95656840G>A	uc001tdz.2	+	4	522	c.417G>A	c.(415-417)CTG>CTA	p.L139L	VEZT_uc009zsy.1_Intron|VEZT_uc001tdr.2_Intron|VEZT_uc001tds.2_Silent_p.L91L|VEZT_uc001tdt.2_Silent_p.L91L|VEZT_uc009zsz.1_Silent_p.L139L|VEZT_uc001tdv.2_Silent_p.L108L|VEZT_uc001tdw.1_Silent_p.L91L|VEZT_uc009zta.1_Silent_p.L91L	NM_017599	NP_060069	Q9HBM0	VEZA_HUMAN	vezatin, adherens junctions transmembrane	139	Helical; (Potential).					acrosomal vesicle|adherens junction|integral to membrane|nucleus				ovary(1)	1						TTTGCTCCCTGGCAACCCCTA	0.448000													73	251					0	0	0.014410	0	0	
APAF1	317	broad.mit.edu	37	12	99061338	99061338	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:99061338G>A	uc001tfz.2	+	10	1987	c.1410G>A	c.(1408-1410)CCG>CCA	p.P470P	APAF1_uc001tfy.2_Silent_p.P459P|APAF1_uc001tga.2_Silent_p.P459P|APAF1_uc001tgb.2_Silent_p.P470P|APAF1_uc001tgc.2_Intron	NM_181861	NP_863651	O14727	APAF_HUMAN	apoptotic peptidase activating factor 1 isoform	470					activation of caspase activity by cytochrome c|defense response|induction of apoptosis by intracellular signals|nervous system development	cytosol|Golgi apparatus|nucleus	ATP binding|caspase activator activity|protein binding			ovary(2)|lung(1)	3					Adenosine triphosphate(DB00171)	ATCACCAGCCGCATACTCTTT	0.413000													5	98					0	0	0.001168	0	0	
GNPTAB	79158	broad.mit.edu	37	12	102164266	102164266	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:102164266C>T	uc001tit.2	-	9	1210	c.1031G>A	c.(1030-1032)CGG>CAG	p.R344Q	GNPTAB_uc001tiu.1_Missense_Mutation_p.R344Q	NM_024312	NP_077288	Q3T906	GNPTA_HUMAN	N-acetylglucosamine-1-phosphate transferase	344					cell differentiation	Golgi membrane|integral to membrane|nucleus	metal ion binding|transcription factor binding|UDP-N-acetylglucosamine-lysosomal-enzyme N-acetylglucosaminephosphotransferase activity			ovary(1)|skin(1)	2						GAAAATATTCCGAACCCATGG	0.453000													8	41					0	0	0.006214	0	0	
C12orf42	374470	broad.mit.edu	37	12	103699764	103699764	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:103699764T>C	uc001tjt.2	-	5	707	c.619A>G	c.(619-621)AAG>GAG	p.K207E	C12orf42_uc001tjs.2_Intron|C12orf42_uc009zuf.1_Missense_Mutation_p.K207E|C12orf42_uc001tju.2_Missense_Mutation_p.K112E	NM_198521	NP_940923	Q96LP6	CL042_HUMAN	hypothetical protein LOC374470	207										ovary(1)|central_nervous_system(1)	2						GAATTTTTCTTGGGACTGCTC	0.418000													7	271					0	0	0.003080	0	0	
STAB2	55576	broad.mit.edu	37	12	104140466	104140466	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:104140466C>T	uc001tjw.2	+	58	6414	c.6228C>T	c.(6226-6228)GAC>GAT	p.D2076D	STAB2_uc009zug.2_RNA	NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	2076	Extracellular (Potential).|EGF-like 15.				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						ATGAAGGTGACGGAATCACAT	0.348000													12	257					0	0	0.010729	0	0	
STAB2	55576	broad.mit.edu	37	12	104155080	104155080	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:104155080G>A	uc001tjw.2	+	66	7437	c.7251G>A	c.(7249-7251)ACG>ACA	p.T2417T	STAB2_uc009zug.2_RNA	NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	2417	Extracellular (Potential).|FAS1 7.				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity	p.T2417M(1)		ovary(9)|skin(5)	14						TTCCCTAGACGGAGACCAGGT	0.512000													31	106					0	0	0.010818	0	0	
APPL2	55198	broad.mit.edu	37	12	105601755	105601755	+	Silent	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:105601755A>G	uc001tlf.1	-	7	686	c.468T>C	c.(466-468)AAT>AAC	p.N156N	APPL2_uc010swt.1_Silent_p.N113N|APPL2_uc001tlg.1_5'UTR|APPL2_uc010swu.1_Silent_p.N162N|APPL2_uc009zuq.2_Silent_p.N113N	NM_018171	NP_060641	Q8NEU8	DP13B_HUMAN	adaptor protein, phosphotyrosine interaction, PH	156	Required for RAB5A binding (By similarity).				cell cycle|cell proliferation|signal transduction	early endosome membrane|nucleus	protein binding			upper_aerodigestive_tract(1)	1						TTACCTTCTCATTCTCCTTTT	0.413000													27	56					0	0	0.007291	0	0	
ACACB	32	broad.mit.edu	37	12	109644517	109644517	+	Silent	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:109644517T>C	uc001tob.2	+	20	3035	c.2916T>C	c.(2914-2916)GCT>GCC	p.A972A	ACACB_uc001toc.2_Silent_p.A972A	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta	972					acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)	CTCATCAGGCTGAACCGTTCA	0.572000													12	245					0	0	0.002450	0	0	
ACACB	32	broad.mit.edu	37	12	109677741	109677741	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:109677741A>C	uc001tob.2	+	35	4888	c.4769A>C	c.(4768-4770)AAC>ACC	p.N1590T	ACACB_uc001toc.2_Missense_Mutation_p.N1590T|ACACB_uc010sxl.1_RNA|ACACB_uc001tod.2_RNA|ACACB_uc010sxm.1_Missense_Mutation_p.N256T	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta	1590					acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)	ACCGACTGCAACCACATCTTC	0.602000													6	95					0	0	0.001984	0	0	
ATXN2	6311	broad.mit.edu	37	12	111923108	111923108	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:111923108T>C	uc001tsj.2	-	18	3127	c.2965A>G	c.(2965-2967)ATG>GTG	p.M989V	ATXN2_uc001tsh.2_Missense_Mutation_p.M724V|ATXN2_uc001tsi.2_Missense_Mutation_p.M700V|ATXN2_uc001tsk.2_Intron|ATXN2_uc001tsg.2_Missense_Mutation_p.M175V	NM_002973	NP_002964	Q99700	ATX2_HUMAN	ataxin 2	989	Pro-rich.				cell death|cytoplasmic mRNA processing body assembly|regulation of translation|RNA metabolic process|RNA transport|stress granule assembly	nucleus|perinuclear region of cytoplasm|polysome|stress granule|trans-Golgi network	protein C-terminus binding|RNA binding			ovary(1)|breast(1)	2						TTCACTGGCATGGGCGTCATA	0.368000													61	137					0	0	0.014410	0	0	
OAS1	4938	broad.mit.edu	37	12	113348918	113348918	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:113348918A>G	uc001tud.2	+	3	638	c.532A>G	c.(532-534)ACC>GCC	p.T178A	OAS1_uc010syn.1_Missense_Mutation_p.T177A|OAS1_uc010syo.1_Missense_Mutation_p.H161R|OAS1_uc001tub.2_Missense_Mutation_p.T178A|OAS1_uc001tuc.2_Missense_Mutation_p.T178A|OAS1_uc009zwf.2_Missense_Mutation_p.T177A	NM_016816	NP_058132	P00973	OAS1_HUMAN	2',5'-oligoadenylate synthetase 1 isoform 1	178					interferon-gamma-mediated signaling pathway|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|type I interferon-mediated signaling pathway	endoplasmic reticulum|microsome|mitochondrion|nucleus	ATP binding|nucleotidyltransferase activity|RNA binding			ovary(2)	2						CGAGGAGTGCACCGACCTGCA	0.527000													8	91					0	0	0.003080	0	0	
RASAL1	8437	broad.mit.edu	37	12	113543607	113543607	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:113543607G>A	uc001tum.1	-	17	2032	c.1739C>T	c.(1738-1740)GCC>GTC	p.A580V	RASAL1_uc010syp.1_Missense_Mutation_p.A581V|RASAL1_uc001tul.2_Missense_Mutation_p.A580V|RASAL1_uc001tun.1_Missense_Mutation_p.A582V|RASAL1_uc010syq.1_Missense_Mutation_p.A581V|RASAL1_uc001tuo.3_Missense_Mutation_p.A581V	NM_004658	NP_004649	O95294	RASL1_HUMAN	RAS protein activator like 1	580	PH.				intracellular signal transduction|negative regulation of Ras protein signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	metal ion binding|phospholipid binding|Ras GTPase activator activity			ovary(2)|skin(2)	4						GGCCAGGCCGGCAGGCTCCTC	0.627000													9	94					0	0	0.006214	0	0	
KSR2	283455	broad.mit.edu	37	12	118105367	118105367	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:118105367G>A	uc001two.2	-	5	1051	c.996C>T	c.(994-996)TCC>TCT	p.S332S		NM_173598	NP_775869	Q6VAB6	KSR2_HUMAN	kinase suppressor of ras 2	361					intracellular signal transduction	cytoplasm|membrane	ATP binding|metal ion binding|protein serine/threonine kinase activity			lung(10)|central_nervous_system(2)|stomach(1)|large_intestine(1)|breast(1)	15	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					GGGAGCGCTCGGACAGCAGCG	0.582000													8	25					0	0	0.003080	0	0	
CIT	11113	broad.mit.edu	37	12	120142226	120142226	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:120142226G>T	uc001txi.1	-	40	5173	c.5120C>A	c.(5119-5121)CCC>CAC	p.P1707H	CIT_uc001txh.1_Missense_Mutation_p.P1226H|CIT_uc001txj.1_Missense_Mutation_p.P1749H	NM_007174	NP_009105	O14578	CTRO_HUMAN	citron	1707	CNH.				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)		GACTTTGCTGGGCATGGCTGC	0.502000													5	95					5.9392e-07	6.46526e-07	0.001168	1	0	
KNTC1	9735	broad.mit.edu	37	12	123082320	123082320	+	Silent	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:123082320T>C	uc001ucv.2	+	44	4561	c.4398T>C	c.(4396-4398)ATT>ATC	p.I1466I	KNTC1_uc010taf.1_Intron	NM_014708	NP_055523	P50748	KNTC1_HUMAN	Rough Deal homolog, centromere/kinetochore	1466					cell division|mitotic cell cycle checkpoint|mitotic prometaphase|protein complex assembly|regulation of exit from mitosis	condensed chromosome kinetochore|cytosol|kinetochore microtubule|nucleus|spindle pole	protein binding			ovary(5)|kidney(3)|lung(1)|central_nervous_system(1)	10	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;7.21e-05)|Epithelial(86;0.000178)|BRCA - Breast invasive adenocarcinoma(302;0.217)		AGCTCTTCATTGAAACGCTGC	0.512000													12	80					0	0	0.013537	0	0	
HIP1R	9026	broad.mit.edu	37	12	123339495	123339495	+	Silent	SNP	C	T	T	rs137994880		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:123339495C>T	uc001udj.1	+	9	821	c.762C>T	c.(760-762)CAC>CAT	p.H254H	HIP1R_uc001udg.1_Silent_p.H242H|HIP1R_uc001udi.1_Silent_p.H254H|HIP1R_uc001udk.1_5'Flank	NM_003959	NP_003950	O75146	HIP1R_HUMAN	huntingtin interacting protein-1-related	254					receptor-mediated endocytosis	clathrin coated vesicle membrane|coated pit|perinuclear region of cytoplasm	actin binding|phosphatidylinositol binding			ovary(1)	1	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;4.6e-05)|Epithelial(86;0.000119)|BRCA - Breast invasive adenocarcinoma(302;0.2)		ACCGGTTCCACGAGCAGTTTC	0.622000													36	114					0	0	0.003755	0	0	
MPHOSPH9	10198	broad.mit.edu	37	12	123648515	123648515	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:123648515G>A	uc001uel.2	-	15	2541	c.2434C>T	c.(2434-2436)CGT>TGT	p.R812C	MPHOSPH9_uc010tal.1_Missense_Mutation_p.R266C|MPHOSPH9_uc010tam.1_RNA|MPHOSPH9_uc001uem.2_Missense_Mutation_p.R266C	NM_022782	NP_073619	Q99550	MPP9_HUMAN	M-phase phosphoprotein 9	812					M phase of mitotic cell cycle	centriole|Golgi membrane					0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000182)|Epithelial(86;0.00046)|BRCA - Breast invasive adenocarcinoma(302;0.169)		CTTGATTTACGATTTGAAGGT	0.398000													5	155					0	0	0.000602	0	0	
DNAH10	196385	broad.mit.edu	37	12	124297909	124297909	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:124297909C>T	uc001uft.3	+	19	3014	c.2989C>T	c.(2989-2991)CGA>TGA	p.R997*	DNAH10_uc010tav.1_Nonsense_Mutation_p.R539*|DNAH10_uc010taw.1_Nonsense_Mutation_p.R482*	NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	997	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		GAAGCGGTATCGACCTCTCTG	0.393000													44	71					0	0	0.009718	0	0	
NCOR2	9612	broad.mit.edu	37	12	124862855	124862855	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:124862855C>T	uc010tba.1	-	18	2212	c.2095G>A	c.(2095-2097)GTG>ATG	p.V699M	NCOR2_uc010tay.1_Missense_Mutation_p.V699M|NCOR2_uc010taz.1_Missense_Mutation_p.V699M|NCOR2_uc010tbb.1_Missense_Mutation_p.V699M|NCOR2_uc010tbc.1_Missense_Mutation_p.V698M|NCOR2_uc001ugj.1_Missense_Mutation_p.V699M	NM_001077261	NP_001070729	Q9Y618	NCOR2_HUMAN	nuclear receptor co-repressor 2 isoform 2	699					cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|regulation of cellular ketone metabolic process by negative regulation of transcription from an RNA polymerase II promoter|transcription, DNA-dependent	nuclear body|nucleus|transcriptional repressor complex	DNA binding|histone deacetylase binding|Notch binding|protein N-terminus binding|transcription corepressor activity			skin(3)|ovary(1)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.163)			Epithelial(86;3.99e-05)|OV - Ovarian serous cystadenocarcinoma(86;9.14e-05)|all cancers(50;0.000402)|BRCA - Breast invasive adenocarcinoma(302;0.0764)		TCCTCCACCACGGGCGGGAAT	0.662000													29	58					0	0	0.005443	0	0	
TMEM132D	121256	broad.mit.edu	37	12	130184785	130184785	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:130184785G>A	uc009zyl.1	-	2	866	c.538C>T	c.(538-540)CGG>TGG	p.R180W		NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	180	Extracellular (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		CAGCTGCCCCGCACCTCTCGG	0.687000													7	40					0	0	0.004482	0	0	
LOC284232	284232	broad.mit.edu	37	13	19414195	19414195	+	RNA	SNP	T	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr13:19414195T>G	uc010tcj.1	-	1		c.31915A>C				NR_027995				Homo sapiens ankyrin repeat domain 20 family, member A2 pseudogene (LOC284232), non-coding RNA.												0						TTGCTTCAACTTCTTTGTTAT	0.303000													6	40					0	0	0.001984	0	0	
N6AMT2	221143	broad.mit.edu	37	13	21303256	21303256	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr13:21303256T>C	uc001uno.1	-	5	689	c.608A>G	c.(607-609)TAT>TGT	p.Y203C	uc001unn.1_5'Flank|N6AMT2_uc009zzr.1_Missense_Mutation_p.Y203C|N6AMT2_uc001unp.2_RNA	NM_174928	NP_777588	Q8WVE0	N6MT2_HUMAN	N-6 adenine-specific DNA methyltransferase 2	203							methyltransferase activity|nucleic acid binding				0		all_cancers(29;5.91e-19)|all_epithelial(30;1.42e-15)|all_lung(29;5.9e-14)|Lung SC(185;0.0367)		all cancers(112;0.000234)|Epithelial(112;0.000471)|OV - Ovarian serous cystadenocarcinoma(117;0.0111)|Lung(94;0.0161)|LUSC - Lung squamous cell carcinoma(192;0.0431)		ATAATTCACATAACAGCGAAA	0.463000													5	291					0	0	0.001168	0	0	
C1QTNF9B	387911	broad.mit.edu	37	13	24465970	24465970	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr13:24465970T>C	uc010tcw.1	-	3	460	c.460A>G	c.(460-462)ATG>GTG	p.M154V	MIPEP_uc001uox.3_5'Flank|PCOTH_uc001uoy.2_Missense_Mutation_p.M75T|PCOTH_uc009zzx.2_Missense_Mutation_p.M84T|C1QTNF9B_uc010tcv.1_Intron|C1QTNF9B_uc001uoz.1_Intron|C1QTNF9B_uc010tcx.1_Missense_Mutation_p.M154V	NM_001007537	NP_001007538	B2RNN3	C1T9B_HUMAN	C1q and tumor necrosis factor related protein 9B	154	Collagen-like 2.					collagen					0						ATAGGGCCCATGGGGCCCGGT	0.632000													12	52					0	0	0.013537	0	0	
MTMR6	9107	broad.mit.edu	37	13	25825905	25825905	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr13:25825905C>A	uc001uqf.3	-	13	1806	c.1487G>T	c.(1486-1488)AGG>ATG	p.R496M	MTMR6_uc001uqe.1_Missense_Mutation_p.R496M	NM_004685	NP_004676	Q9Y217	MTMR6_HUMAN	myotubularin related protein 6	496	Myotubularin phosphatase.					cytoplasm|nuclear envelope	calcium-activated potassium channel activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity			ovary(2)|skin(2)	4		Lung SC(185;0.0225)|Breast(139;0.0351)		all cancers(112;0.00927)|Epithelial(112;0.0474)|OV - Ovarian serous cystadenocarcinoma(117;0.164)		GTACATGTTCCTCCAAAACCT	0.274000													13	60					0.00185496	0.00193035	0.001855	1	0	
ATP8A2	51761	broad.mit.edu	37	13	26043196	26043196	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr13:26043196C>T	uc001uqk.2	+	2	300	c.158C>T	c.(157-159)GCA>GTA	p.A53V	ATP8A2_uc010tdi.1_Missense_Mutation_p.A13V|ATP8A2_uc010tdj.1_RNA|ATP8A2_uc001uql.1_Missense_Mutation_p.A13V	NM_016529	NP_057613	Q9NTI2	AT8A2_HUMAN	ATPase, aminophospholipid transporter-like,	13	Cytoplasmic (Potential).				ATP biosynthetic process|negative regulation of cell proliferation	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|large_intestine(1)|skin(1)	4		Breast(139;0.0201)|Lung SC(185;0.0225)		all cancers(112;0.043)|OV - Ovarian serous cystadenocarcinoma(117;0.0748)|Epithelial(112;0.079)		CAGCTGGAGGCACCCGCCCGC	0.602000													9	57					0	0	0.004482	0	0	
FRY	10129	broad.mit.edu	37	13	32761728	32761728	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr13:32761728G>T	uc001utx.2	+	28	4022	c.3526G>T	c.(3526-3528)GGC>TGC	p.G1176C	FRY_uc010tdw.1_RNA	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	1176					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		TGACAATGTGGGCCTTTCCCC	0.393000													49	71					6.77423e-14	7.73029e-14	0.014410	1	0	
KIAA0564	23078	broad.mit.edu	37	13	42179380	42179380	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr13:42179380G>A	uc001uyj.2	-	40	4980	c.4910C>T	c.(4909-4911)GCT>GTT	p.A1637V		NM_015058	NP_055873	A3KMH1	K0564_HUMAN	hypothetical protein LOC23078 isoform a	1637						extracellular region	ATP binding|ATPase activity			ovary(3)|upper_aerodigestive_tract(1)|kidney(1)|skin(1)	6		Lung NSC(96;4.61e-06)|Prostate(109;0.0167)|Lung SC(185;0.0262)|Breast(139;0.0854)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000368)|GBM - Glioblastoma multiforme(144;0.0033)|BRCA - Breast invasive adenocarcinoma(63;0.0969)		ATAGGTTGCAGCATCGTATTC	0.408000													23	117					0	0	0.003954	0	0	
TSC22D1	8848	broad.mit.edu	37	13	45147869	45147869	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr13:45147869G>T	uc001uzn.3	-	1	2833	c.2342C>A	c.(2341-2343)GCT>GAT	p.A781D	TSC22D1_uc001uzo.1_Intron	NM_183422	NP_904358	Q15714	T22D1_HUMAN	TSC22 domain family, member 1 isoform 1	781	Gln-rich.				transcription from RNA polymerase II promoter	cytoplasm|nucleus	protein binding|sequence-specific DNA binding transcription factor activity				0		all_hematologic(4;8.74e-08)|Acute lymphoblastic leukemia(4;1.78e-07)|Lung NSC(96;2.21e-05)|Breast(139;0.000625)|Prostate(109;0.000947)|Hepatocellular(98;0.0202)|Lung SC(185;0.0262)		GBM - Glioblastoma multiforme(144;0.000522)|BRCA - Breast invasive adenocarcinoma(63;0.118)		AAGGCTTGGAGCACTAGTTTG	0.478000													11	156					5.50884e-06	5.91815e-06	0.013537	1	0	
ZC3H13	23091	broad.mit.edu	37	13	46539429	46539429	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr13:46539429T>G	uc010tfw.1	-	15	4463	c.4457A>C	c.(4456-4458)GAG>GCG	p.E1486A	ZC3H13_uc001vaq.2_Missense_Mutation_p.E71A|ZC3H13_uc001vas.1_Missense_Mutation_p.E1487A	NM_015070	NP_055885	Q5T200	ZC3HD_HUMAN	zinc finger CCCH-type containing 13	1486							nucleic acid binding|zinc ion binding			ovary(1)|lung(1)	2		Lung NSC(96;7.26e-05)|Breast(56;0.000118)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;4.18e-05)		CATCTTCTCCTCATCCTGTTG	0.393000													9	272					0	0	0.010729	0	0	
CDADC1	81602	broad.mit.edu	37	13	49865876	49865876	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr13:49865876C>T	uc001vcu.2	+	10	1604	c.1528C>T	c.(1528-1530)CGC>TGC	p.R510C	CDADC1_uc010tgk.1_Missense_Mutation_p.R312C|CDADC1_uc001vcv.2_RNA	NM_030911	NP_112173	Q9BWV3	CDAC1_HUMAN	cytidine and dCMP deaminase domain containing 1	510							hydrolase activity|zinc ion binding	p.R510H(1)		upper_aerodigestive_tract(1)	1		Lung NSC(96;0.000705)|Breast(56;0.0011)|Prostate(109;0.00446)|Hepatocellular(98;0.0556)|Glioma(44;0.236)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;1.06e-08)|COAD - Colon adenocarcinoma(199;0.216)		CAAGAAGCTGCGCCTCGGAAT	0.458000													24	120					0	0	0.004656	0	0	
LOC220429	220429	broad.mit.edu	37	13	50467031	50467031	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr13:50467031T>C	uc001vdk.2	+	1	2487	c.2305T>C	c.(2305-2307)TCC>CCC	p.S769P		NR_003268				Homo sapiens CTAGE family, member 5 pseudogene, mRNA (cDNA clone IMAGE:5270026).												0						ACCTGGATTTTCCCCCCCTAC	0.522000													4	72					0	0	0.009096	0	0	
PCDH8	5100	broad.mit.edu	37	13	53420276	53420276	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr13:53420276C>T	uc001vhi.2	-	1	2499	c.2296G>A	c.(2296-2298)GCC>ACC	p.A766T	PCDH8_uc001vhj.2_Missense_Mutation_p.A766T	NM_002590	NP_002581	O95206	PCDH8_HUMAN	protocadherin 8 isoform 1 precursor	766	Helical; (Potential).				cell-cell signaling|homophilic cell adhesion	cell junction|dendrite|integral to plasma membrane|postsynaptic membrane|presynaptic membrane	calcium ion binding			breast(1)	1		Lung NSC(96;0.0019)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.19e-08)		GCGATGATGGCGGCCAGCAGC	0.607000													25	99					0	0	0.006320	0	0	
TBC1D4	9882	broad.mit.edu	37	13	75898529	75898529	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr13:75898529G>A	uc001vjl.1	-	11	2389	c.2042C>T	c.(2041-2043)TCG>TTG	p.S681L	TBC1D4_uc010aer.2_Missense_Mutation_p.S681L|TBC1D4_uc010aes.2_Intron	NM_014832	NP_055647	O60343	TBCD4_HUMAN	TBC1 domain family, member 4	681	Ser-rich.					cytoplasm	Rab GTPase activator activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Prostate(6;0.014)|Breast(118;0.0982)		GBM - Glioblastoma multiforme(99;0.0116)		TCGAACTGACGAAAGATTGCT	0.393000													12	32					0	0	0.010729	0	0	
LMO7	4008	broad.mit.edu	37	13	76382165	76382165	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr13:76382165G>A	uc001vjv.2	+	7	1807	c.1047G>A	c.(1045-1047)CGG>CGA	p.R349R	LMO7_uc010thv.1_Intron|LMO7_uc001vjt.1_Intron|LMO7_uc010thw.1_Intron|LMO7_uc001vjw.1_Silent_p.R255R	NM_015842	NP_056667	Q8WWI1	LMO7_HUMAN	LIM domain only 7 isoform 2	634						cytoplasm|nucleus|ubiquitin ligase complex	ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)|ovary(1)|prostate(1)|skin(1)	5		Breast(118;0.0992)		GBM - Glioblastoma multiforme(99;0.0109)		CTTCATATCGGCAGAAGAAAG	0.448000													16	61					0	0	0.003163	0	0	
MYCBP2	23077	broad.mit.edu	37	13	77732134	77732134	+	Silent	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr13:77732134T>C	uc001vkf.2	-	46	6685	c.6594A>G	c.(6592-6594)GAA>GAG	p.E2198E	MYCBP2_uc010aev.2_Silent_p.E1602E	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	2198					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		GAAAAGACTGTTCATTGCTTT	0.393000													12	67					0	0	0.001855	0	0	
EDNRB	1910	broad.mit.edu	37	13	78492668	78492668	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr13:78492668G>A	uc001vko.2	-	1	299	c.41C>T	c.(40-42)GCG>GTG	p.A14V	uc001vks.2_5'Flank|EDNRB_uc001vkq.1_Missense_Mutation_p.A14V|EDNRB_uc010aez.1_Missense_Mutation_p.A14V|EDNRB_uc001vkp.1_Missense_Mutation_p.A97V|EDNRB_uc010afa.1_Missense_Mutation_p.A14V	NM_001122659	NP_001116131	P24530	EDNRB_HUMAN	endothelin receptor type B isoform 1 precursor	14					activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|enteric nervous system development|enteric smooth muscle cell differentiation|macrophage chemotaxis|negative regulation of adenylate cyclase activity|negative regulation of cellular protein metabolic process|negative regulation of neuron maturation|negative regulation of transcription from RNA polymerase II promoter|vein smooth muscle contraction	integral to plasma membrane	endothelin-B receptor activity|peptide hormone binding				0		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0933)	Bosentan(DB00559)	AAGAACCAGCGCAACCAGGGC	0.637000											OREG0022452	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	18	47					0	0	0.006122	0	0	
SLITRK5	26050	broad.mit.edu	37	13	88329399	88329399	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr13:88329399C>A	uc001vln.2	+	2	1975	c.1756C>A	c.(1756-1758)CTA>ATA	p.L586I	SLITRK5_uc010tic.1_Missense_Mutation_p.L345I	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	586	LRRCT 2.|Extracellular (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					AGTGGGCGTCCTAGTGGACGA	0.517000													47	195					1.30409e-13	1.48676e-13	0.014410	1	0	
STK24	8428	broad.mit.edu	37	13	99118674	99118674	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr13:99118674G>T	uc001vnm.1	-	6	1010	c.775C>A	c.(775-777)CTC>ATC	p.L259I	STK24_uc001vnn.1_Missense_Mutation_p.L247I|STK24_uc010tim.1_Missense_Mutation_p.L228I	NM_003576	NP_003567	Q9Y6E0	STK24_HUMAN	serine/threonine kinase 24 isoform a	259	Protein kinase.				cellular component disassembly involved in apoptosis|signal transduction	cytosol|nucleoplasm	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(1)|lung(1)	2	all_neural(89;0.0982)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.233)			AACTCCTTGAGGGGTTTACTG	0.493000													10	64					1.58986e-06	1.72457e-06	0.008291	1	0	
OR11H4	390442	broad.mit.edu	37	14	20711372	20711372	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr14:20711372A>G	uc010tld.1	+	1	422	c.422A>G	c.(421-423)CAG>CGG	p.Q141R		NM_001004479	NP_001004479	Q8NGC9	O11H4_HUMAN	olfactory receptor, family 11, subfamily H,	141	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_cancers(95;0.000888)		Epithelial(56;1.75e-06)|all cancers(55;1.22e-05)	GBM - Glioblastoma multiforme(265;0.0146)		CACCCACTGCAGTACCCTGCC	0.453000													23	122					0	0	0.014323	0	0	
METT11D1	64745	broad.mit.edu	37	14	21460309	21460309	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr14:21460309C>T	uc001vyn.2	+	4	588	c.391C>T	c.(391-393)CGT>TGT	p.R131C	METT11D1_uc010tlk.1_Silent_p.F141F|METT11D1_uc001vym.2_Missense_Mutation_p.R131C|METT11D1_uc001vyo.2_Missense_Mutation_p.R131C|METT11D1_uc001vyp.2_5'UTR|METT11D1_uc001vyq.2_5'UTR	NM_022734	NP_073571	Q9H7H0	MET17_HUMAN	methyltransferase 11 domain containing 1 isoform	131					translation	mitochondrion|ribosome	copper ion binding|methyltransferase activity				0	all_cancers(95;0.00267)		OV - Ovarian serous cystadenocarcinoma(11;1.34e-10)|Epithelial(56;1.57e-08)|all cancers(55;7.45e-08)	GBM - Glioblastoma multiforme(265;0.0191)		GGAGAAACTTCGTGGAGCAGT	0.483000													46	153					0	0	0.014410	0	0	
PCK2	5106	broad.mit.edu	37	14	24568857	24568857	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr14:24568857C>T	uc001wlt.2	+	6	1075	c.943C>T	c.(943-945)CGG>TGG	p.R315W	NRL_uc001wlq.2_Intron|PCK2_uc001wlr.1_Missense_Mutation_p.R327W|PCK2_uc001wls.2_Missense_Mutation_p.R315W|PCK2_uc010tnw.1_Missense_Mutation_p.R181W|PCK2_uc010ald.2_Missense_Mutation_p.R167W|PCK2_uc010ale.2_3'UTR|PCK2_uc010tnx.1_Missense_Mutation_p.R181W|PCK2_uc001wlu.3_Missense_Mutation_p.R181W	NM_004563	NP_004554	Q16822	PCKGM_HUMAN	mitochondrial phosphoenolpyruvate carboxykinase	315					gluconeogenesis	mitochondrial matrix	GTP binding|metal ion binding|phosphoenolpyruvate carboxykinase (GTP) activity			ovary(1)	1				GBM - Glioblastoma multiforme(265;0.0184)		GGCTATGATGCGGCCTGCACT	0.562000													6	121					0	0	0.001168	0	0	
TM9SF1	10548	broad.mit.edu	37	14	24663934	24663934	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr14:24663934G>A	uc001wnb.1	-	2	640	c.292C>T	c.(292-294)CGG>TGG	p.R98W	TM9SF1_uc010toa.1_Missense_Mutation_p.R11W|TM9SF1_uc001wna.1_RNA|TM9SF1_uc010tob.1_Missense_Mutation_p.R333W|TM9SF1_uc001wnc.2_Missense_Mutation_p.R98W|TM9SF1_uc001wnd.2_5'Flank	NM_006405	NP_006396	O15321	TM9S1_HUMAN	transmembrane 9 superfamily member 1 isoform a	98					autophagy	autophagic vacuole membrane|cytoplasmic vesicle|integral to membrane|lysosomal membrane				ovary(1)	1				GBM - Glioblastoma multiforme(265;0.0183)		ACGTTTTCCCGAAAGCGGATC	0.532000													25	385					0	0	0.005443	0	0	
GZMH	2999	broad.mit.edu	37	14	25078817	25078817	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr14:25078817C>A	uc001wpr.1	-	1	48	c.3G>T	c.(1-3)ATG>ATT	p.M1I	GZMH_uc010aly.1_Missense_Mutation_p.M1I|GZMH_uc010alz.1_Missense_Mutation_p.M1I	NM_033423	NP_219491	P20718	GRAH_HUMAN	granzyme H precursor	1					apoptosis|cytolysis|proteolysis	cytoplasm	serine-type endopeptidase activity			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(265;0.0267)		GGAATGGCTGCATTTTCTCAG	0.512000													28	85					2.14196e-07	2.34832e-07	0.007291	1	0	
NPAS3	64067	broad.mit.edu	37	14	34029327	34029327	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr14:34029327T>C	uc001wru.2	+	5	533	c.469T>C	c.(469-471)TCC>CCC	p.S157P	NPAS3_uc001wrs.2_Missense_Mutation_p.S144P|NPAS3_uc001wrt.2_Missense_Mutation_p.S125P|NPAS3_uc001wrv.2_Missense_Mutation_p.S127P|NPAS3_uc001wrw.2_Missense_Mutation_p.S55P	NM_173159	NP_071406	Q8IXF0	NPAS3_HUMAN	neuronal PAS domain protein 3 isoform 3	157	PAS 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			ovary(1)|skin(1)	2	Breast(36;0.0102)|Hepatocellular(127;0.133)		LUAD - Lung adenocarcinoma(48;0.00169)|Lung(238;0.00968)	GBM - Glioblastoma multiforme(1;1.31e-09)|all cancers(1;0.000112)|OV - Ovarian serous cystadenocarcinoma(311;0.115)		TTTCCTGCAGTCCCTGGATGG	0.313000													5	31					0	0	0.001168	0	0	
PSMC6	5706	broad.mit.edu	37	14	53194224	53194224	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr14:53194224C>T	uc010tqx.1	+	14	1101	c.1101C>T	c.(1099-1101)TTC>TTT	p.F367F	STYX_uc010tqy.1_5'Flank|STYX_uc001xaa.2_5'Flank|PSMC6_uc001wzy.2_RNA	NM_002806	NP_002797	P62333	PRS10_HUMAN	proteasome 26S ATPase subunit 6	353					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome complex	ATP binding|ATPase activity|protein binding, bridging			lung(1)	1	Breast(41;0.176)					CAGGTATGTTCGCAATTCGTG	0.323000													8	28					0	0	0.008291	0	0	
WDHD1	11169	broad.mit.edu	37	14	55477052	55477052	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr14:55477052C>T	uc001xbm.1	-	4	394	c.316G>A	c.(316-318)GGT>AGT	p.G106S	WDHD1_uc001xbn.1_5'UTR	NM_007086	NP_009017	O75717	WDHD1_HUMAN	WD repeat and HMG-box DNA binding protein 1	106	WD 3.					cytoplasm|nucleoplasm	DNA binding			skin(1)	1						ATTTTAGTACCATCCCCATTA	0.373000													35	85					0	0	0.006999	0	0	
ARG2	384	broad.mit.edu	37	14	68086712	68086712	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr14:68086712C>T	uc001xjs.2	+	1	134	c.18C>T	c.(16-18)AGC>AGT	p.S6S		NM_001172	NP_001163	P78540	ARGI2_HUMAN	arginase 2 precursor	6					arginine metabolic process|nitric oxide biosynthetic process|urea cycle	mitochondrial matrix	arginase activity|metal ion binding				0				all cancers(60;0.000582)|OV - Ovarian serous cystadenocarcinoma(108;0.00392)|BRCA - Breast invasive adenocarcinoma(234;0.00928)	L-Arginine(DB00125)|L-Ornithine(DB00129)	TAAGGGGCAGCCTCTCGCGTC	0.627000													4	17					0	0	0.009096	0	0	
RDH11	51109	broad.mit.edu	37	14	68159192	68159192	+	Silent	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr14:68159192A>G	uc001xjv.3	-	3	402	c.312T>C	c.(310-312)ACT>ACC	p.T104T	RDH11_uc001xjw.3_Silent_p.T91T|RDH11_uc001xjx.3_Silent_p.T104T	NM_016026	NP_057110	Q8TC12	RDH11_HUMAN	retinol dehydrogenase 11	104	Cytoplasmic (Potential).				retinol metabolic process|steroid metabolic process	endoplasmic reticulum membrane|integral to membrane	binding|NADP-retinol dehydrogenase activity|retinol dehydrogenase activity			ovary(1)	1				all cancers(60;0.00047)|OV - Ovarian serous cystadenocarcinoma(108;0.00206)|BRCA - Breast invasive adenocarcinoma(234;0.00924)	Vitamin A(DB00162)	GAATAGACTTAGTATCAGACA	0.448000													31	181					0	0	0.010818	0	0	
ADAM20	8748	broad.mit.edu	37	14	70990275	70990275	+	Silent	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr14:70990275A>G	uc001xme.2	-	2	1595	c.1350T>C	c.(1348-1350)TAT>TAC	p.Y450Y		NM_003814	NP_003805	O43506	ADA20_HUMAN	ADAM metallopeptidase domain 20 preproprotein	400	Peptidase M12B.|Extracellular (Potential).				proteolysis|single fertilization	integral to membrane	metalloendopeptidase activity|zinc ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(12;0.133)|Kidney(31;0.188)	all cancers(60;0.00294)|BRCA - Breast invasive adenocarcinoma(234;0.00668)|OV - Ovarian serous cystadenocarcinoma(108;0.0344)		TATTCCCTGGATATGGAGGCG	0.423000													35	103					0	0	0.003271	0	0	
SIPA1L1	26037	broad.mit.edu	37	14	72171482	72171482	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr14:72171482G>A	uc001xms.2	+	13	4039	c.3691G>A	c.(3691-3693)GAG>AAG	p.E1231K	SIPA1L1_uc001xmt.2_Intron|SIPA1L1_uc001xmu.2_Intron|SIPA1L1_uc001xmv.2_Missense_Mutation_p.E1231K|SIPA1L1_uc010ttm.1_Intron|SIPA1L1_uc001xmw.2_Intron	NM_015556	NP_056371	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like	1231					actin cytoskeleton reorganization|activation of Rap GTPase activity|regulation of dendritic spine morphogenesis	cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane|synaptosome	GTPase activator activity			ovary(3)|breast(1)	4				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)		TTTTGTCCTCGAGCAGCATGA	0.388000													7	21					0	0	0.003080	0	0	
FOXN3	1112	broad.mit.edu	37	14	89747303	89747303	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr14:89747303G>T	uc001xxo.3	-	4	873	c.736C>A	c.(736-738)CTT>ATT	p.L246I	FOXN3_uc001xxn.3_Missense_Mutation_p.L246I|FOXN3_uc010atk.2_Missense_Mutation_p.L246I	NM_001085471	NP_001078940	O00409	FOXN3_HUMAN	checkpoint suppressor 1 isoform 1	246					DNA damage checkpoint|embryo development|G2 phase of mitotic cell cycle|negative regulation of transcription, DNA-dependent|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein C-terminus 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			skin(2)|ovary(1)	3						CCTTGGAGAAGGGCTCCATTT	0.517000													9	23					1.76689e-08	1.95456e-08	0.006214	1	0	
C14orf102	55051	broad.mit.edu	37	14	90755357	90755357	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr14:90755357G>A	uc001xyi.1	-	11	2393	c.2362C>T	c.(2362-2364)CAT>TAT	p.H788Y	C14orf102_uc010atp.1_Missense_Mutation_p.H293Y|C14orf102_uc001xyj.1_Missense_Mutation_p.H557Y|C14orf102_uc001xyk.1_5'UTR	NM_017970	NP_060440	Q9H7Z3	CN102_HUMAN	hypothetical protein LOC55051 isoform 1	788	HAT 3.						protein binding			ovary(2)|lung(1)	3		all_cancers(154;0.118)		COAD - Colon adenocarcinoma(157;0.218)		CACTCCAGATGTGCATACTGC	0.463000													76	236					0	0	0.014410	0	0	
C14orf102	55051	broad.mit.edu	37	14	90767681	90767681	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr14:90767681C>T	uc001xyi.1	-	7	1478	c.1447G>A	c.(1447-1449)GCT>ACT	p.A483T	C14orf102_uc010atp.1_5'UTR|C14orf102_uc001xyj.1_Missense_Mutation_p.A252T	NM_017970	NP_060440	Q9H7Z3	CN102_HUMAN	hypothetical protein LOC55051 isoform 1	483							protein binding			ovary(2)|lung(1)	3		all_cancers(154;0.118)		COAD - Colon adenocarcinoma(157;0.218)		GAGTGGCCAGCCTGCCGCAGA	0.522000													4	49					0	0	0.000602	0	0	
CLMN	79789	broad.mit.edu	37	14	95786119	95786119	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr14:95786119T>C	uc001yef.2	-	1	127	c.11A>G	c.(10-12)CAC>CGC	p.H4R		NM_024734	NP_079010	Q96JQ2	CLMN_HUMAN	calmin	4	Actin-binding.|CH 1.					integral to membrane	actin binding				0				Epithelial(152;0.193)		GTCCCACTCGTGTGCAGCCAT	0.448000													7	41					0	0	0.004482	0	0	
ATG2B	55102	broad.mit.edu	37	14	96800759	96800759	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr14:96800759G>A	uc001yfi.2	-	7	1369	c.1004C>T	c.(1003-1005)GCA>GTA	p.A335V		NM_018036	NP_060506	Q96BY7	ATG2B_HUMAN	ATG2 autophagy related 2 homolog B	335										ovary(1)|kidney(1)|skin(1)	3		all_cancers(154;0.0462)|all_epithelial(191;0.123)|Melanoma(154;0.155)		Epithelial(152;0.21)|COAD - Colon adenocarcinoma(157;0.244)		AGCAATAGCTGCCAACATATC	0.308000													4	48					0	0	0.000602	0	0	
WDR25	79446	broad.mit.edu	37	14	100934422	100934422	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr14:100934422G>T	uc010avx.2	+	3	980	c.887G>T	c.(886-888)CGG>CTG	p.R296L	WDR25_uc001yhm.2_Missense_Mutation_p.R288L|WDR25_uc001yhn.2_Missense_Mutation_p.R296L|WDR25_uc010avy.2_Intron|WDR25_uc001yho.2_Missense_Mutation_p.R39L	NM_001161476	NP_001154948	Q64LD2	WDR25_HUMAN	WD repeat domain 25	296	WD 2.										0		Melanoma(154;0.212)				GAGGCAGTGCGGGCCGCCCGG	0.617000													46	141					8.20599e-20	9.5143e-20	0.011902	1	0	
DYNC1H1	1778	broad.mit.edu	37	14	102505979	102505979	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr14:102505979C>T	uc001yks.2	+	62	11764	c.11600C>T	c.(11599-11601)GCG>GTG	p.A3867V		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	3867					cytoplasmic mRNA processing body assembly|G2/M transition of mitotic cell cycle|microtubule-based movement|mitotic spindle organization|stress granule assembly|transport	centrosome|cytoplasmic dynein complex|cytosol|Golgi apparatus|microtubule	ATP binding|ATPase activity, coupled|microtubule motor activity|protein binding			ovary(7)|central_nervous_system(2)|pancreas(1)	10						TCCCAGGTGGCGTTTAACCGA	0.577000													6	169					0	0	0.001168	0	0	
RCOR1	23186	broad.mit.edu	37	14	103174857	103174857	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr14:103174857C>T	uc001ymb.2	+	6	707	c.707C>T	c.(706-708)ACG>ATG	p.T236M		NM_015156	NP_055971	Q9UKL0	RCOR1_HUMAN	REST corepressor 1	236	Interaction with HDAC1.|SANT 1.				blood coagulation|histone H4 deacetylation|interspecies interaction between organisms	transcriptional repressor complex	protein binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|transcription regulatory region DNA binding			ovary(1)	1						TGGAAGAAGACGAGGACTAAA	0.403000													30	230					0	0	0.013726	0	0	
GPR132	29933	broad.mit.edu	37	14	105517586	105517586	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr14:105517586C>T	uc001yqd.2	-	4	1787	c.888G>A	c.(886-888)CTG>CTA	p.L296L	GPR132_uc001yqc.2_Silent_p.L108L|GPR132_uc001yqe.2_Silent_p.L287L	NM_013345	NP_037477	Q9UNW8	GP132_HUMAN	G protein-coupled receptor 132	296	Helical; Name=7; (Potential).				response to stress	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(2)|central_nervous_system(1)	3		all_cancers(154;0.0953)|Melanoma(154;0.155)|all_epithelial(191;0.219)	OV - Ovarian serous cystadenocarcinoma(23;0.00778)|all cancers(16;0.00936)|Epithelial(46;0.0227)	Epithelial(152;0.02)|all cancers(159;0.0419)|OV - Ovarian serous cystadenocarcinoma(161;0.0521)		TCACCGTGGACAGGCACAGAA	0.562000													5	55					0	0	0.000602	0	0	
PACS2	23241	broad.mit.edu	37	14	105849215	105849215	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr14:105849215G>A	uc001yqt.2	+	15	1753	c.1578G>A	c.(1576-1578)GCG>GCA	p.A526A	PACS2_uc001yqs.2_Silent_p.A451A|PACS2_uc001yqv.2_Silent_p.A530A|PACS2_uc001yqu.2_Silent_p.A530A	NM_015197	NP_056012	Q86VP3	PACS2_HUMAN	phosphofurin acidic cluster sorting protein 2	526					apoptosis|interspecies interaction between organisms	endoplasmic reticulum lumen|mitochondrion				pancreas(1)	1		all_cancers(154;0.0351)|all_epithelial(191;0.153)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.0145)|Epithelial(46;0.036)	Epithelial(152;0.138)		ACGTCCAGGCGGCCTTCAGCA	0.632000													6	23					0	0	0.003080	0	0	
ADAM6	8755	broad.mit.edu	37	14	106833382	106833382	+	Splice_Site	SNP	A	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr14:106833382A>C	uc010tyt.1	-	321		c.12468_splice	c.e321-1		uc001ysx.1_RNA					Parts of antibodies, mostly variable regions.												0						ATGATCCATCACATCCACTCA	0.502000													4	35					0	0	0.003080	0	0	
Unknown	0	broad.mit.edu	37	15	20649514	20649514	+	Silent	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:20649514G>T	uc001ytg.2	-	18	2704	c.1995C>A	c.(1993-1995)CCC>CCA	p.P665P	uc010tyx.1_RNA|uc001yth.3_Silent_p.P665P|uc010tyy.1_Silent_p.P665P					RecName: Full=Putative HERC2-like protein 3;																		CCTCTGCTGAGGGCTGTGCAG	0.567000													23	199					3.99451e-17	4.59238e-17	0.009535	1	0	
GOLGA8DP	100132979	broad.mit.edu	37	15	22709152	22709152	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:22709152G>T	uc010axw.2	-	11	1245	c.347C>A	c.(346-348)GCG>GAG	p.A116E	GOLGA8DP_uc010axx.2_Missense_Mutation_p.A116E|uc010tzw.1_5'Flank	NM_001012423	NP_001012423			golgi autoantigen, golgin subfamily a, 8E												0						GGCCTGGAGCGCTCCTGCCAC	0.607000													5	101					0.000602214	0.000629355	0.000602	1	0	
MKRN3	7681	broad.mit.edu	37	15	23811706	23811706	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:23811706G>A	uc001ywh.3	+	1	1253	c.777G>A	c.(775-777)ATG>ATA	p.M259I	MKRN3_uc001ywi.2_Intron|MKRN3_uc010ayi.1_Missense_Mutation_p.M259I	NM_005664	NP_005655	Q13064	MKRN3_HUMAN	makorin ring finger protein 3	259	C3H1-type 2.					ribonucleoprotein complex	ligase activity|nucleic acid binding|zinc ion binding			lung(6)|large_intestine(2)|ovary(2)	10		all_cancers(20;8.44e-25)|all_epithelial(15;3.69e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000353)|Colorectal(260;0.14)		all cancers(64;3.02e-06)|Epithelial(43;1.94e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0012)		AGAGCTGTATGTACCTCCATG	0.542000													18	69					0	0	0.012319	0	0	
MKRN3	7681	broad.mit.edu	37	15	23812005	23812005	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:23812005A>C	uc001ywh.3	+	1	1552	c.1076A>C	c.(1075-1077)AAG>ACG	p.K359T	MKRN3_uc001ywi.2_Intron|MKRN3_uc010ayi.1_Missense_Mutation_p.K359T	NM_005664	NP_005655	Q13064	MKRN3_HUMAN	makorin ring finger protein 3	359	RING-type.					ribonucleoprotein complex	ligase activity|nucleic acid binding|zinc ion binding			lung(6)|large_intestine(2)|ovary(2)	10		all_cancers(20;8.44e-25)|all_epithelial(15;3.69e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000353)|Colorectal(260;0.14)		all cancers(64;3.02e-06)|Epithelial(43;1.94e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0012)		AGGATCGTCAAGTCTTGCCCA	0.493000													12	92					0	0	0.013537	0	0	
C15orf2	23742	broad.mit.edu	37	15	24921372	24921372	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:24921372A>G	uc001ywo.2	+	1	832	c.358A>G	c.(358-360)AGC>GGC	p.S120G		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	120					cell differentiation|multicellular organismal development|spermatogenesis					ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)		CCCTCCTCCCAGCCGCATGTT	0.652000													6	78					0	0	0.001168	0	0	
C15orf2	23742	broad.mit.edu	37	15	24922571	24922571	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:24922571G>C	uc001ywo.2	+	1	2031	c.1557G>C	c.(1555-1557)ATG>ATC	p.M519I		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	519	Pro-rich.				cell differentiation|multicellular organismal development|spermatogenesis					ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)		CAATATCTATGTGTGTGGATT	0.557000													35	237					0	0	0.004289	0	0	
C15orf2	23742	broad.mit.edu	37	15	24922914	24922914	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:24922914A>T	uc001ywo.2	+	1	2374	c.1900A>T	c.(1900-1902)AGT>TGT	p.S634C		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	634					cell differentiation|multicellular organismal development|spermatogenesis					ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)		TACCACCCCAAGTTTTAACCA	0.493000													29	117					0	0	0.006320	0	0	
TJP1	7082	broad.mit.edu	37	15	30010323	30010323	+	Splice_Site	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:30010323C>A	uc001zcr.2	-	22	4352	c.3877_splice	c.e22-1	p.P1293_splice	TJP1_uc010azl.2_Splice_Site_p.P1281_splice|TJP1_uc001zcq.2_Splice_Site_p.P1217_splice|TJP1_uc001zcs.2_Splice_Site_p.P1213_splice	NM_003257	NP_003248	Q07157	ZO1_HUMAN	tight junction protein 1 isoform a						cell-cell junction assembly|cellular component disassembly involved in apoptosis	basolateral plasma membrane|cell-cell adherens junction|Golgi apparatus|tight junction				ovary(4)|central_nervous_system(1)|pancreas(1)	6		all_lung(180;7.48e-11)|Breast(32;0.000153)		all cancers(64;3.29e-10)|Epithelial(43;5.34e-09)|BRCA - Breast invasive adenocarcinoma(123;0.0034)|GBM - Glioblastoma multiforme(186;0.0139)|Lung(196;0.186)		CTTCTGGAGGCTGTTTaaaaa	0.388000													32	115					1.99505e-19	2.31095e-19	0.012213	1	0	
CHRNA7	1139	broad.mit.edu	37	15	32460281	32460281	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:32460281G>A	uc001zft.2	+	10	1203	c.1131G>A	c.(1129-1131)CCG>CCA	p.P377P	uc001zfv.1_Intron|CHRNA7_uc010baf.2_Silent_p.P196P|CHRNA7_uc010bak.2_Silent_p.P292P	NM_000746	NP_000737	P36544	ACHA7_HUMAN	cholinergic receptor, nicotinic, alpha 7	377	Cytoplasmic (Potential).				activation of MAPK activity|calcium ion transport|cellular calcium ion homeostasis|memory|negative regulation of tumor necrosis factor production|positive regulation of angiogenesis|positive regulation of cell proliferation|response to hypoxia|response to nicotine	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|beta-amyloid binding|chloride channel regulator activity|nicotinic acetylcholine-activated cation-selective channel activity|protein homodimerization activity|toxin binding			ovary(1)	1		all_lung(180;6.35e-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)	Nicotine(DB00184)|Varenicline(DB01273)	TGGCGCCGCCGCCCGCCAGCA	0.706000													15	81					0	0	0.004990	0	0	
IVD	3712	broad.mit.edu	37	15	40707611	40707611	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:40707611C>T	uc001zls.3	+	9	1233	c.899C>T	c.(898-900)GCG>GTG	p.A300V	IVD_uc001zlq.2_Missense_Mutation_p.A270V|IVD_uc001zlr.2_Missense_Mutation_p.A3V	NM_002225	NP_002216	P26440	IVD_HUMAN	isovaleryl Coenzyme A dehydrogenase isoform 1	297					leucine catabolic process	mitochondrial matrix	flavin adenine dinucleotide binding|isovaleryl-CoA dehydrogenase activity			ovary(1)	1		all_cancers(109;1.19e-18)|all_epithelial(112;1.52e-15)|Lung NSC(122;5.14e-11)|all_lung(180;1.27e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;3.65e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0808)		CTCATGCAAGCGGTCCTGGAC	0.587000													4	39					0	0	0.009096	0	0	
IVD	3712	broad.mit.edu	37	15	40708545	40708545	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:40708545C>T	uc001zls.3	+	11	1465	c.1131C>T	c.(1129-1131)GAC>GAT	p.D377D	IVD_uc001zlq.2_Silent_p.D347D|IVD_uc001zlr.2_Silent_p.D80D	NM_002225	NP_002216	P26440	IVD_HUMAN	isovaleryl Coenzyme A dehydrogenase isoform 1	374					leucine catabolic process	mitochondrial matrix	flavin adenine dinucleotide binding|isovaleryl-CoA dehydrogenase activity			ovary(1)	1		all_cancers(109;1.19e-18)|all_epithelial(112;1.52e-15)|Lung NSC(122;5.14e-11)|all_lung(180;1.27e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;3.65e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0808)		TAGCCCTGGACGGCATTCAGT	0.572000													8	48					0	0	0.004482	0	0	
VPS18	57617	broad.mit.edu	37	15	41192156	41192156	+	Silent	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:41192156C>A	uc001zne.2	+	4	1479	c.1140C>A	c.(1138-1140)GCC>GCA	p.A380A		NM_020857	NP_065908	Q9P253	VPS18_HUMAN	vacuolar protein sorting 18	380					endosome organization|lysosome organization|protein transport	HOPS complex|late endosome membrane|lysosomal membrane	metal ion binding|protein binding			ovary(2)|large_intestine(1)	3		all_cancers(109;1.35e-17)|all_epithelial(112;3.78e-15)|Lung NSC(122;9.68e-11)|all_lung(180;2.25e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;1.07e-05)|COAD - Colon adenocarcinoma(120;0.15)|BRCA - Breast invasive adenocarcinoma(123;0.164)		AGCTGTGGGCCTACACTGAGC	0.607000													17	92					1.99824e-07	2.19271e-07	0.004990	1	0	
DLL4	54567	broad.mit.edu	37	15	41228487	41228487	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:41228487C>T	uc001zng.1	+	9	1622	c.1302C>T	c.(1300-1302)GGC>GGT	p.G434G		NM_019074	NP_061947	Q9NR61	DLL4_HUMAN	delta-like 4 protein precursor	434	EGF-like 6.|Extracellular (Potential).				blood circulation|cell communication|cell differentiation|Notch receptor processing|Notch signaling pathway	integral to membrane|plasma membrane	calcium ion binding|Notch binding			breast(2)	2		all_cancers(109;1.35e-17)|all_epithelial(112;3.78e-15)|Lung NSC(122;9.68e-11)|all_lung(180;2.25e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;1.07e-05)|COAD - Colon adenocarcinoma(120;0.15)|BRCA - Breast invasive adenocarcinoma(123;0.164)		GATTCACGGGCACCTACTGTG	0.617000													6	15					0	0	0.001168	0	0	
RPAP1	26015	broad.mit.edu	37	15	41819655	41819655	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:41819655G>A	uc001zod.2	-	12	1701	c.1577C>T	c.(1576-1578)CCT>CTT	p.P526L		NM_015540	NP_056355	Q9BWH6	RPAP1_HUMAN	RNA polymerase II associated protein 1	526						nucleus	DNA binding|DNA-directed RNA polymerase activity			large_intestine(1)	1		all_cancers(109;6.59e-20)|all_epithelial(112;7.67e-17)|Lung NSC(122;5.34e-11)|all_lung(180;4.17e-10)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		OV - Ovarian serous cystadenocarcinoma(18;2.84e-17)|GBM - Glioblastoma multiforme(113;1.68e-06)|Colorectal(105;0.0163)|BRCA - Breast invasive adenocarcinoma(123;0.117)		GTCAGGTGGAGGCCGGCTTTC	0.557000													23	85					0	0	0.003954	0	0	
SPTBN5	51332	broad.mit.edu	37	15	42147042	42147042	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:42147042G>C	uc001zos.2	-	56	9784	c.9451C>G	c.(9451-9453)CAG>GAG	p.Q3151E		NM_016642	NP_057726	Q9NRC6	SPTN5_HUMAN	spectrin, beta, non-erythrocytic 5	3186	Spectrin 28.				actin cytoskeleton organization|actin filament capping|axon guidance	cytosol|membrane|spectrin				ovary(1)|central_nervous_system(1)	2		all_cancers(109;1.84e-17)|all_epithelial(112;1.12e-15)|Lung NSC(122;7.6e-10)|all_lung(180;4.15e-09)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		all cancers(2;4.33e-34)|Epithelial(2;1.72e-25)|OV - Ovarian serous cystadenocarcinoma(18;8.32e-20)|GBM - Glioblastoma multiforme(94;4.69e-07)|Colorectal(2;0.00104)|COAD - Colon adenocarcinoma(120;0.0405)|READ - Rectum adenocarcinoma(92;0.0908)		CGGCTCCTCTGGGCTTGGATG	0.622000													4	88					0	0	0.009096	0	0	
TGM5	9333	broad.mit.edu	37	15	43531359	43531359	+	Splice_Site	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:43531359A>G	uc001zrd.1	-	8	1113	c.1105_splice	c.e8+1	p.G369_splice	TGM5_uc001zrc.1_Intron|TGM5_uc001zre.1_Splice_Site_p.G287_splice	NM_201631	NP_963925	O43548	TGM5_HUMAN	transglutaminase 5 isoform 1						epidermis development|peptide cross-linking	cytoplasm	acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			central_nervous_system(1)	1		all_cancers(109;1.37e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.216)		GBM - Glioblastoma multiforme(94;4e-07)	L-Glutamine(DB00130)	GGAGAGCCTCACCGTTGCTCA	0.632000													19	70					0	0	0.008871	0	0	
MAP1A	4130	broad.mit.edu	37	15	43816676	43816676	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:43816676C>T	uc001zrt.2	+	4	3472	c.3005C>T	c.(3004-3006)CCA>CTA	p.P1002L		NM_002373	NP_002364	P78559	MAP1A_HUMAN	microtubule-associated protein 1A	1002						cytoplasm|microtubule|microtubule associated complex	protein binding|structural molecule activity			ovary(3)|breast(3)|pancreas(2)|skin(1)	9		all_cancers(109;1.03e-14)|all_epithelial(112;2.23e-12)|Lung NSC(122;2.76e-08)|all_lung(180;3.1e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;3.05e-06)	Estramustine(DB01196)	CCATCTGGCCCACCCAGTGCC	0.582000													5	103					0	0	0.000602	0	0	
B2M	567	broad.mit.edu	37	15	45003747	45003747	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:45003747G>A	uc001zuc.2	+	1	63	c.3G>A	c.(1-3)ATG>ATA	p.M1I	B2M_uc010uek.1_Missense_Mutation_p.M1I|B2M_uc010bdx.1_Missense_Mutation_p.M1I	NM_004048	NP_004039	P61769	B2MG_HUMAN	beta-2-microglobulin precursor	1					antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|regulation of defense response to virus by virus|viral reproduction	early endosome membrane|Golgi membrane|MHC class I protein complex	protein binding	p.M1V(2)		ovary(2)|skin(1)	3		all_cancers(109;1.88e-13)|all_epithelial(112;2.13e-11)|Lung NSC(122;2.22e-07)|all_lung(180;1.81e-06)|Melanoma(134;0.0122)		all cancers(107;4.16e-21)|GBM - Glioblastoma multiforme(94;8.97e-07)|COAD - Colon adenocarcinoma(120;0.0357)|Colorectal(105;0.0377)|Lung(196;0.0903)|LUSC - Lung squamous cell carcinoma(244;0.192)		GGGCCGAGATGTCTCGCTCCG	0.612000													14	65					0	0	0.002450	0	0	
SEMA6D	80031	broad.mit.edu	37	15	48063126	48063126	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:48063126A>G	uc010bek.2	+	19	2726	c.2366A>G	c.(2365-2367)AAG>AGG	p.K789R	SEMA6D_uc001zvw.2_Missense_Mutation_p.K727R|SEMA6D_uc001zvy.2_Missense_Mutation_p.K789R|SEMA6D_uc001zvz.2_Missense_Mutation_p.K733R|SEMA6D_uc001zwa.2_3'UTR|SEMA6D_uc001zwb.2_Missense_Mutation_p.K727R|SEMA6D_uc001zwc.2_Missense_Mutation_p.K714R	NM_153618	NP_705871	Q8NFY4	SEM6D_HUMAN	semaphorin 6D isoform 4 precursor	789	Cytoplasmic (Potential).				axon guidance	cytoplasm|integral to membrane|plasma membrane	receptor activity			skin(3)|breast(1)	4		all_lung(180;0.000635)|Myeloproliferative disorder(241;0.116)|Melanoma(134;0.18)		all cancers(107;1.2e-11)|GBM - Glioblastoma multiforme(94;1.2e-06)		CAGGCCATGAAGAGCCACTCA	0.537000													25	61					0	0	0.005443	0	0	
FBN1	2200	broad.mit.edu	37	15	48780642	48780642	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:48780642C>T	uc001zwx.1	-	26	3459	c.3131G>A	c.(3130-3132)TGC>TAC	p.C1044Y		NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	1044	EGF-like 15; calcium-binding.		C -> Y (in MFS).		heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		GGTGTTTCTGCACTTGCCGTG	0.458000													29	100					0	0	0.005443	0	0	
USP50	373509	broad.mit.edu	37	15	50836866	50836866	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:50836866T>C	uc001zyq.3	-	2	346	c.166A>G	c.(166-168)AAT>GAT	p.N56D		NM_203494	NP_987090	E9PP86	E9PP86_HUMAN	ubiquitin specific protease 50	56					ubiquitin-dependent protein catabolic process		ubiquitin thiolesterase activity			lung(1)|breast(1)	2				all cancers(107;0.000519)|GBM - Glioblastoma multiforme(94;0.00288)		GAGATGGCATTCACGCAGCAT	0.493000													3	41					0	0	0.004672	0	0	
GRINL1A	81488	broad.mit.edu	37	15	58001264	58001264	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:58001264T>C	uc002aet.3	+	2	606	c.466T>C	c.(466-468)TCC>CCC	p.S156P	GCOM1_uc002aem.2_Intron|GCOM1_uc002aeq.2_Intron|GCOM1_uc002aen.2_Intron|GCOM1_uc010bfy.2_Intron|GCOM1_uc002aeo.2_Intron|GCOM1_uc002aep.2_RNA|GCOM1_uc010bfx.2_Intron|GRINL1A_uc002aes.2_Intron|GRINL1A_uc002aev.1_3'UTR|GRINL1A_uc010ugu.1_RNA|GRINL1A_uc002aeu.3_Intron	NM_015532	NP_056347	P0CAP1	GCOM1_HUMAN	glutamate receptor, ionotropic, N-methyl	247	Potential.				intracellular signal transduction	extrinsic to internal side of plasma membrane|I band					0				all cancers(107;0.0697)|GBM - Glioblastoma multiforme(80;0.12)		GGGCCCAGCTTCCAGCAATAG	0.493000													8	39					0	0	0.003080	0	0	
RNF111	54778	broad.mit.edu	37	15	59368267	59368267	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:59368267A>G	uc002afv.2	+	7	2080	c.1801A>G	c.(1801-1803)ATC>GTC	p.I601V	RNF111_uc002afs.2_Missense_Mutation_p.I601V|RNF111_uc002aft.2_Missense_Mutation_p.I601V|RNF111_uc002afu.2_Missense_Mutation_p.I600V|RNF111_uc002afw.2_Missense_Mutation_p.I601V|RNF111_uc002afx.2_Missense_Mutation_p.I127V	NM_017610	NP_060080	Q6ZNA4	RN111_HUMAN	ring finger protein 111	601					multicellular organismal development|positive regulation of transcription, DNA-dependent	cytoplasm|nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2				all cancers(107;0.194)		CCGAGCTGCAATCTTTGGCCA	0.552000													22	119					0	0	0.012319	0	0	
TLN2	83660	broad.mit.edu	37	15	62989927	62989927	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:62989927G>A	uc002alb.3	+	12	1333	c.1333G>A	c.(1333-1335)GCA>ACA	p.A445T		NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	445					cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						GACCGGGAAGGCAGAGCACGG	0.627000													6	165					0	0	0.001168	0	0	
MAP2K1	5604	broad.mit.edu	37	15	66737006	66737006	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:66737006C>A	uc010bhq.2	+	5	1004	c.529C>A	c.(529-531)CTG>ATG	p.L177M	MAP2K1_uc010ujp.1_Missense_Mutation_p.L155M	NM_002755	NP_002746	Q02750	MP2K1_HUMAN	mitogen-activated protein kinase kinase 1	177	Protein kinase.				activation of MAPK activity|activation of MAPKK activity|axon guidance|cell cycle arrest|cellular senescence|epidermal growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of cell proliferation|nerve growth factor receptor signaling pathway|Ras protein signal transduction|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|plasma membrane	ATP binding|MAP kinase kinase activity|protein serine/threonine kinase activity|protein tyrosine kinase activity				0						AATAAAAGGCCTGACATATCT	0.323000									Cardiofaciocutaneous_syndrome				11	99					0.000978159	0.00102137	0.010729	1	0	
IQCH	64799	broad.mit.edu	37	15	67664873	67664873	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:67664873G>A	uc002aqo.1	+	9	1225	c.1178G>A	c.(1177-1179)CGC>CAC	p.R393H	IQCH_uc010ujv.1_Missense_Mutation_p.R212H|IQCH_uc002aqn.1_Missense_Mutation_p.R220H|IQCH_uc002aqq.1_Missense_Mutation_p.R141H|IQCH_uc002aqp.1_Missense_Mutation_p.R145H	NM_001031715	NP_001026885	Q86VS3	IQCH_HUMAN	IQ motif containing H isoform 1	393	IQ.									skin(3)|ovary(1)	4				Colorectal(3;0.0856)		CTCTTTTATCGCCAGCAGAAG	0.458000													32	135					0	0	0.010818	0	0	
UACA	55075	broad.mit.edu	37	15	70959562	70959562	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:70959562T>C	uc002asr.2	-	16	3565	c.3461A>G	c.(3460-3462)CAA>CGA	p.Q1154R	UACA_uc010uke.1_Missense_Mutation_p.Q1045R|UACA_uc002asq.2_Missense_Mutation_p.Q1141R|UACA_uc010bin.1_Missense_Mutation_p.Q1129R	NM_018003	NP_060473	Q9BZF9	UACA_HUMAN	uveal autoantigen with coiled-coil domains and	1154	Potential.					cytoskeleton|extracellular region				ovary(2)|pancreas(1)|skin(1)	4						CTCCAACAATTGATGCAGTTT	0.383000													9	217					0	0	0.008291	0	0	
UBL7	84993	broad.mit.edu	37	15	74741564	74741564	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:74741564G>A	uc002axw.1	-	9	1007	c.845C>T	c.(844-846)CCG>CTG	p.P282L	UBL7_uc002axx.1_Missense_Mutation_p.P322L|UBL7_uc010bjr.1_Missense_Mutation_p.P173L|UBL7_uc002axy.1_Missense_Mutation_p.P282L|UBL7_uc002axz.1_Missense_Mutation_p.P282L	NM_032907	NP_116296	Q96S82	UBL7_HUMAN	ubiquitin-like 7	282							protein binding			ovary(1)	1						GCTGCTCTCCGGAGTGCTGGC	0.682000													12	60					0	0	0.001855	0	0	
LMAN1L	79748	broad.mit.edu	37	15	75108840	75108840	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:75108840G>A	uc002ayt.1	+	3	405	c.403G>A	c.(403-405)GGG>AGG	p.G135R	LMAN1L_uc010bkd.2_Missense_Mutation_p.G63R|LMAN1L_uc010ulo.1_Intron|LMAN1L_uc010bke.1_Missense_Mutation_p.G135R	NM_021819	NP_068591	Q9HAT1	LMA1L_HUMAN	lectin, mannose-binding, 1 like precursor	135	Lumenal (Potential).|L-type lectin-like.					ER-Golgi intermediate compartment membrane|integral to membrane	sugar binding				0						GGACGGCATCGGGATCTTCTT	0.493000													22	114					0	0	0.012319	0	0	
CSPG4	1464	broad.mit.edu	37	15	75970141	75970141	+	Silent	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:75970141G>T	uc002baw.2	-	9	5130	c.5037C>A	c.(5035-5037)TCC>TCA	p.S1679S		NM_001897	NP_001888	Q6UVK1	CSPG4_HUMAN	chondroitin sulfate proteoglycan 4 precursor	1679	Extracellular (Potential).|Cysteine-containing.|Neurite growth inhibition (By similarity).|CSPG 11.				angiogenesis|cell differentiation|intracellular signal transduction|positive regulation of peptidyl-tyrosine phosphorylation|tissue remodeling	apical plasma membrane|cell surface|integral to plasma membrane|intracellular|lamellipodium membrane	protein kinase binding|signal transducer activity			ovary(2)|pancreas(1)	3						CAGGCGGCGAGGACAGCTGGA	0.622000													19	105					2.94398e-08	3.25374e-08	0.007413	1	0	
CSPG4	1464	broad.mit.edu	37	15	75979870	75979870	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:75979870C>T	uc002baw.2	-	3	3629	c.3536G>A	c.(3535-3537)CGG>CAG	p.R1179Q		NM_001897	NP_001888	Q6UVK1	CSPG4_HUMAN	chondroitin sulfate proteoglycan 4 precursor	1179	Interaction with COL5A1 (By similarity).|Extracellular (Potential).|Gly/Ser-rich (glycosaminoglycan attachment domain).|CSPG 7.				angiogenesis|cell differentiation|intracellular signal transduction|positive regulation of peptidyl-tyrosine phosphorylation|tissue remodeling	apical plasma membrane|cell surface|integral to plasma membrane|intracellular|lamellipodium membrane	protein kinase binding|signal transducer activity			ovary(2)|pancreas(1)	3						CTGACCAGCCCGGACTAGCTG	0.657000													21	78					0	0	0.010504	0	0	
MEX3B	84206	broad.mit.edu	37	15	82336148	82336148	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:82336148C>T	uc002bgq.1	-	2	1378	c.1063G>A	c.(1063-1065)GGC>AGC	p.G355S		NM_032246	NP_115622	Q6ZN04	MEX3B_HUMAN	mex-3 homolog B	355					protein autophosphorylation	cytoplasmic mRNA processing body|nucleus	calcium ion binding|RNA binding|zinc ion binding			breast(1)|kidney(1)	2						TCGGGGCAGCCGTCGGGGGAT	0.652000													18	61					0	0	0.004990	0	0	
ADAMTSL3	57188	broad.mit.edu	37	15	84582089	84582089	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:84582089A>G	uc002bjz.3	+	16	2170	c.1946A>G	c.(1945-1947)GAG>GGG	p.E649G	ADAMTSL3_uc010bmt.1_Missense_Mutation_p.E649G|ADAMTSL3_uc010bmu.1_Missense_Mutation_p.E649G	NM_207517	NP_997400	P82987	ATL3_HUMAN	ADAMTS-like 3 precursor	649						proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(6)|central_nervous_system(5)|lung(5)|large_intestine(4)|breast(3)|skin(2)|kidney(1)|pancreas(1)	27			BRCA - Breast invasive adenocarcinoma(143;0.211)			TACGACTGGGAGTACGCTGGG	0.542000													4	33					0	0	0.009096	0	0	
GOLGA6L5	374650	broad.mit.edu	37	15	85055854	85055854	+	RNA	SNP	T	A	A	rs4039972		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:85055854T>A	uc002bkm.2	-	6		c.706A>T				NR_003246				Homo sapiens cDNA FLJ33459 fis, clone BRAMY2000585.												0						CTGTTCACGTTGCCTCTCCTC	0.542000													4	25					0	0	0.009096	0	0	
POLG	5428	broad.mit.edu	37	15	89862219	89862219	+	Silent	SNP	G	C	C	rs146936870		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:89862219G>C	uc002bns.3	-	20	3498	c.3216C>G	c.(3214-3216)ACC>ACG	p.T1072T	POLG_uc002bnr.3_Silent_p.T1072T	NM_002693	NP_002684	P54098	DPOG1_HUMAN	DNA-directed DNA polymerase gamma	1072					base-excision repair, gap-filling|cell death|DNA-dependent DNA replication	mitochondrial nucleoid	DNA binding|DNA-directed DNA polymerase activity|protease binding			ovary(1)|lung(1)	2	Lung NSC(78;0.0472)|all_lung(78;0.089)		STAD - Stomach adenocarcinoma(125;0.165)			CCAGCACCGGGGTACGTGGTA	0.587000								DNA_polymerases_(catalytic_subunits)					6	84					0	0	0.001984	0	0	
TM2D3	80213	broad.mit.edu	37	15	102182698	102182698	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr15:102182698C>A	uc002bxi.2	-	6	758	c.728G>T	c.(727-729)GGC>GTC	p.G243V	TM2D3_uc010usg.1_Intron|TM2D3_uc002bxh.2_Missense_Mutation_p.G178V|TM2D3_uc002bxj.2_Missense_Mutation_p.G217V|TM2D3_uc002bxk.2_Missense_Mutation_p.G178V	NM_078474	NP_510883	Q9BRN9	TM2D3_HUMAN	TM2 domain containing 3 isoform a	243						integral to membrane				ovary(1)	1	Lung NSC(78;0.000991)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.000268)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			GTACAAAGAGCCATCTGCTGG	0.502000													33	110					3.2961e-07	3.6008e-07	0.004878	1	0	
WDR90	197335	broad.mit.edu	37	16	711649	711649	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:711649C>T	uc002cii.1	+	31	3780	c.3726C>T	c.(3724-3726)CTC>CTT	p.L1242L	WDR90_uc002cij.1_Intron|WDR90_uc002cik.1_Silent_p.L769L|WDR90_uc002cil.1_RNA|WDR90_uc002cim.1_Silent_p.L416L|WDR90_uc002cin.1_5'UTR	NM_145294	NP_660337	Q96KV7	WDR90_HUMAN	WD repeat domain 90	1242	WD 13.									ovary(1)	1		Hepatocellular(780;0.0218)				CCTATGACCTCGTGTCCTCCA	0.687000													4	69					0	0	0.009096	0	0	
NARFL	64428	broad.mit.edu	37	16	780644	780644	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:780644C>T	uc002cjr.2	-	11	1216	c.1204G>A	c.(1204-1206)GGC>AGC	p.G402S	NARFL_uc002cjp.2_Missense_Mutation_p.G300S|NARFL_uc002cjq.2_Missense_Mutation_p.G300S|NARFL_uc002cjs.2_Missense_Mutation_p.G184S	NM_022493	NP_071938	Q9H6Q4	NARFL_HUMAN	nuclear prelamin A recognition factor-like	402					iron-sulfur cluster assembly|oxygen homeostasis|regulation of transcription, DNA-dependent|response to hypoxia		4 iron, 4 sulfur cluster binding|metal ion binding				0		Hepatocellular(780;0.0218)				TGGCCCCCGCCGTTCAGGCAG	0.706000													9	43					0	0	0.008291	0	0	
SSTR5	6755	broad.mit.edu	37	16	1129861	1129861	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:1129861C>T	uc002ckq.2	+	1	1081	c.993C>T	c.(991-993)GAC>GAT	p.D331D	LOC146336_uc002cko.2_5'Flank|LOC146336_uc002ckp.1_5'Flank	NM_001053	NP_001044	P35346	SSR5_HUMAN	somatostatin receptor 5	331	Cytoplasmic (Potential).				negative regulation of cell proliferation	integral to plasma membrane	somatostatin receptor activity			lung(1)	1		Hepatocellular(780;0.00369)			Octreotide(DB00104)	AGGACGCTGACGCCACGGAGC	0.662000													7	45					0	0	0.001984	0	0	
TELO2	9894	broad.mit.edu	37	16	1551731	1551731	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:1551731G>A	uc002cly.2	+	11	1720	c.1429G>A	c.(1429-1431)GTC>ATC	p.V477I		NM_016111	NP_057195	Q9Y4R8	TELO2_HUMAN	TEL2, telomere maintenance 2, homolog	477						chromosome, telomeric region|cytoplasm|membrane|nucleus	protein binding				0		Hepatocellular(780;0.219)				GGATGGCGGCGTCCCCCAAGC	0.647000													12	56					0	0	0.013537	0	0	
PKD1	5310	broad.mit.edu	37	16	2164521	2164521	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:2164521G>A	uc002cos.1	-	11	2712	c.2503C>T	c.(2503-2505)CGC>TGC	p.R835C	PKD1_uc002cot.1_Missense_Mutation_p.R835C	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	835	Extracellular (Potential).				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						ACGTAGAGGCGGCCGTCGCGG	0.692000													6	21					0	0	0.003080	0	0	
E4F1	1877	broad.mit.edu	37	16	2284966	2284966	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:2284966G>A	uc002cpm.2	+	12	1947	c.1899G>A	c.(1897-1899)TCG>TCA	p.S633S	E4F1_uc010bsi.2_Intron|E4F1_uc010bsj.2_Silent_p.S456S|DNASE1L2_uc002cpn.2_5'Flank|DNASE1L2_uc002cpo.2_5'Flank|DNASE1L2_uc002cpp.2_5'Flank|DNASE1L2_uc002cpq.2_5'Flank	NM_004424	NP_004415	Q66K89	E4F1_HUMAN	p120E4F	633					cell division|cell proliferation|interspecies interaction between organisms|mitosis|regulation of growth	cytoplasm|nucleoplasm	DNA binding|ligase activity|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)	1						TGGAGTTCTCGTCCGTGGTAG	0.652000													4	15					0	0	0.000602	0	0	
ABCA17P	650655	broad.mit.edu	37	16	2474693	2474693	+	RNA	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:2474693C>T	uc002cqc.1	+	15		c.2862C>T				NR_003574				Homo sapiens cDNA FLJ37881 fis, clone BRSTN2000367.												0						CTACTCCCTGCGGGCCAAGGT	0.662000													5	20					0	0	0.000602	0	0	
ZNF213	7760	broad.mit.edu	37	16	3190766	3190766	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:3190766C>T	uc010uws.1	+	6	1245	c.798C>T	c.(796-798)AGC>AGT	p.S266S	ZNF213_uc002cud.2_RNA|ZNF213_uc010btf.2_3'UTR|ZNF213_uc010bth.2_Silent_p.S266S|ZNF213_uc010uwt.1_3'UTR	NM_004220	NP_004211	O14771	ZN213_HUMAN	zinc finger protein 213	266	KRAB.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						AGACAGGCAGCGACGTGACTG	0.692000													21	56					0	0	0.002780	0	0	
MEFV	4210	broad.mit.edu	37	16	3293871	3293871	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:3293871T>C	uc002cun.1	-	9	1821	c.1781A>G	c.(1780-1782)CAG>CGG	p.Q594R		NM_000243	NP_000234	O15553	MEFV_HUMAN	Mediterranean fever protein	594	B30.2/SPRY.				inflammatory response	cytoplasm|microtubule|microtubule associated complex|nucleus	actin binding|zinc ion binding			central_nervous_system(2)|skin(2)|ovary(1)|lung(1)	6					Colchicine(DB01394)	AGCATGTGCCTGAGCGCCAAT	0.517000													6	54					0	0	0.006214	0	0	
TIGD7	91151	broad.mit.edu	37	16	3349324	3349324	+	Nonsense_Mutation	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:3349324C>A	uc002cus.2	-	1	2077	c.1291G>T	c.(1291-1293)GAA>TAA	p.E431*	ZNF263_uc002cur.2_3'UTR	NM_033208	NP_149985	Q6NT04	TIGD7_HUMAN	tigger transposable element derived 7	431					regulation of transcription, DNA-dependent	chromosome, centromeric region|nucleus	DNA binding				0						AACTTAGTTTCCAACTCCCCA	0.358000													13	256					0.00136819	0.00142501	0.013537	1	0	
CREBBP	1387	broad.mit.edu	37	16	3786719	3786719	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:3786719G>A	uc002cvv.2	-	27	4696	c.4492C>T	c.(4492-4494)CGA>TGA	p.R1498*	CREBBP_uc002cvw.2_Nonsense_Mutation_p.R1460*	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	1498	Interaction with TRERF1.				cellular lipid metabolic process|homeostatic process|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|protein complex assembly|response to hypoxia	cytoplasm|nuclear body	histone acetyltransferase activity|MyoD binding|p53 binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(97)|ovary(14)|lung(6)|skin(6)|breast(2)|NS(1)|pancreas(1)	127		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)		TCCTGCAGTCGTTTTGGCTTG	0.507000			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				10	226					0	0	0.013537	0	0	
CREBBP	1387	broad.mit.edu	37	16	3808004	3808004	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:3808004T>C	uc002cvv.2	-	18	3619	c.3415A>G	c.(3415-3417)AAG>GAG	p.K1139E	CREBBP_uc002cvw.2_Missense_Mutation_p.K1101E	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	1139	Bromo.				cellular lipid metabolic process|homeostatic process|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|protein complex assembly|response to hypoxia	cytoplasm|nuclear body	histone acetyltransferase activity|MyoD binding|p53 binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(97)|ovary(14)|lung(6)|skin(6)|breast(2)|NS(1)|pancreas(1)	127		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)		AGCTTCCGCTTGATGGTGGAG	0.463000			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				12	63					0	0	0.013537	0	0	
GLIS2	84662	broad.mit.edu	37	16	4384870	4384870	+	Silent	SNP	C	T	T	rs145025457		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:4384870C>T	uc002cwc.1	+	3	471	c.414C>T	c.(412-414)TCC>TCT	p.S138S		NM_032575	NP_115964	Q9BZE0	GLIS2_HUMAN	GLIS family zinc finger 2	138	Interaction with CTNND1 (By similarity).				cell differentiation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|nervous system development	cytoplasm|nuclear speck	RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|transcription regulatory region DNA binding|zinc ion binding				0						CCCTCGGCTCCGGGGGGGCCC	0.657000													4	90					0	0	0.000602	0	0	
PPL	5493	broad.mit.edu	37	16	4935616	4935616	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:4935616G>A	uc002cyd.1	-	22	3130	c.3040C>T	c.(3040-3042)CGG>TGG	p.R1014W		NM_002705	NP_002696	O60437	PEPL_HUMAN	periplakin	1014	Potential.				keratinization	cytoskeleton|desmosome|mitochondrion|nucleus	protein binding|structural constituent of cytoskeleton			ovary(4)|central_nervous_system(1)|skin(1)	6						AGCTCCTCCCGCAGCTGCAAG	0.687000													32	123					0	0	0.013726	0	0	
CLEC16A	23274	broad.mit.edu	37	16	11154827	11154827	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:11154827G>A	uc002dao.2	+	19	2294	c.2064G>A	c.(2062-2064)TTG>TTA	p.L688L	CLEC16A_uc002dan.3_Silent_p.L670L	NM_015226	NP_056041	Q2KHT3	CL16A_HUMAN	C-type lectin domain family 16, member A	688										ovary(1)|central_nervous_system(1)	2						AGACACAGTTGCCGCTGACTC	0.577000													14	230					0	0	0.002450	0	0	
RUNDC2A	84127	broad.mit.edu	37	16	12142456	12142456	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:12142456G>A	uc002dbw.1	+	7	789	c.727G>A	c.(727-729)GTG>ATG	p.V243M		NM_032167	NP_115543	Q9HA26	RUN2A_HUMAN	RUN domain containing 2A	243										ovary(1)	1						CTTGCCTGTCGTGTCCAGGAA	0.577000			T	CIITA	PMBL|Hodgkin Lymphona|								22	82					0	0	0.014323	0	0	
TMC5	79838	broad.mit.edu	37	16	19451843	19451843	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:19451843G>A	uc002dgc.3	+	3	1232	c.483G>A	c.(481-483)CCG>CCA	p.P161P	TMC5_uc010vaq.1_Silent_p.P161P|TMC5_uc002dgb.3_Silent_p.P161P|TMC5_uc010var.1_Silent_p.P161P	NM_001105248	NP_001098718	Q6UXY8	TMC5_HUMAN	transmembrane channel-like 5 isoform a	161	Extracellular (Potential).					integral to membrane				skin(1)	1						CCTTAGAACCGGACTACCCTG	0.478000													5	227					0	0	0.000602	0	0	
GDE1	51573	broad.mit.edu	37	16	19528399	19528399	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:19528399C>T	uc002dgh.2	-	2	538	c.374G>A	c.(373-375)CGA>CAA	p.R125Q	GDE1_uc002dgi.2_Missense_Mutation_p.R15Q	NM_016641	NP_057725	Q9NZC3	GDE1_HUMAN	glycerophosphodiester phosphodiesterase 1	125	Lumenal (Potential).|GDPD.				glycerol metabolic process|lipid metabolic process	cytoplasm|integral to membrane	glycerophosphodiester phosphodiesterase activity|glycerophosphoinositol glycerophosphodiesterase activity|metal ion binding			ovary(2)|central_nervous_system(1)	3						ATCACACAATCGCCCAGTCCC	0.433000													13	71					0	0	0.002450	0	0	
ZP2	7783	broad.mit.edu	37	16	21221474	21221474	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:21221474A>G	uc002dii.2	-	3	191	c.191T>C	c.(190-192)TTC>TCC	p.F64S	ZP2_uc010bwn.1_Missense_Mutation_p.F103S|ZP2_uc010bwo.2_Missense_Mutation_p.F103S	NM_003460	NP_003451	Q05996	ZP2_HUMAN	zona pellucida glycoprotein 2 preproprotein	64	Extracellular (Potential).				binding of sperm to zona pellucida|intracellular protein transport	endoplasmic reticulum|Golgi apparatus|integral to membrane|multivesicular body|plasma membrane|proteinaceous extracellular matrix|stored secretory granule	acrosin binding|coreceptor activity			central_nervous_system(2)|ovary(1)	3				GBM - Glioblastoma multiforme(48;0.0573)		ACTGCTTGGGAACTCCACTGT	0.478000													8	66					0	0	0.004482	0	0	
USP31	57478	broad.mit.edu	37	16	23080493	23080493	+	Missense_Mutation	SNP	G	A	A	rs148943431		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:23080493G>A	uc002dll.2	-	16	2933	c.2933C>T	c.(2932-2934)CCG>CTG	p.P978L	USP31_uc002dlk.2_Missense_Mutation_p.P250L|USP31_uc010vca.1_Missense_Mutation_p.P281L|USP31_uc010bxm.2_Missense_Mutation_p.P266L	NM_020718	NP_065769	Q70CQ4	UBP31_HUMAN	ubiquitin specific peptidase 31	978	Ser-rich.				ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(3)|lung(3)|breast(2)|pancreas(1)|skin(1)	10				GBM - Glioblastoma multiforme(48;0.0187)		ACCAGAGAGCGGGGGCAGGCG	0.522000													19	98					0	0	0.010504	0	0	
COG7	91949	broad.mit.edu	37	16	23415109	23415109	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:23415109G>A	uc002dlo.2	-	13	1897	c.1709C>T	c.(1708-1710)GCG>GTG	p.A570V		NM_153603	NP_705831	P83436	COG7_HUMAN	component of oligomeric golgi complex 7	570					intracellular protein transport|protein glycosylation|protein localization in Golgi apparatus|protein stabilization|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane|Golgi transport complex	protein binding				0				GBM - Glioblastoma multiforme(48;0.0401)		CCGAGTCAGCGCTGCTCGAGG	0.512000													9	59					0	0	0.010729	0	0	
CACNG3	10368	broad.mit.edu	37	16	24372735	24372735	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:24372735C>T	uc002dmf.2	+	4	1699	c.499C>T	c.(499-501)CGT>TGT	p.R167C		NM_006539	NP_006530	O60359	CCG3_HUMAN	voltage-dependent calcium channel gamma-3	167					regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|endocytic vesicle membrane|voltage-gated calcium channel complex	voltage-gated calcium channel activity				0				GBM - Glioblastoma multiforme(48;0.0809)		CCCCGGGCAGCGTGACTCCAA	0.443000													36	161					0	0	0.004878	0	0	
KIAA0556	23247	broad.mit.edu	37	16	27761019	27761019	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:27761019G>A	uc002dow.2	+	16	2762	c.2738G>A	c.(2737-2739)CGC>CAC	p.R913H		NM_015202	NP_056017	O60303	K0556_HUMAN	hypothetical protein LOC23247	913										ovary(4)|large_intestine(2)|upper_aerodigestive_tract(1)|skin(1)	8						CACCGGGGACGCATCTCCAAC	0.647000													4	81					0	0	0.009096	0	0	
KIAA0556	23247	broad.mit.edu	37	16	27765529	27765529	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:27765529C>T	uc002dow.2	+	18	3612	c.3588C>T	c.(3586-3588)GTC>GTT	p.V1196V		NM_015202	NP_056017	O60303	K0556_HUMAN	hypothetical protein LOC23247	1196										ovary(4)|large_intestine(2)|upper_aerodigestive_tract(1)|skin(1)	8						GTTCCCCTGTCCCCCAAGTCA	0.582000													16	84					0	0	0.007413	0	0	
GSG1L	146395	broad.mit.edu	37	16	27802759	27802759	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:27802759G>C	uc002doz.2	-	7	1013	c.928C>G	c.(928-930)CCC>GCC	p.P310A	GSG1L_uc010bya.1_Missense_Mutation_p.P259A|GSG1L_uc010bxz.1_Missense_Mutation_p.P173A|GSG1L_uc002doy.2_Missense_Mutation_p.P155A	NM_001109763	NP_001103233	Q6UXU4	GSG1L_HUMAN	GSG1-like isoform 1	310						integral to membrane				ovary(1)	1						GAGCTCCGGGGCCAGGAATCC	0.647000													4	33					0	0	0.009096	0	0	
TUFM	7284	broad.mit.edu	37	16	28856346	28856346	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:28856346C>T	uc002drh.2	-	4	584	c.445G>A	c.(445-447)GGC>AGC	p.G149S	uc010vct.1_Intron|SH2B1_uc002dri.2_5'Flank	NM_003321	NP_003312	P49411	EFTU_HUMAN	Tu translation elongation factor, mitochondrial	146						mitochondrial nucleoid	GTP binding|GTPase activity|protein binding|translation elongation factor activity			ovary(1)	1						AGGATGCAGCCGTCGAGGGGT	0.542000													22	55					0	0	0.003954	0	0	
LAT	27040	broad.mit.edu	37	16	28997940	28997940	+	Silent	SNP	G	A	A	rs145698858	byFrequency	TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:28997940G>A	uc002dsd.2	+	6	742	c.390G>A	c.(388-390)CCG>CCA	p.P130P	uc010vct.1_Intron|LAT_uc010vdj.1_Intron|LAT_uc002dsb.2_Intron|LAT_uc002dsc.2_Intron|LAT_uc010vdk.1_Intron|LAT_uc010vdl.1_Silent_p.P129P	NM_014387	NP_055202	O43561	LAT_HUMAN	linker for activation of T cells isoform a	130	Cytoplasmic (Potential).				calcium-mediated signaling|integrin-mediated signaling pathway|mast cell degranulation|platelet activation|Ras protein signal transduction|regulation of T cell activation|T cell receptor signaling pathway	immunological synapse|integral to membrane|intracellular|membrane raft	SH3/SH2 adaptor activity				0		Hepatocellular(780;0.244)				TCTGGGGTCCGTCCTGGACTA	0.612000													7	57					0	0	0.003080	0	0	
MVP	9961	broad.mit.edu	37	16	29853263	29853263	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:29853263G>A	uc002dui.2	+	10	1548	c.1464G>A	c.(1462-1464)TCG>TCA	p.S488S	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|MVP_uc010vdz.1_RNA|MVP_uc002duj.2_Silent_p.S488S|MVP_uc010vea.1_Silent_p.S82S	NM_005115	NP_005106	Q14764	MVP_HUMAN	major vault protein	488	MVP 9.				mRNA transport|protein transport|response to drug|transmembrane transport	cytoplasm|nuclear pore|ribonucleoprotein complex	protein binding			skin(2)|ovary(1)|central_nervous_system(1)	4						AGCTGGTGTCGCTGGGTCCTG	0.672000													11	43					0	0	0.001855	0	0	
SEZ6L2	26470	broad.mit.edu	37	16	29891335	29891335	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:29891335T>C	uc002duq.3	-	9	1663	c.1423A>G	c.(1423-1425)ACT>GCT	p.T475A	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|SEZ6L2_uc002dup.3_Missense_Mutation_p.T405A|SEZ6L2_uc002dur.3_Missense_Mutation_p.T405A|SEZ6L2_uc002dus.3_Missense_Mutation_p.T361A|SEZ6L2_uc010vec.1_Missense_Mutation_p.T475A|SEZ6L2_uc010ved.1_Missense_Mutation_p.T431A	NM_201575	NP_963869	Q6UXD5	SE6L2_HUMAN	seizure related 6 homolog (mouse)-like 2 isoform	475	Sushi 2.|Extracellular (Potential).					endoplasmic reticulum membrane|integral to membrane|plasma membrane				ovary(1)|skin(1)	2						TCCGTGGTAGTGACATTTCCA	0.587000													5	74					0	0	0.000602	0	0	
SRCAP	10847	broad.mit.edu	37	16	30735442	30735442	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:30735442C>T	uc002dze.1	+	25	5082	c.4697C>T	c.(4696-4698)GCT>GTT	p.A1566V	SRCAP_uc002dzf.2_RNA|SRCAP_uc002dzg.1_Missense_Mutation_p.A1361V|SRCAP_uc010bzz.1_Missense_Mutation_p.A1136V	NM_006662	NP_006653	Q6ZRS2	SRCAP_HUMAN	Snf2-related CBP activator protein	1566	Pro-rich.				interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|nucleus|protein complex	ATP binding|DNA binding|helicase activity|histone acetyltransferase activity|transcription coactivator activity			ovary(3)|skin(1)	4			Colorectal(24;0.198)			CCAAATCCAGCTCCAGCTCAG	0.592000													26	64					0	0	0.003330	0	0	
C16orf93	90835	broad.mit.edu	37	16	30768894	30768894	+	Missense_Mutation	SNP	C	T	T	rs138413324	by1000genomes	TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:30768894C>T	uc002dzm.2	-	9	1230	c.899G>A	c.(898-900)CGG>CAG	p.R300Q	C16orf93_uc002dzn.2_Missense_Mutation_p.R365Q|C16orf93_uc002dzo.2_Missense_Mutation_p.R263Q	NM_001014979	NP_001014979	A1A4V9	CP093_HUMAN	hypothetical protein LOC90835	300	Potential.										0						GGCCTTGAGCCGCTCCTCCAC	0.602000													30	121					0	0	0.007291	0	0	
MYST1	84148	broad.mit.edu	37	16	31131792	31131792	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:31131792G>A	uc002eay.2	+	3	437	c.419G>A	c.(418-420)CGC>CAC	p.R140H	MYST1_uc002eax.2_Missense_Mutation_p.R140H	NM_032188	NP_115564	Q9H7Z6	MYST1_HUMAN	MYST histone acetyltransferase 1 isoform 1	140					histone H4-K16 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MLL1 complex|MSL complex	histone acetyltransferase activity|metal ion binding|methylated histone residue binding|transcription factor binding			ovary(1)	1						AAGATCACTCGCAACCAAAAG	0.572000													12	34					0	0	0.010729	0	0	
PRSS36	146547	broad.mit.edu	37	16	31152917	31152917	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:31152917G>A	uc002ebd.2	-	12	1833	c.1774C>T	c.(1774-1776)CTG>TTG	p.L592L	PRSS36_uc010vff.1_Silent_p.L367L|PRSS36_uc010vfg.1_Silent_p.L587L|PRSS36_uc010vfh.1_Silent_p.L592L	NM_173502	NP_775773	Q5K4E3	POLS2_HUMAN	protease, serine, 36 precursor	592	Peptidase S1 3.				proteolysis	cytoplasm|proteinaceous extracellular matrix	serine-type endopeptidase activity			ovary(1)	1						GCAGCCTCCAGCCGCAGGCCA	0.687000													25	67					0	0	0.003330	0	0	
ITGAX	3687	broad.mit.edu	37	16	31383749	31383749	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:31383749G>A	uc002ebu.1	+	18	2278	c.2211G>A	c.(2209-2211)ACG>ACA	p.T737T	ITGAX_uc002ebt.2_Silent_p.T737T	NM_000887	NP_000878	P20702	ITAX_HUMAN	integrin alpha X precursor	737	Extracellular (Potential).				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration|organ morphogenesis	integrin complex	protein binding|receptor activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						TGAACTTCACGCTGGTGGGCA	0.637000													25	74					0	0	0.008361	0	0	
ITGAD	3681	broad.mit.edu	37	16	31426276	31426276	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:31426276G>A	uc002ebv.1	+	18	2296	c.2247G>A	c.(2245-2247)GTG>GTA	p.V749V	ITGAD_uc010cap.1_Silent_p.V750V	NM_005353	NP_005344	Q13349	ITAD_HUMAN	integrin, alpha D precursor	749	Extracellular (Potential).				cell-cell adhesion|cell-matrix adhesion|immune response|integrin-mediated signaling pathway	integrin complex	receptor activity			skin(1)	1						TGCGTCCTGTGCTGGCCGTGG	0.537000													30	100					0	0	0.009535	0	0	
SLC6A10P	386757	broad.mit.edu	37	16	32890625	32890625	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:32890625G>A	uc002edh.1	-	5	437	c.261C>T	c.(259-261)TAC>TAT	p.Y87Y	SLC6A10P_uc002edi.1_RNA					RecName: Full=Transporter;												0						TGGTGTTTTTGTAGACCAGCG	0.507000													5	39					0	0	0.001984	0	0	
SALL1	6299	broad.mit.edu	37	16	51175655	51175655	+	Missense_Mutation	SNP	C	T	T	rs113614842		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:51175655C>T	uc010vgs.1	-	2	509	c.478G>A	c.(478-480)GGC>AGC	p.G160S	SALL1_uc010vgr.1_Missense_Mutation_p.G63S|SALL1_uc010cbv.2_Intron	NM_002968	NP_002959	Q9NSC2	SALL1_HUMAN	sal-like 1 isoform a	160	Poly-Gly.				adrenal gland development|branching involved in ureteric bud morphogenesis|embryonic digestive tract development|embryonic digit morphogenesis|gonad development|histone deacetylation|inductive cell-cell signaling|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of transcription from RNA polymerase II promoter|olfactory bulb interneuron differentiation|olfactory bulb mitral cell layer development|olfactory nerve development|outer ear morphogenesis|pituitary gland development|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|ureteric bud invasion|ventricular septum development	chromocenter|cytoplasm|heterochromatin|nucleus	beta-catenin binding|DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(5)|ovary(3)	8		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			ccgccgccgccgctgctgctg	0.463000													9	51					0	0	0.008291	0	0	
RPGRIP1L	23322	broad.mit.edu	37	16	53720489	53720489	+	Splice_Site	SNP	C	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:53720489C>G	uc002ehp.2	-	6	697	c.633_splice	c.e6-1	p.L211_splice	RPGRIP1L_uc002eho.3_Splice_Site_p.L211_splice|RPGRIP1L_uc010vgy.1_Splice_Site_p.L211_splice|RPGRIP1L_uc010cbx.2_Splice_Site_p.L211_splice|RPGRIP1L_uc010vgz.1_Splice_Site_p.L211_splice|RPGRIP1L_uc002ehq.1_Splice_Site_p.L211_splice	NM_015272	NP_056087	Q68CZ1	FTM_HUMAN	RPGRIP1-like isoform a						negative regulation of G-protein coupled receptor protein signaling pathway	cell-cell junction|centrosome|cilium axoneme|microtubule basal body	thromboxane A2 receptor binding			ovary(1)	1		all_cancers(37;0.0973)				AACGTTTTCTCTGAAATAAAG	0.363000													6	73					0	0	0.001984	0	0	
BBS2	583	broad.mit.edu	37	16	56536710	56536710	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:56536710C>T	uc002ejd.2	-	8	1049	c.815G>A	c.(814-816)CGA>CAA	p.R272Q	BBS2_uc010ccg.2_Missense_Mutation_p.R272Q	NM_031885	NP_114091	Q9BXC9	BBS2_HUMAN	Bardet-Biedl syndrome 2 protein	272					adult behavior|brain morphogenesis|cerebral cortex development|cilium morphogenesis|fat cell differentiation|hippocampus development|melanosome transport|negative regulation of multicellular organism growth|photoreceptor cell maintenance|protein localization to organelle|regulation of cilium beat frequency involved in ciliary motility|sperm axoneme assembly|striatum development	BBSome|cilium membrane|microtubule basal body|motile cilium	protein binding			ovary(1)	1						TCGGTCACTTCGAGCATCAAC	0.363000									Bardet-Biedl_syndrome				8	41					0	0	0.003080	0	0	
CCDC102A	92922	broad.mit.edu	37	16	57551998	57551998	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:57551998C>T	uc002elw.2	-	6	1443	c.1230G>A	c.(1228-1230)GCG>GCA	p.A410A		NM_033212	NP_149989	Q96A19	C102A_HUMAN	coiled-coil domain containing 102A	410										ovary(1)	1						TCTCGAAGAGCGCGGCCTGGC	0.682000													6	153					0	0	0.001168	0	0	
GPR97	222487	broad.mit.edu	37	16	57713135	57713135	+	Missense_Mutation	SNP	G	A	A	rs149201757		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:57713135G>A	uc002emh.2	+	5	642	c.539G>A	c.(538-540)CGC>CAC	p.R180H	GPR97_uc010vhv.1_Missense_Mutation_p.R60H|GPR97_uc010cdd.2_RNA|GPR97_uc010cde.2_5'Flank	NM_170776	NP_740746	Q86Y34	GPR97_HUMAN	G protein-coupled receptor 97 precursor	180	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)	1						TTGAACAATCGCCTGGTGGGT	0.637000													24	75					0	0	0.006320	0	0	
EXOC3L	283849	broad.mit.edu	37	16	67222785	67222785	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:67222785G>A	uc002erx.1	-	4	507	c.266C>T	c.(265-267)GCC>GTC	p.A89V	EXOC3L_uc002erv.1_RNA|EXOC3L_uc002erw.1_Intron|EXOC3L_uc002ery.1_Intron|EXOC3L_uc010vje.1_Intron	NM_178516	NP_848611	Q86VI1	EX3L1_HUMAN	exocyst complex component 3-like	89	Mediates interaction with EXOC2, EXOC4 and EXOC5 (By similarity).				exocytosis|peptide hormone secretion	exocyst|stored secretory granule|transport vesicle					0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0021)|Epithelial(162;0.0073)|all cancers(182;0.0616)		CACCTCAATGGCCTGGGCCAG	0.642000													12	56					0	0	0.010729	0	0	
E2F4	1874	broad.mit.edu	37	16	67229832	67229832	+	Missense_Mutation	SNP	G	A	A	rs3830472		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:67229832G>A	uc002erz.2	+	7	1019	c.956G>A	c.(955-957)AGC>AAC	p.S319N		NM_001950	NP_001941	Q16254	E2F4_HUMAN	E2F transcription factor 4	319	Poly-Ser.		S -> SSSS.		G1 phase of mitotic cell cycle	transcription factor complex	DNA binding|protein domain specific binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			central_nervous_system(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.000697)|Epithelial(162;0.00303)|all cancers(182;0.0325)		agcagcagcagcaacagtaac	0.453000													5	175					0	0	0.001168	0	0	
ELMO3	79767	broad.mit.edu	37	16	67235910	67235910	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:67235910G>A	uc002esa.2	+	12	1283	c.1240G>A	c.(1240-1242)GTG>ATG	p.V414M	ELMO3_uc002esb.2_Missense_Mutation_p.V397M|ELMO3_uc002esc.2_Missense_Mutation_p.V248M	NM_024712	NP_078988	Q96BJ8	ELMO3_HUMAN	engulfment and cell motility 3	361	ELMO.				apoptosis|phagocytosis	cytoplasm|cytoskeleton	SH3 domain binding				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00067)|Epithelial(162;0.00442)|all cancers(182;0.0417)		CCTGGAGCGCGTGCCCCCCGG	0.667000													24	81					0	0	0.005443	0	0	
ACD	65057	broad.mit.edu	37	16	67692248	67692248	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:67692248C>T	uc002etq.3	-	10	1442	c.1105G>A	c.(1105-1107)GGC>AGC	p.G369S	ACD_uc002etp.3_Missense_Mutation_p.G366S|ACD_uc002etr.3_Missense_Mutation_p.G366S|ACD_uc010vjt.1_3'UTR|PARD6A_uc002ets.2_5'Flank|PARD6A_uc002ett.2_5'Flank|PARD6A_uc002etu.2_5'Flank	NM_001082486	NP_001075955	Q96AP0	ACD_HUMAN	adrenocortical dysplasia homolog isoform 1	369	Ser-rich.				intracellular protein transport|negative regulation of telomere maintenance via telomerase|positive regulation of single-stranded telomeric DNA binding|positive regulation of telomerase activity|protection from non-homologous end joining at telomere|protein localization to chromosome, telomeric region|telomere assembly	nuclear telomere cap complex|nucleoplasm	DNA binding|DNA polymerase binding			pancreas(1)	1		Acute lymphoblastic leukemia(13;3.76e-06)|all_hematologic(13;0.000303)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0143)|Epithelial(162;0.047)|all cancers(182;0.228)		GACATGTGGCCGGGTAAGGCC	0.632000													5	65					0	0	0.000602	0	0	
CDH1	999	broad.mit.edu	37	16	68844099	68844099	+	Splice_Site	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:68844099G>A	uc002ewg.1	+	6	812	c.688_splice	c.e6-1	p.L230_splice	CDH1_uc010vlj.1_Splice_Site|CDH1_uc010cfg.1_Splice_Site_p.L230_splice	NM_004360	NP_004351	P12830	CADH1_HUMAN	cadherin 1, type 1 preproprotein						adherens junction organization|cellular component disassembly involved in apoptosis|cellular response to indole-3-methanol|cellular response to lithium ion|homophilic cell adhesion|negative regulation of cell-cell adhesion|positive regulation of transcription factor import into nucleus|positive regulation of transcription, DNA-dependent|regulation of immune response	actin cytoskeleton|aggresome|apical junction complex|catenin complex|cell-cell adherens junction|endosome|focal adhesion|Golgi apparatus|integral to membrane|internal side of plasma membrane|lateral plasma membrane|perinuclear region of cytoplasm	cell adhesion molecule binding|gamma-catenin binding	p.?(1)		breast(148)|stomach(71)|biliary_tract(8)|endometrium(3)|soft_tissue(2)|large_intestine(2)|urinary_tract(2)|oesophagus(2)|ovary(2)|thyroid(1)|central_nervous_system(1)|lung(1)	243		all_neural(199;0.0189)|Ovarian(137;0.0563)		Epithelial(162;8.44e-05)|all cancers(182;0.000404)|OV - Ovarian serous cystadenocarcinoma(108;0.000426)|BRCA - Breast invasive adenocarcinoma(181;0.0261)		GGTTCTTTCAGCTCTTCTCTC	0.527000			Mis|N|F|S		lobular breast|gastric	gastric			Hereditary_Diffuse_Gastric_Cancer				21	205					0	0	0.005443	0	0	
DDX19B	11269	broad.mit.edu	37	16	70351442	70351442	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:70351442C>T	uc002eyo.2	+	5	469	c.340C>T	c.(340-342)CGT>TGT	p.R114C	DDX19B_uc010vly.1_Missense_Mutation_p.R114C|DDX19A_uc002eys.2_Intron|DDX19B_uc010vlv.1_Intron|DDX19B_uc010vlw.1_Missense_Mutation_p.R5C|DDX19B_uc002eyp.2_Intron|DDX19B_uc002eyq.2_Missense_Mutation_p.R5C|DDX19B_uc002eyr.2_Intron|DDX19B_uc010vlx.1_Intron|uc002eyt.2_Intron	NM_007242	NP_009173	Q9UMR2	DD19B_HUMAN	DEAD (Asp-Glu-Ala-As) box polypeptide 19 isoform	114	Q motif.				mRNA export from nucleus|protein transport|transmembrane transport	cytoplasm|nuclear membrane|nuclear pore	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding			kidney(1)	1		Ovarian(137;0.0694)				GGGTTTCAATCGTCCATCCAA	0.398000													13	75					0	0	0.002450	0	0	
DDX19A	55308	broad.mit.edu	37	16	70384460	70384460	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:70384460A>C	uc002eyv.2	+	2	129	c.58A>C	c.(58-60)ATG>CTG	p.M20L	DDX19B_uc010vly.1_Intron|DDX19A_uc002eys.2_Intron|DDX19A_uc010cfq.1_5'UTR|DDX19A_uc010cfr.2_5'UTR|DDX19A_uc010cfs.2_5'UTR|DDX19A_uc010vlz.1_Missense_Mutation_p.M20L	NM_018332	NP_060802	Q9NUU7	DD19A_HUMAN	DDX19-like protein	20					mRNA transport|protein transport|transmembrane transport	cytoplasm|nuclear membrane|nuclear pore	ATP binding|ATP-dependent helicase activity|RNA binding				0		Ovarian(137;0.221)				TTCTATTCAGATGACCAATTT	0.378000													6	36					0	0	0.001168	0	0	
COG4	25839	broad.mit.edu	37	16	70524291	70524291	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:70524291G>T	uc002ezc.2	-	13	1663	c.1652C>A	c.(1651-1653)ACT>AAT	p.T551N	COG4_uc002eza.2_5'UTR|COG4_uc002ezb.2_Intron|COG4_uc010cfu.2_RNA|COG4_uc002ezd.2_Intron|COG4_uc002eze.2_Missense_Mutation_p.T245N	NM_015386	NP_056201	Q9H9E3	COG4_HUMAN	component of oligomeric golgi complex 4	547					Golgi organization|Golgi vesicle prefusion complex stabilization|protein transport|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane|Golgi transport complex	protein binding				0		Ovarian(137;0.0694)				GTTGTTCAGAGTCACCTGGGA	0.522000													6	84					0.00198382	0.00205922	0.001984	1	0	
PHLPP2	23035	broad.mit.edu	37	16	71683682	71683682	+	Missense_Mutation	SNP	G	A	A	rs148247641	byFrequency	TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:71683682G>A	uc002fax.2	-	18	3089	c.3083C>T	c.(3082-3084)GCG>GTG	p.A1028V	PHLPP2_uc002fav.2_Intron|PHLPP2_uc010cgf.2_Missense_Mutation_p.A961V	NM_015020	NP_055835	Q6ZVD8	PHLP2_HUMAN	PH domain and leucine rich repeat protein	1028	PP2C-like.					cytoplasm|membrane|nucleus	metal ion binding|phosphoprotein phosphatase activity			ovary(1)|central_nervous_system(1)	2						AACTACCATCGCCCCTACATT	0.493000													12	262					0	0	0.001855	0	0	
DHX38	9785	broad.mit.edu	37	16	72138492	72138492	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:72138492C>T	uc002fcb.2	+	15	2473	c.2118C>T	c.(2116-2118)GGC>GGT	p.G706G	DHX38_uc010vmp.1_Intron	NM_014003	NP_054722	Q92620	PRP16_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 38	706					mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|nucleoplasm	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1		Ovarian(137;0.125)				ACATCCCTGGCCGTACCTTCC	0.547000													32	145					0	0	0.012213	0	0	
ZFHX3	463	broad.mit.edu	37	16	72991559	72991559	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:72991559A>G	uc002fck.2	-	2	3159	c.2486T>C	c.(2485-2487)ATG>ACG	p.M829T	ZFHX3_uc002fcl.2_Intron	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	829					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)				CATGTTATGCATGTGCTTCTC	0.562000													44	145					0	0	0.014410	0	0	
ZFHX3	463	broad.mit.edu	37	16	72993336	72993336	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:72993336G>A	uc002fck.2	-	2	1382	c.709C>T	c.(709-711)CGA>TGA	p.R237*	ZFHX3_uc002fcl.2_Intron	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	237					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)				CTTTTGTGTCGCACGTCAAAC	0.552000													13	152					0	0	0.013537	0	0	
ADAMTS18	170692	broad.mit.edu	37	16	77387780	77387780	+	Silent	SNP	T	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:77387780T>G	uc002ffc.3	-	10	1883	c.1464A>C	c.(1462-1464)ACA>ACC	p.T488T	ADAMTS18_uc010chc.1_Silent_p.T76T|ADAMTS18_uc002ffe.1_Silent_p.T184T	NM_199355	NP_955387	Q8TE60	ATS18_HUMAN	ADAM metallopeptidase with thrombospondin type 1	488	Peptidase M12B.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(4)|lung(4)|kidney(4)|skin(3)|breast(1)|ovary(1)|pancreas(1)	18						CCGCCTGAGGTGTGCTGTAAT	0.408000													6	203					0	0	0.003080	0	0	
GAN	8139	broad.mit.edu	37	16	81398592	81398592	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:81398592C>T	uc002fgo.2	+	8	1398	c.1250C>T	c.(1249-1251)GCA>GTA	p.A417V		NM_022041	NP_071324	Q9H2C0	GAN_HUMAN	gigaxonin	417	Kelch 3.				cell death	cytoplasm|neurofilament	protein binding			ovary(2)	2		Colorectal(91;0.153)				GGCTGCTATGCAGCTATGAAA	0.478000													6	90					0	0	0.001168	0	0	
ZC3H18	124245	broad.mit.edu	37	16	88675419	88675419	+	Missense_Mutation	SNP	G	T	T	rs116570026	by1000genomes	TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:88675419G>T	uc002fky.2	+	7	1366	c.1166G>T	c.(1165-1167)AGG>ATG	p.R389M	ZC3H18_uc010voy.1_Missense_Mutation_p.R272M|ZC3H18_uc010voz.1_Missense_Mutation_p.R413M|ZC3H18_uc010chw.2_5'Flank	NM_144604	NP_653205	Q86VM9	ZCH18_HUMAN	zinc finger CCCH-type containing 18	389						nucleus	nucleic acid binding|zinc ion binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.0542)		GAGAATTTCAGGGTGCAGTAT	0.408000													23	97					2.89027e-11	3.25884e-11	0.014323	1	0	
ANKRD11	29123	broad.mit.edu	37	16	89349977	89349977	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr16:89349977G>A	uc002fmx.1	-	9	3434	c.2973C>T	c.(2971-2973)GGC>GGT	p.G991G	ANKRD11_uc002fmy.1_Silent_p.G991G|ANKRD11_uc002fnc.1_Silent_p.G991G|ANKRD11_uc002fnb.1_Silent_p.G948G	NM_013275	NP_037407	Q6UB99	ANR11_HUMAN	ankyrin repeat domain 11	991	Lys-rich.					nucleus				ovary(4)|large_intestine(1)|central_nervous_system(1)	6		all_hematologic(23;0.00824)|Colorectal(91;0.0475)		Epithelial(1;5.33e-11)|all cancers(4;2.6e-09)|OV - Ovarian serous cystadenocarcinoma(4;2.29e-07)|BRCA - Breast invasive adenocarcinoma(80;0.0142)		TCCCAAAGTCGCCGTCGGACT	0.627000													6	196					0	0	0.001168	0	0	
C17orf97	400566	broad.mit.edu	37	17	263291	263291	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:263291C>T	uc002frh.2	+	3	703	c.687C>T	c.(685-687)CCC>CCT	p.P229P	C17orf97_uc010vpz.1_RNA	NM_001013672	NP_001013694	Q6ZQX7	CQ097_HUMAN	hypothetical protein LOC400566	229	3.|20 X 10 AA approximative tandem repeat of A-L-K-G-F-H-P-D-P-E.									ovary(1)	1						ACCCCGACCCCGACGCCCTCA	0.667000													16	33					0	0	0.004007	0	0	
PRPF8	10594	broad.mit.edu	37	17	1576732	1576732	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:1576732G>A	uc002fte.2	-	23	3690	c.3576C>T	c.(3574-3576)TTC>TTT	p.F1192F		NM_006445	NP_006436	Q6P2Q9	PRP8_HUMAN	U5 snRNP-specific protein	1192						catalytic step 2 spliceosome|nuclear speck|U5 snRNP	protein binding|RNA binding			lung(4)|ovary(2)	6				UCEC - Uterine corpus endometrioid carcinoma (25;0.0855)		TGCGGCACTCGAAGCCACACA	0.572000													18	68					0	0	0.006122	0	0	
RTN4RL1	146760	broad.mit.edu	37	17	1840671	1840671	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:1840671G>A	uc002ftp.2	-	2	464	c.445C>T	c.(445-447)CAC>TAC	p.H149Y		NM_178568	NP_848663	Q86UN2	R4RL1_HUMAN	reticulon 4 receptor-like 1 precursor	149					axon regeneration	anchored to plasma membrane	receptor activity				0						TGCAGGCTGTGCAGGCCGCCA	0.622000													19	65					0	0	0.012319	0	0	
HIC1	3090	broad.mit.edu	37	17	1961289	1961289	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:1961289G>A	uc010cjy.2	+	2	1362	c.1362G>A	c.(1360-1362)GCG>GCA	p.A454A	HIC1_uc002fty.3_Silent_p.A435A|HIC1_uc002ftz.3_Silent_p.A435A	NM_001098202	NP_001091672	Q14526	HIC1_HUMAN	hypermethylated in cancer 1 isoform 2	454	C2H2-type 1.				multicellular organismal development	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			large_intestine(1)	1				READ - Rectum adenocarcinoma(1115;0.236)		AGCTGAACGCGCACGTGGAGG	0.692000													4	20					0	0	0.009096	0	0	
SGSM2	9905	broad.mit.edu	37	17	2282757	2282757	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:2282757C>G	uc002fun.3	+	23	3139	c.2964C>G	c.(2962-2964)ATC>ATG	p.I988M	SGSM2_uc002fum.3_Missense_Mutation_p.I1033M|SGSM2_uc010vqw.1_Intron|SGSM2_uc002fup.1_3'UTR|SGSM2_uc002fuq.2_Missense_Mutation_p.I150M	NM_001098509	NP_001091979	O43147	SGSM2_HUMAN	RUN and TBC1 domain containing 1 isoform 2	988						intracellular	Rab GTPase activator activity				0				Colorectal(2;5.15e-05)|READ - Rectum adenocarcinoma(2;0.000115)		CCCAGGAGATCCTGCGGATTG	0.617000													16	40					0	0	0.004007	0	0	
GSG2	83903	broad.mit.edu	37	17	3629365	3629365	+	Silent	SNP	C	T	T	rs146730005		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:3629365C>T	uc002fwp.2	+	1	2169	c.2136C>T	c.(2134-2136)ACC>ACT	p.T712T	ITGAE_uc002fwo.3_Intron|ITGAE_uc002fwn.3_5'Flank	NM_031965	NP_114171	Q8TF76	HASP_HUMAN	haspin	712	Protein kinase.				cell cycle|chromatin modification|intracellular protein kinase cascade	nucleus	ATP binding|protein serine/threonine kinase activity				0						ACCTGTTTACCGGTGACGGTG	0.488000													25	67					0	0	0.003954	0	0	
ZZEF1	23140	broad.mit.edu	37	17	3980228	3980228	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:3980228C>T	uc002fxe.2	-	20	3109	c.3045G>A	c.(3043-3045)CAG>CAA	p.Q1015Q	ZZEF1_uc002fxk.1_Silent_p.Q1016Q	NM_015113	NP_055928	O43149	ZZEF1_HUMAN	zinc finger, ZZ type with EF hand domain 1	1015							calcium ion binding|zinc ion binding			ovary(2)|central_nervous_system(1)|pancreas(1)	4						TTCCACTGTACTGTGAGAAAA	0.363000													10	51					0	0	0.013537	0	0	
ANKFY1	51479	broad.mit.edu	37	17	4139185	4139185	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:4139185G>A	uc002fxq.1	-	3	242	c.204C>T	c.(202-204)AGC>AGT	p.S68S	ANKFY1_uc002fxn.2_Silent_p.S110S|ANKFY1_uc002fxo.2_Silent_p.S68S|ANKFY1_uc002fxp.2_Silent_p.S68S|ANKFY1_uc010ckp.2_Intron|ANKFY1_uc002fxr.2_Silent_p.S68S|ANKFY1_uc010vrz.1_Silent_p.S68S	NM_016376	NP_057460	Q9P2R3	ANFY1_HUMAN	ankyrin repeat and FYVE domain containing 1	68	BTB.					endosome membrane	metal ion binding|protein binding			ovary(2)|skin(1)	3						TCTTCAGATCGCTGATGAAGA	0.423000													34	132					0	0	0.004289	0	0	
RNF167	26001	broad.mit.edu	37	17	4846555	4846555	+	Silent	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:4846555G>T	uc002fzq.2	+	8	968	c.552G>T	c.(550-552)CTG>CTT	p.L184L	RNF167_uc002fzr.2_Silent_p.L184L|RNF167_uc002fzs.2_Silent_p.L184L|RNF167_uc002fzt.2_Silent_p.L184L|RNF167_uc002fzu.2_Silent_p.L184L|RNF167_uc002fzv.2_Silent_p.L149L|RNF167_uc002fzx.2_Silent_p.L149L|RNF167_uc002fzy.2_5'Flank	NM_015528	NP_056343	Q9H6Y7	RN167_HUMAN	ring finger protein 167 precursor	184	Helical; (Potential).				negative regulation of cell cycle|protein polyubiquitination	cytoplasm|endomembrane system|integral to membrane	protein binding|ubiquitin-protein ligase activity|zinc ion binding				0						TGGGACTGCTGGTTTTGGCCA	0.547000													12	48					2.27111e-07	2.48548e-07	0.013537	1	0	
CAMTA2	23125	broad.mit.edu	37	17	4876222	4876222	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:4876222G>A	uc002gah.1	-	15	2453	c.2345C>T	c.(2344-2346)GCA>GTA	p.A782V	CAMTA2_uc010cku.1_Missense_Mutation_p.A805V|CAMTA2_uc002gag.1_Missense_Mutation_p.A781V|CAMTA2_uc002gai.1_Missense_Mutation_p.A784V|CAMTA2_uc010ckv.1_Missense_Mutation_p.A429V	NM_015099	NP_055914	O94983	CMTA2_HUMAN	calmodulin binding transcription activator 2	782	ANK 2.				cardiac muscle hypertrophy in response to stress|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	calmodulin binding|chromatin binding|histone deacetylase binding|transcription factor binding			ovary(1)	1						AATGCTCAGTGCCTGTCGGTT	0.622000													10	110					0	0	0.006214	0	0	
NLRP1	22861	broad.mit.edu	37	17	5437297	5437297	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:5437297A>G	uc002gci.2	-	9	3527	c.2972T>C	c.(2971-2973)GTG>GCG	p.V991A	NLRP1_uc002gcg.1_Missense_Mutation_p.V991A|NLRP1_uc002gck.2_Missense_Mutation_p.V991A|NLRP1_uc002gcj.2_Missense_Mutation_p.V961A|NLRP1_uc002gcl.2_Missense_Mutation_p.V961A|NLRP1_uc002gch.3_Missense_Mutation_p.V991A|NLRP1_uc010clh.2_Missense_Mutation_p.V991A	NM_033004	NP_127497	Q9C000	NALP1_HUMAN	NLR family, pyrin domain containing 1 isoform 1	991					defense response to bacterium|induction of apoptosis|neuron apoptosis|positive regulation of interleukin-1 beta secretion|response to muramyl dipeptide	cytoplasm|NALP1 inflammasome complex|nucleus	ATP binding|caspase activator activity|enzyme binding|protein domain specific binding			lung(4)|breast(2)|ovary(1)|central_nervous_system(1)|skin(1)	9		Colorectal(1115;3.48e-05)				AGGGGTCATCACACTTGGTTT	0.498000													45	219					0	0	0.014410	0	0	
XAF1	54739	broad.mit.edu	37	17	6663872	6663872	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:6663872G>A	uc002gdn.2	+	4	615	c.373G>A	c.(373-375)GCC>ACC	p.A125T	XAF1_uc010clr.1_Missense_Mutation_p.A125T|XAF1_uc002gdm.1_Missense_Mutation_p.A65T|XAF1_uc002gdo.2_Missense_Mutation_p.A106T|XAF1_uc002gdp.2_Silent_p.S102S|XAF1_uc002gdq.2_Intron|XAF1_uc002gdr.2_Silent_p.S83S	NM_017523	NP_059993	Q6GPH4	XAF1_HUMAN	XIAP associated factor 1 isoform 1	125					apoptosis|type I interferon-mediated signaling pathway	mitochondrion|nucleus	zinc ion binding				0						CCGCATGCTCGCCCAGCACAG	0.592000													5	40					0	0	0.001168	0	0	
SLC16A11	162515	broad.mit.edu	37	17	6945994	6945994	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:6945994C>T	uc002gei.1	-	3	845	c.507G>A	c.(505-507)GCG>GCA	p.A169A		NM_153357	NP_699188	Q8NCK7	MOT11_HUMAN	solute carrier family 16, member 11	169	Helical; (Potential).					integral to membrane|plasma membrane	symporter activity			ovary(1)	1						TGCCGGTGAGCGCCAGCCCCA	0.682000													5	5					0	0	0.001168	0	0	
SLC2A4	6517	broad.mit.edu	37	17	7186847	7186847	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:7186847C>T	uc002gfp.2	+	3	406	c.206C>T	c.(205-207)CCC>CTC	p.P69L	SLC2A4_uc002gfo.2_Missense_Mutation_p.P69L|SLC2A4_uc010cmd.2_RNA	NM_001042	NP_001033	P14672	GTR4_HUMAN	glucose transporter 4	69	Extracellular (Potential).				carbohydrate metabolic process|glucose homeostasis|glucose import	external side of plasma membrane|integral to plasma membrane|perinuclear region of cytoplasm	D-glucose transmembrane transporter activity|protein binding				0						CCTGAGGGACCCAGCTCCATC	0.602000													19	122					0	0	0.006122	0	0	
SLC2A4	6517	broad.mit.edu	37	17	7189779	7189779	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:7189779C>T	uc002gfp.2	+	11	1561	c.1361C>T	c.(1360-1362)GCG>GTG	p.A454V	SLC2A4_uc010cmd.2_RNA	NM_001042	NP_001033	P14672	GTR4_HUMAN	glucose transporter 4	454	Helical; Name=12; (Potential).				carbohydrate metabolic process|glucose homeostasis|glucose import	external side of plasma membrane|integral to plasma membrane|perinuclear region of cytoplasm	D-glucose transmembrane transporter activity|protein binding				0						CTTCTATTTGCGGTCCTCCTG	0.562000													10	495					0	0	0.008291	0	0	
NEURL4	84461	broad.mit.edu	37	17	7221114	7221114	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:7221114T>C	uc002gga.1	-	26	4205	c.4198A>G	c.(4198-4200)AAC>GAC	p.N1400D	GPS2_uc002gfv.1_5'Flank|GPS2_uc002gfw.1_5'Flank|GPS2_uc002gfx.1_5'Flank|NEURL4_uc002gfy.1_RNA|GPS2_uc002gfz.1_5'UTR|NEURL4_uc002ggb.1_Missense_Mutation_p.N1398D	NM_032442	NP_115818	Q96JN8	NEUL4_HUMAN	neuralized homolog 4 isoform 1	1400							protein binding			upper_aerodigestive_tract(1)|ovary(1)	2						TACCTGAGGTTGAACCTGCAC	0.567000													5	61					0	0	0.001168	0	0	
KCTD11	147040	broad.mit.edu	37	17	7256534	7256534	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:7256534C>T	uc002gge.3	+	1	1327	c.273C>T	c.(271-273)CAC>CAT	p.H91H	TMEM95_uc002ggf.1_5'Flank|TMEM95_uc002ggg.1_5'Flank|TMEM95_uc002ggh.1_5'Flank	NM_001002914	NP_001002914	Q693B1	KCD11_HUMAN	potassium channel tetramerisation domain	91					cell cycle|regulation of growth	voltage-gated potassium channel complex	voltage-gated potassium channel activity				0		Prostate(122;0.157)				CCCTGCTCCACGCAGATGTAG	0.662000													15	57					0	0	0.002450	0	0	
ZBTB4	57659	broad.mit.edu	37	17	7366640	7366640	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:7366640G>A	uc002ghc.3	-	4	1911	c.1661C>T	c.(1660-1662)ACG>ATG	p.T554M	ZBTB4_uc002ghd.3_Missense_Mutation_p.T554M	NM_001128833	NP_001122305	Q9P1Z0	ZBTB4_HUMAN	zinc finger and BTB domain containing 4	554					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)|central_nervous_system(1)	4		Colorectal(1115;3.46e-05)|Myeloproliferative disorder(207;0.0255)		COAD - Colon adenocarcinoma(228;4.1e-06)|READ - Rectum adenocarcinoma(115;0.0642)		GGCCTCCTCCGTGGTGGTGGC	0.682000													4	21					0	0	0.000602	0	0	
ZBTB4	57659	broad.mit.edu	37	17	7369845	7369845	+	Silent	SNP	C	T	T	rs145401608		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:7369845C>T	uc002ghc.3	-	3	526	c.276G>A	c.(274-276)TCG>TCA	p.S92S	ZBTB4_uc002ghd.3_Silent_p.S92S	NM_001128833	NP_001122305	Q9P1Z0	ZBTB4_HUMAN	zinc finger and BTB domain containing 4	92	BTB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)|central_nervous_system(1)	4		Colorectal(1115;3.46e-05)|Myeloproliferative disorder(207;0.0255)		COAD - Colon adenocarcinoma(228;4.1e-06)|READ - Rectum adenocarcinoma(115;0.0642)		aggaagaagacgaggaagagg	0.418000													10	21					0	0	0.010729	0	0	
TNFSF12-TNFSF13	407977	broad.mit.edu	37	17	7463187	7463187	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:7463187T>C	uc002ghi.1	+	8	657	c.602T>C	c.(601-603)GTT>GCT	p.V201A	SENP3_uc002ghm.2_5'Flank|TNFSF13_uc002ghj.2_Missense_Mutation_p.V121A|TNFSF13_uc002ghk.2_Missense_Mutation_p.V121A|TNFSF13_uc002ghl.2_Intron|TNFSF13_uc010cmk.2_Missense_Mutation_p.V94A|TNFSF13_uc010vua.1_Missense_Mutation_p.V93A	NM_172089	NP_742086	Q8IZK7	Q8IZK7_HUMAN	TNFSF12-TNFSF13 protein	201					immune response	extracellular space|membrane	cytokine activity|tumor necrosis factor receptor binding				0		Prostate(122;0.157)				CTGCACCTGGTTCCCATTAAC	0.567000											OREG0024138	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	23	94					0	0	0.002780	0	0	
STX8	9482	broad.mit.edu	37	17	9395197	9395197	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:9395197G>A	uc002glx.2	-	6	640	c.490C>T	c.(490-492)CGC>TGC	p.R164C		NM_004853	NP_004844	Q9UNK0	STX8_HUMAN	syntaxin 8	164	t-SNARE coiled-coil homology.|Cytoplasmic (Potential).				transport	endoplasmic reticulum|integral to plasma membrane				central_nervous_system(1)	1						TGTTTTTGGCGACTTATGATA	0.363000													7	165					0	0	0.003080	0	0	
MYH8	4626	broad.mit.edu	37	17	10304654	10304654	+	Nonsense_Mutation	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:10304654C>A	uc002gmm.2	-	24	3141	c.3046G>T	c.(3046-3048)GAG>TAG	p.E1016*	uc002gml.1_Intron	NM_002472	NP_002463	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle,	1016	Potential.				muscle filament sliding	cytosol|muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			skin(6)|ovary(3)|breast(2)	11						TTGTCCTCCTCTGCCTGCAGG	0.453000									Trismus-Pseudocamptodactyly_Syndrome_with_Cardiac_Myxoma_and_Freckling				48	159					1.07234e-20	1.24449e-20	0.014410	1	0	
MYH1	4619	broad.mit.edu	37	17	10399358	10399358	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:10399358C>T	uc002gmo.2	-	35	5172	c.5078G>A	c.(5077-5079)CGG>CAG	p.R1693Q	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	1693	Potential.					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						CAGAGTGGCCCGCAGCTCCTC	0.597000													18	84					0	0	0.006122	0	0	
RICH2	9912	broad.mit.edu	37	17	12847420	12847420	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:12847420G>A	uc002gnr.3	+	10	1095	c.768G>A	c.(766-768)CCG>CCA	p.P256P	RICH2_uc010vvk.1_Silent_p.P256P|RICH2_uc010vvl.1_Silent_p.P256P|RICH2_uc002gns.3_Silent_p.P56P|RICH2_uc010vvm.1_Silent_p.P256P|RICH2_uc010vvn.1_RNA|RICH2_uc002gnt.1_5'UTR	NM_014859	NP_055674	Q17R89	RHG44_HUMAN	Rho GTPase-activating protein RICH2	256	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity				0						TCGGGAAGCCGCTGGAGGAGC	0.597000													14	38					0	0	0.001855	0	0	
ZNF287	57336	broad.mit.edu	37	17	16455348	16455348	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:16455348G>T	uc002gqi.2	-	6	2561	c.2108C>A	c.(2107-2109)CCC>CAC	p.P703H		NM_020653	NP_065704	Q9HBT7	ZN287_HUMAN	zinc finger protein 287	696					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0				UCEC - Uterine corpus endometrioid carcinoma (92;0.083)		ACATTTATAGGGTCTCTCTCC	0.368000													11	83					1.58986e-06	1.72457e-06	0.008291	1	0	
MPRIP	23164	broad.mit.edu	37	17	17030083	17030083	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:17030083G>A	uc002gqu.1	+	4	391	c.335G>A	c.(334-336)CGC>CAC	p.R112H	MPRIP_uc002gqv.1_Missense_Mutation_p.R112H	NM_201274	NP_958431	Q6WCQ1	MPRIP_HUMAN	myosin phosphatase-Rho interacting protein	112	Interaction with F-actin (By similarity).|PH 1.					cytoplasm|cytoskeleton	actin binding				0						GGGGAGGGCCGCACGGGCCAG	0.597000													5	70					0	0	0.000602	0	0	
MPRIP	23164	broad.mit.edu	37	17	17053492	17053492	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:17053492C>T	uc002gqu.1	+	12	1366	c.1310C>T	c.(1309-1311)GCA>GTA	p.A437V	MPRIP_uc002gqv.1_Missense_Mutation_p.A437V|MPRIP_uc002gqw.1_Missense_Mutation_p.A192V	NM_201274	NP_958431	Q6WCQ1	MPRIP_HUMAN	myosin phosphatase-Rho interacting protein	437	PH 2.					cytoplasm|cytoskeleton	actin binding				0						GACTTGTCCGCATGTTACGAT	0.488000													8	165					0	0	0.004482	0	0	
MYO15A	51168	broad.mit.edu	37	17	18058523	18058523	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:18058523G>A	uc010vxh.1	+	45	8662	c.8324G>A	c.(8323-8325)CGC>CAC	p.R2775H	MYO15A_uc010vxi.1_Missense_Mutation_p.R39H|MYO15A_uc010vxj.1_5'UTR|MYO15A_uc010vxk.1_Intron|MYO15A_uc010vxl.1_5'Flank	NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	2775	Tail.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					TACTTCTCCCGCATCTTCCCC	0.612000													3	38					0	0	0.004672	0	0	
CCDC144B	284047	broad.mit.edu	37	17	18486027	18486027	+	RNA	SNP	A	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:18486027A>T	uc002gua.3	-	11		c.2446T>A								Homo sapiens cDNA FLJ36492 fis, clone THYMU2018455.											ovary(1)|skin(1)	2						ACTTGTCAGAATCTGATCTTG	0.343000													8	54					0	0	0.003080	0	0	
EPN2	22905	broad.mit.edu	37	17	19232061	19232061	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:19232061G>A	uc002gvd.3	+	8	1633	c.1185G>A	c.(1183-1185)GTG>GTA	p.V395V	EPN2_uc010cql.1_Silent_p.V104V|EPN2_uc002gve.3_Silent_p.V338V|EPN2_uc002gvf.3_Silent_p.V110V|EPN2_uc010vyo.1_Silent_p.V103V|EPN2_uc010vyp.1_Silent_p.V331V|EPN2_uc010vyq.1_Silent_p.V332V|EPN2_uc002gvh.1_Silent_p.V395V|EPN2_uc002gvj.3_Silent_p.V58V	NM_014964	NP_055779	O95208	EPN2_HUMAN	epsin 2 isoform b	395	6 X 3 AA repeats of [DE]-P-W.				endocytosis		lipid binding			skin(1)	1	all_cancers(12;3.11e-05)|all_epithelial(12;0.00121)|Hepatocellular(7;0.00345)|Breast(13;0.143)					CATGGGGGGTGCCCACTGGAG	0.612000													6	100					0	0	0.001168	0	0	
TMEM11	8834	broad.mit.edu	37	17	21101784	21101784	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:21101784C>T	uc002gyp.2	-	2	875	c.432G>A	c.(430-432)TCG>TCA	p.S144S	TMEM11_uc002gyq.2_3'UTR	NM_003876	NP_003867	P17152	TMM11_HUMAN	transmembrane protein 11	144					mitochondrion organization	integral to mitochondrial inner membrane|integral to plasma membrane	protein binding				0						GAGGCAGGCGCGACAGTTTAT	0.597000													29	111					0	0	0.009535	0	0	
MAP2K3	5606	broad.mit.edu	37	17	21207775	21207775	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:21207775C>T	uc002gys.2	+	8	871	c.606C>T	c.(604-606)GGC>GGT	p.G202G	MAP2K3_uc002gyt.2_Silent_p.G173G|MAP2K3_uc002gyu.2_Silent_p.G173G	NM_145109	NP_659731	P46734	MP2K3_HUMAN	mitogen-activated protein kinase kinase 3	202	Protein kinase.				activation of MAPK activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of transcription, DNA-dependent|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|MAP kinase kinase activity|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0				COAD - Colon adenocarcinoma(3;0.0131)|Colorectal(15;0.0553)		ACAAGGAGGGCCATGTGAAGA	0.577000													10	71					0	0	0.006214	0	0	
Unknown	0	broad.mit.edu	37	17	21731270	21731270	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:21731270T>C	uc002gyy.3	+	2	697	c.572T>C	c.(571-573)ATC>ACC	p.I191T						SubName: Full=cDNA FLJ51326, highly similar to Homo sapiens ubiquitin B (UBB), mRNA;																		ATCCCCCCGATCAGCAGAGGC	0.547000													9	113					0	0	0.004482	0	0	
NOS2	4843	broad.mit.edu	37	17	26105983	26105983	+	Silent	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:26105983G>T	uc002gzu.2	-	10	1368	c.1104C>A	c.(1102-1104)CCC>CCA	p.P368P	NOS2_uc010crh.1_Silent_p.P368P|NOS2_uc010wab.1_Silent_p.P368P	NM_000625	NP_000616	P35228	NOS2_HUMAN	nitric oxide synthase 2A	368					arginine catabolic process|defense response to Gram-negative bacterium|innate immune response in mucosa|nitric oxide biosynthetic process|peptidyl-cysteine S-nitrosylation|platelet activation|positive regulation of killing of cells of other organism|positive regulation of leukocyte mediated cytotoxicity|regulation of cellular respiration|regulation of insulin secretion|superoxide metabolic process	cytosol|nucleus	arginine binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|protein homodimerization activity|tetrahydrobiopterin binding			skin(2)|ovary(1)|breast(1)	4					Dexamethasone(DB01234)|Hydrocortisone(DB00741)|L-Arginine(DB00125)|L-Citrulline(DB00155)	AGCCATTGAAGGGGCACCCTG	0.607000													27	93					1.5548e-18	1.7976e-18	0.005443	1	0	
NOS2	4843	broad.mit.edu	37	17	26107891	26107891	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:26107891G>A	uc002gzu.2	-	9	1170	c.906C>T	c.(904-906)TTC>TTT	p.F302F	NOS2_uc010crh.1_Silent_p.F302F|NOS2_uc010wab.1_Silent_p.F302F	NM_000625	NP_000616	P35228	NOS2_HUMAN	nitric oxide synthase 2A	302					arginine catabolic process|defense response to Gram-negative bacterium|innate immune response in mucosa|nitric oxide biosynthetic process|peptidyl-cysteine S-nitrosylation|platelet activation|positive regulation of killing of cells of other organism|positive regulation of leukocyte mediated cytotoxicity|regulation of cellular respiration|regulation of insulin secretion|superoxide metabolic process	cytosol|nucleus	arginine binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|protein homodimerization activity|tetrahydrobiopterin binding			skin(2)|ovary(1)|breast(1)	4					Dexamethasone(DB01234)|Hydrocortisone(DB00741)|L-Arginine(DB00125)|L-Citrulline(DB00155)	GGACCACATCGAAGCGGCCGT	0.622000													19	50					0	0	0.007413	0	0	
NOS2	4843	broad.mit.edu	37	17	26108173	26108173	+	Silent	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:26108173A>G	uc002gzu.2	-	8	1017	c.753T>C	c.(751-753)AGT>AGC	p.S251S	NOS2_uc010crh.1_Silent_p.S251S|NOS2_uc010wab.1_Silent_p.S251S	NM_000625	NP_000616	P35228	NOS2_HUMAN	nitric oxide synthase 2A	251					arginine catabolic process|defense response to Gram-negative bacterium|innate immune response in mucosa|nitric oxide biosynthetic process|peptidyl-cysteine S-nitrosylation|platelet activation|positive regulation of killing of cells of other organism|positive regulation of leukocyte mediated cytotoxicity|regulation of cellular respiration|regulation of insulin secretion|superoxide metabolic process	cytosol|nucleus	arginine binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|protein homodimerization activity|tetrahydrobiopterin binding			skin(2)|ovary(1)|breast(1)	4					Dexamethasone(DB01234)|Hydrocortisone(DB00741)|L-Arginine(DB00125)|L-Citrulline(DB00155)	GCTTGCCATCACTCCGCTGGG	0.622000													7	86					0	0	0.001984	0	0	
SLC13A2	9058	broad.mit.edu	37	17	26820707	26820707	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:26820707A>C	uc002hbh.2	+	7	1064	c.997A>C	c.(997-999)AGC>CGC	p.S333R	SLC13A2_uc010wal.1_Missense_Mutation_p.S290R|SLC13A2_uc010wam.1_Missense_Mutation_p.S289R|SLC13A2_uc010wan.1_Missense_Mutation_p.S382R|SLC13A2_uc010wao.1_Missense_Mutation_p.S290R|SLC13A2_uc002hbi.2_Missense_Mutation_p.S262R	NM_003984	NP_003975	Q13183	S13A2_HUMAN	solute carrier family 13, member 2 isoform b	333	Helical; (Potential).					integral to plasma membrane|membrane fraction	low affinity sodium:dicarboxylate symporter activity				0	all_lung(13;0.000871)|Lung NSC(42;0.0027)			UCEC - Uterine corpus endometrioid carcinoma (53;0.154)	Succinic acid(DB00139)	AAAGGCCATCAGCATCCTATT	0.572000													8	97					0	0	0.003080	0	0	
TRAF4	9618	broad.mit.edu	37	17	27071132	27071132	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:27071132T>C	uc002hcs.2	+	1	110	c.2T>C	c.(1-3)ATG>ACG	p.M1T	TRAF4_uc002hcq.1_Missense_Mutation_p.M1T	NM_004295	NP_004286	Q9BUZ4	TRAF4_HUMAN	TNF receptor-associated factor 4	1					apoptosis|positive regulation of JNK cascade|positive regulation of protein homodimerization activity|positive regulation of protein kinase activity|regulation of apoptosis|signal transduction	cytoskeleton|nucleus|perinuclear region of cytoplasm|tight junction	DNA binding|ubiquitin-protein ligase activity|WW domain binding|zinc ion binding			upper_aerodigestive_tract(1)|lung(1)	2	Lung NSC(42;0.01)		Epithelial(11;3.26e-05)|all cancers(11;0.000272)|OV - Ovarian serous cystadenocarcinoma(11;0.235)			TCGCCCGCCATGCCTGGCTTC	0.751000													6	20					0	0	0.001168	0	0	
CRYBA1	1411	broad.mit.edu	37	17	27579207	27579207	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:27579207G>A	uc002hdw.2	+	4	348	c.341G>A	c.(340-342)CGC>CAC	p.R114H		NM_005208	NP_005199	P05813	CRBA1_HUMAN	crystallin, beta A3	114	Beta/gamma crystallin 'Greek key' 2.				visual perception	soluble fraction	structural constituent of eye lens				0			BRCA - Breast invasive adenocarcinoma(11;3.3e-05)|Colorectal(6;0.0178)|COAD - Colon adenocarcinoma(6;0.0551)			ATGTCCTTCCGCCCCATCTGT	0.507000											OREG0024293	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	12	50					0	0	0.001855	0	0	
AATF	26574	broad.mit.edu	37	17	35306443	35306443	+	Silent	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:35306443C>A	uc002hni.2	+	1	269	c.18C>A	c.(16-18)CCC>CCA	p.P6P	AATF_uc002hnj.2_RNA	NM_012138	NP_036270	Q9NY61	AATF_HUMAN	apoptosis antagonizing transcription factor	6					anti-apoptosis|apoptosis|induction of apoptosis by extracellular signals|negative regulation of superoxide anion generation|nerve growth factor receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to DNA damage stimulus	centrosome|focal adhesion|nucleolus	leucine zipper domain binding|sequence-specific DNA binding transcription factor activity				0		Breast(25;0.00607)				GGCCGCAGCCCCTGGCGCTGC	0.697000													4	8					1.23904e-05	1.32531e-05	0.000602	1	0	
SYNRG	11276	broad.mit.edu	37	17	35921614	35921614	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:35921614A>C	uc002hoa.2	-	12	1642	c.1559T>G	c.(1558-1560)ATT>AGT	p.I520S	SYNRG_uc010wde.1_Missense_Mutation_p.I442S|SYNRG_uc010wdf.1_Missense_Mutation_p.I442S|SYNRG_uc002hoc.2_Missense_Mutation_p.I441S|SYNRG_uc002hoe.2_Missense_Mutation_p.I442S|SYNRG_uc002hod.2_Missense_Mutation_p.I442S|SYNRG_uc010wdg.1_Missense_Mutation_p.I359S|SYNRG_uc002hob.2_Missense_Mutation_p.I520S|SYNRG_uc002hof.2_Missense_Mutation_p.I232S|SYNRG_uc010cvd.1_Missense_Mutation_p.I320S	NM_007247	NP_009178	Q9UMZ2	SYNRG_HUMAN	synergin, gamma isoform 1	520	Interaction with A1P1G1 and A1P1G2.				endocytosis|intracellular protein transport	AP-1 adaptor complex	calcium ion binding			ovary(2)	2						GTCAGCTGCAATTCCTTTAAA	0.353000													13	34					0	0	0.013537	0	0	
PCGF2	7703	broad.mit.edu	37	17	36895090	36895090	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:36895090C>T	uc002hqp.1	-	7	584	c.341G>A	c.(340-342)CGC>CAC	p.R114H	PCGF2_uc002hqn.1_Missense_Mutation_p.R114H|PCGF2_uc002hqo.1_Missense_Mutation_p.R114H|PCGF2_uc010cvo.1_5'UTR|PCGF2_uc002hqq.1_Missense_Mutation_p.R114H	NM_007144	NP_009075	P35227	PCGF2_HUMAN	ring finger protein 110	114					negative regulation of transcription from RNA polymerase II promoter	PcG protein complex	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(1)|skin(1)	2	Breast(7;9.07e-22)					GACCTCGCCGCGGTCCTCATT	0.587000													15	54					0	0	0.004990	0	0	
CDK12	51755	broad.mit.edu	37	17	37650838	37650838	+	Silent	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:37650838A>G	uc010cvv.2	+	5	2896	c.2310A>G	c.(2308-2310)ACA>ACG	p.T770T	CDK12_uc010wef.1_Silent_p.T769T|CDK12_uc002hrw.3_Silent_p.T770T	NM_016507	NP_057591	Q9NYV4	CDK12_HUMAN	Cdc2-related kinase, arginine/serine-rich	770	Protein kinase.				mRNA processing|phosphorylation of RNA polymerase II C-terminal domain|protein autophosphorylation|regulation of MAP kinase activity|RNA splicing	nuclear cyclin-dependent protein kinase holoenzyme complex|nuclear speck|nucleolus	ATP binding|cyclin-dependent protein kinase activity|protein binding|RNA polymerase II carboxy-terminal domain kinase activity			ovary(10)|lung(4)|breast(2)|skin(2)|large_intestine(1)	19						TCCCAATCACAGCCATTCGTG	0.269000										TCGA Ovarian(9;0.13)			7	21					0	0	0.001984	0	0	
ERBB2	2064	broad.mit.edu	37	17	37881000	37881000	+	Missense_Mutation	SNP	G	A	A	rs121913471		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:37881000G>A	uc002hso.2	+	20	2567	c.2329G>A	c.(2329-2331)GTG>ATG	p.V777M	ERBB2_uc002hsm.2_Missense_Mutation_p.V747M|ERBB2_uc010cwa.2_Missense_Mutation_p.V762M|ERBB2_uc002hsp.2_Missense_Mutation_p.V580M|ERBB2_uc010cwb.2_Missense_Mutation_p.V777M|ERBB2_uc010wek.1_Missense_Mutation_p.V501M	NM_004448	NP_004439	P04626	ERBB2_HUMAN	erbB-2 isoform a	777	Cytoplasmic (Potential).|Protein kinase.				cell proliferation|heart development|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of cell adhesion|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|protein autophosphorylation|regulation of angiogenesis|regulation of microtubule-based process|regulation of transcription, DNA-dependent|transcription, DNA-dependent|wound healing	integral to membrane|nucleus|perinuclear region of cytoplasm|receptor complex	ATP binding|DNA binding|epidermal growth factor receptor activity|ErbB-3 class receptor binding|identical protein binding|protein C-terminus binding|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity	p.V777L(5)|p.V777A(2)|p.V777M(1)		lung(73)|central_nervous_system(16)|ovary(16)|stomach(14)|breast(9)|upper_aerodigestive_tract(5)|large_intestine(3)|liver(3)|endometrium(2)|skin(1)|pancreas(1)	143	all_cancers(6;1.06e-93)|all_epithelial(6;2.33e-113)|Breast(7;9.37e-100)|Lung NSC(9;9.76e-10)|all_lung(9;5.34e-09)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)	Ovarian(249;0.0547)|Colorectal(1115;0.234)	UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|Epithelial(3;9.42e-64)|all cancers(3;5.61e-57)|BRCA - Breast invasive adenocarcinoma(8;2.5e-45)|STAD - Stomach adenocarcinoma(3;9.03e-13)|Colorectal(5;6.23e-08)|COAD - Colon adenocarcinoma(5;8.58e-06)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|OV - Ovarian serous cystadenocarcinoma(8;0.0917)|LUSC - Lung squamous cell carcinoma(15;0.171)	UCEC - Uterine corpus endometrioid carcinoma (308;0.0767)	Lapatinib(DB01259)|Letrozole(DB01006)|Trastuzumab(DB00072)	GATGGCTGGTGTGGGCTCCCC	0.577000		1	A|Mis|O		breast|ovarian|other tumour types|NSCLC|gastric					TCGA GBM(5;<1E-08)			19	63					0	0	0.008871	0	0	
SMARCE1	6605	broad.mit.edu	37	17	38792295	38792295	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:38792295T>C	uc002hux.2	-	7	553	c.429A>G	c.(427-429)ATA>ATG	p.I143M	SMARCE1_uc010wff.1_Missense_Mutation_p.I108M|SMARCE1_uc010wfg.1_Missense_Mutation_p.I73M|SMARCE1_uc002huy.2_Missense_Mutation_p.I108M|SMARCE1_uc010wfh.1_Missense_Mutation_p.I73M|SMARCE1_uc010wfi.1_Missense_Mutation_p.I125M|SMARCE1_uc002huz.1_Missense_Mutation_p.I108M|SMARCE1_uc010wfj.1_Missense_Mutation_p.I125M	NM_003079	NP_003070	Q969G3	SMCE1_HUMAN	SWI/SNF-related matrix-associated	143					chromatin modification|negative regulation of transcription, DNA-dependent|nervous system development|nucleosome disassembly|regulation of transcription from RNA polymerase II promoter	nBAF complex|npBAF complex|nuclear chromosome|SWI/SNF complex|transcriptional repressor complex	chromatin binding|DNA binding|N-acetyltransferase activity|protein binding|protein N-terminus binding|transcription coactivator activity				0		Breast(137;0.000812)				TTTTTGCATTTATGTAAGCAA	0.383000													19	114					0	0	0.008871	0	0	
KRT39	390792	broad.mit.edu	37	17	39116718	39116718	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:39116718C>T	uc002hvo.1	-	6	1068	c.1032G>A	c.(1030-1032)GAG>GAA	p.E344E	KRT39_uc010wfm.1_Silent_p.E77E	NM_213656	NP_998821	Q6A163	K1C39_HUMAN	type I hair keratin KA35	344	Coil 2.|Rod.					intermediate filament	structural molecule activity				0		Breast(137;0.00043)|Ovarian(249;0.15)				TGTAGCGAGCCTCTGTCTCCG	0.512000													14	217					0	0	0.003163	0	0	
KRTAP4-11	653240	broad.mit.edu	37	17	39274206	39274206	+	Missense_Mutation	SNP	C	T	T	rs79388709		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:39274206C>T	uc002hvz.2	-	1	401	c.362G>A	c.(361-363)AGA>AAA	p.R121K		NM_033059	NP_149048	Q9BYQ6	KR411_HUMAN	keratin associated protein 4-11	121	20.|27 X 5 AA repeats of C-C-[GIKRQVHEL]- [SPTR]-[STVQRMC].					keratin filament					0		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000371)			gcactggggtctgcagcagct	0.100000													3	56					0	0	0.013537	0	0	
KRTAP4-4	84616	broad.mit.edu	37	17	39316761	39316761	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:39316761G>A	uc002hwc.2	-	1	223	c.183C>T	c.(181-183)TGC>TGT	p.C61C		NM_032524	NP_115913	Q9BYR3	KRA44_HUMAN	keratin associated protein 4.4	61	9.|26 X 5 AA repeats of C-C-[GRQVCH]-[SPT]- [VSTQR].		Missing (in allele KAP4.13).|Missing (in allele KAP4.4-v1).			keratin filament					0		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000449)			AGCTGGGGTGGCAGCAGGTGG	0.662000													6	127					0	0	0.001168	0	0	
KRTAP9-9	81870	broad.mit.edu	37	17	39412120	39412120	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:39412120C>T	uc010wfq.1	+	3	440	c.438C>T	c.(436-438)TCC>TCT	p.S146S		NM_030975	NP_112237	B5MDD6	B5MDD6_HUMAN	keratin associated protein 9-9	161						keratin filament					0		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000397)			CCTGTGTGTCCAGCTGCTGCC	0.562000													58	215					0	0	0.014410	0	0	
JUP	3728	broad.mit.edu	37	17	39919526	39919526	+	Silent	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:39919526C>A	uc002hxq.2	-	8	1483	c.1206G>T	c.(1204-1206)GTG>GTT	p.V402V	JUP_uc010wfs.1_Intron|JUP_uc002hxr.2_Silent_p.V402V|JUP_uc002hxs.2_Silent_p.V402V	NM_021991	NP_068831	P14923	PLAK_HUMAN	junction plakoglobin	402	ARM 5.				adherens junction organization|atrioventricular valve morphogenesis|cell migration|cell morphogenesis|cellular response to indole-3-methanol|cytoskeletal anchoring at plasma membrane|detection of mechanical stimulus|ectoderm development|endothelial cell-cell adhesion|gastrulation|morphogenesis of embryonic epithelium|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of Wnt receptor signaling pathway involved in heart development|nervous system development|oocyte development|positive regulation of protein import into nucleus|positive regulation of sequence-specific DNA binding transcription factor activity|skin development	actin cytoskeleton|Axin-APC-beta-catenin-GSK3B complex|basolateral plasma membrane|catenin complex|desmosome|fascia adherens|gamma-catenin-TCF7L2 complex|internal side of plasma membrane|nucleus|protein-DNA complex|Z disc|zonula adherens	alpha-catenin binding|cadherin binding|protein homodimerization activity|protein kinase binding|protein phosphatase binding|RPTP-like protein binding|specific RNA polymerase II transcription factor activity|transcription coactivator activity			ovary(2)|lung(2)|breast(1)	5		Breast(137;0.000162)	BRCA - Breast invasive adenocarcinoma(4;0.233)	BRCA - Breast invasive adenocarcinoma(366;0.15)		TGACGTCATCCACACTCAGCT	0.587000													6	74					0.000157383	0.000166601	0.003080	1	0	
STAT5B	6777	broad.mit.edu	37	17	40375517	40375517	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:40375517T>C	uc002hzh.2	-	5	602	c.433A>G	c.(433-435)AAC>GAC	p.N145D	STAT5B_uc002hzi.3_Missense_Mutation_p.N145D	NM_012448	NP_036580	P51692	STA5B_HUMAN	signal transducer and activator of transcription	145					2-oxoglutarate metabolic process|allantoin metabolic process|citrate metabolic process|creatine metabolic process|creatinine metabolic process|fatty acid metabolic process|isoleucine metabolic process|JAK-STAT cascade involved in growth hormone signaling pathway|oxaloacetate metabolic process|response to estradiol stimulus|succinate metabolic process|taurine metabolic process|valine metabolic process	cytosol|nucleoplasm	calcium ion binding|glucocorticoid receptor binding|sequence-specific DNA binding transcription factor activity			ovary(3)|lung(2)|skin(1)	6		all_cancers(22;4.15e-07)|all_epithelial(22;2.83e-05)|Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.135)	Dasatinib(DB01254)	AACGTCTGGTTGATCTGGAGG	0.537000													19	99					0	0	0.008871	0	0	
NAGLU	4669	broad.mit.edu	37	17	40690692	40690692	+	Missense_Mutation	SNP	G	A	A	rs146456266	byFrequency	TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:40690692G>A	uc002hzv.2	+	4	1023	c.683G>A	c.(682-684)CGG>CAG	p.R228Q		NM_000263	NP_000254	P54802	ANAG_HUMAN	alpha-N-acetylglucosaminidase precursor	228						lysosome	alpha-N-acetylglucosaminidase activity				0		all_cancers(22;1.58e-05)|Breast(137;0.000153)|all_epithelial(22;0.000344)		BRCA - Breast invasive adenocarcinoma(366;0.13)	N-Acetyl-D-glucosamine(DB00141)	CTCCAGCACCGGGTCCTGGAC	0.632000													18	59					0	0	0.010504	0	0	
MLX	6945	broad.mit.edu	37	17	40723569	40723569	+	Missense_Mutation	SNP	T	C	C	rs140676383		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:40723569T>C	uc002iag.2	+	8	910	c.845T>C	c.(844-846)CTG>CCG	p.L282P	MLX_uc002iaf.2_Missense_Mutation_p.L228P|MLX_uc002iah.2_Missense_Mutation_p.L198P	NM_170607	NP_733752	Q9UH92	MLX_HUMAN	transcription factor-like protein 4 isoform	282					energy reserve metabolic process|negative regulation of transcription, DNA-dependent|positive regulation of cellular metabolic process	cytoplasm|nucleus	DNA binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding				0		all_cancers(22;4.26e-05)|Breast(137;0.000153)|all_epithelial(22;0.00148)		BRCA - Breast invasive adenocarcinoma(366;0.129)		CGCCAGACCCTGCGGGAGATT	0.493000													46	156					0	0	0.014410	0	0	
PLEKHM1	9842	broad.mit.edu	37	17	43516967	43516967	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:43516967C>T	uc002ija.2	-	11	3105	c.2935G>A	c.(2935-2937)GCC>ACC	p.A979T	PLEKHM1_uc010wjm.1_Missense_Mutation_p.A951T|PLEKHM1_uc002ijb.2_Missense_Mutation_p.A454T	NM_014798	NP_055613	Q9Y4G2	PKHM1_HUMAN	pleckstrin homology domain containing, family M	979					intracellular signal transduction	cytoplasm	metal ion binding				0	Renal(3;0.0405)					TCAATCAGGGCCTTGAGGAAT	0.572000													11	46					0	0	0.010729	0	0	
XYLT2	64132	broad.mit.edu	37	17	48437638	48437638	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:48437638G>A	uc002iqo.2	+	11	2693	c.2584G>A	c.(2584-2586)GGG>AGG	p.G862R	XYLT2_uc010dbo.2_RNA	NM_022167	NP_071450	Q9H1B5	XYLT2_HUMAN	xylosyltransferase II	862	Lumenal (Potential).				glycosaminoglycan biosynthetic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	acetylglucosaminyltransferase activity|protein xylosyltransferase activity			pancreas(1)	1	Breast(11;7.18e-19)					CAAAGCAGACGGGCGACTCAG	0.652000													5	26					0	0	0.000602	0	0	
MYCBPAP	84073	broad.mit.edu	37	17	48598498	48598498	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:48598498A>G	uc010wmr.1	+	8	1235	c.1073A>G	c.(1072-1074)TAC>TGC	p.Y358C	MYCBPAP_uc002iqx.2_Missense_Mutation_p.Y358C|MYCBPAP_uc002iqz.2_RNA	NM_032133	NP_115509	Q8TBZ2	MYBPP_HUMAN	Myc-binding protein-associated protein	321					cell differentiation|multicellular organismal development|spermatogenesis|synaptic transmission	cytoplasm|membrane	protein binding			urinary_tract(2)|skin(2)|ovary(1)|pancreas(1)	6	Breast(11;1.23e-18)		BRCA - Breast invasive adenocarcinoma(22;1.23e-09)			GACGCTTCATACCGCTACACC	0.567000													9	18					0	0	0.006214	0	0	
WFIKKN2	124857	broad.mit.edu	37	17	48913367	48913367	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:48913367G>A	uc002isv.3	+	1	763	c.69G>A	c.(67-69)CTG>CTA	p.L23L	WFIKKN2_uc010dbu.2_Intron	NM_175575	NP_783165	Q8TEU8	WFKN2_HUMAN	WFIKKN2 protein	23						extracellular region	metalloendopeptidase inhibitor activity|protein binding|serine-type endopeptidase inhibitor activity			ovary(2)|skin(1)	3			BRCA - Breast invasive adenocarcinoma(22;1.09e-08)			tgctgctgctgctactgctCG	0.612000													6	18					0	0	0.001168	0	0	
DGKE	8526	broad.mit.edu	37	17	54939267	54939267	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:54939267A>G	uc002iur.2	+	10	1580	c.1400A>G	c.(1399-1401)TAC>TGC	p.Y467C	DGKE_uc002ius.1_Missense_Mutation_p.Y467C	NM_003647	NP_003638	P52429	DGKE_HUMAN	diacylglycerol kinase epsilon	467					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|phospholipid biosynthetic process|platelet activation	integral to membrane|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding|protein binding			breast(2)	2	Breast(9;3.59e-07)					GACGAGACTTACCCTCTAGCC	0.423000													22	149					0	0	0.014323	0	0	
TRIM25	7706	broad.mit.edu	37	17	54969487	54969487	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:54969487C>T	uc002iut.2	-	9	1527	c.1467G>A	c.(1465-1467)CGG>CGA	p.R489R	TRIM25_uc010dcj.2_Silent_p.R281R	NM_005082	NP_005073	Q14258	TRI25_HUMAN	tripartite motif-containing 25	489	B30.2/SPRY.				innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production|response to virus	cell junction|cytosol|nucleus	sequence-specific DNA binding transcription factor activity|ubiquitin-protein ligase activity|zinc ion binding			lung(1)|breast(1)|skin(1)	3	Breast(9;6.15e-08)					GGGGATGCGGCCGGTAGTTCT	0.532000													5	61					0	0	0.001168	0	0	
EPX	8288	broad.mit.edu	37	17	56276417	56276417	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:56276417G>A	uc002ivq.2	+	8	1223	c.1137G>A	c.(1135-1137)ACG>ACA	p.T379T		NM_000502	NP_000493	P11678	PERE_HUMAN	eosinophil peroxidase preproprotein	379					hydrogen peroxide catabolic process		heme binding|peroxidase activity|protein binding			ovary(2)	2						CCCGATCAACGGAAACCCCCA	0.567000													12	38					0	0	0.001855	0	0	
BZRAP1	9256	broad.mit.edu	37	17	56385063	56385063	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:56385063A>G	uc002ivx.3	-	24	5763	c.4892T>C	c.(4891-4893)GTG>GCG	p.V1631A	BZRAP1_uc002ivv.2_5'Flank|BZRAP1_uc002ivw.2_5'Flank|BZRAP1_uc010dcs.2_Missense_Mutation_p.V1571A|BZRAP1_uc010wnt.1_Missense_Mutation_p.V1631A	NM_004758	NP_004749	O95153	RIMB1_HUMAN	peripheral benzodiazepine receptor-associated	1631	SH3 2.					mitochondrion	benzodiazepine receptor binding			upper_aerodigestive_tract(2)|skin(1)	3	Medulloblastoma(34;0.127)|all_neural(34;0.237)					AAACAGAGCCACAAAGATCCT	0.567000													18	55					0	0	0.004990	0	0	
TBC1D3P2	440452	broad.mit.edu	37	17	60342454	60342454	+	RNA	SNP	T	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:60342454T>G	uc010woz.1	-	14		c.1675A>C				NR_027486				Homo sapiens cDNA FLJ60189 complete cds, highly similar to TBC1 domain family member 3.												0						AGCACACTGCTGTTCGTCCCT	0.612000													9	132					0	0	0.008291	0	0	
MRC2	9902	broad.mit.edu	37	17	60743600	60743600	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:60743600C>T	uc002jad.2	+	3	1068	c.666C>T	c.(664-666)GAC>GAT	p.D222D	MRC2_uc002jac.2_Silent_p.D222D	NM_006039	NP_006030	Q9UBG0	MRC2_HUMAN	mannose receptor, C type 2	222	Extracellular (Potential).|Fibronectin type-II.				endocytosis	integral to membrane	receptor activity|sugar binding			ovary(1)|central_nervous_system(1)|skin(1)	3						ACGGCAAAGACGAGCGCTGGG	0.657000													5	10					0	0	0.000602	0	0	
TANC2	26115	broad.mit.edu	37	17	61498207	61498207	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:61498207G>A	uc002jal.3	+	25	4887	c.4864G>A	c.(4864-4866)GTC>ATC	p.V1622I	TANC2_uc010wpe.1_3'UTR|TANC2_uc002jao.3_Missense_Mutation_p.V733I	NM_025185	NP_079461	Q9HCD6	TANC2_HUMAN	tetratricopeptide repeat, ankyrin repeat and	1622							binding			ovary(2)	2						CAGCCCAGCCGTCCATTCAAG	0.567000													25	117					0	0	0.006320	0	0	
MAP3K3	4215	broad.mit.edu	37	17	61744414	61744414	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:61744414T>C	uc002jbg.2	+	6	815	c.496T>C	c.(496-498)TCT>CCT	p.S166P	MAP3K3_uc002jbe.2_Missense_Mutation_p.S197P|MAP3K3_uc002jbf.2_Missense_Mutation_p.S197P|MAP3K3_uc002jbh.2_Missense_Mutation_p.S197P|MAP3K3_uc010wpo.1_Missense_Mutation_p.S81P|MAP3K3_uc010wpp.1_Missense_Mutation_p.S166P	NM_002401	NP_002392	Q99759	M3K3_HUMAN	mitogen-activated protein kinase kinase kinase 3	166					MAPKKK cascade|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein autophosphorylation	cytosol	ATP binding|MAP kinase kinase kinase activity|metal ion binding|protein binding			lung(3)|upper_aerodigestive_tract(1)|large_intestine(1)|breast(1)	6						CAGGCACCTCTCTGTCAGTGA	0.448000													6	86					0	0	0.004482	0	0	
TEX2	55852	broad.mit.edu	37	17	62291431	62291431	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:62291431C>A	uc002jec.2	-	2	320	c.147G>T	c.(145-147)GAG>GAT	p.E49D	TEX2_uc002jed.2_Missense_Mutation_p.E49D|TEX2_uc002jee.2_Missense_Mutation_p.E49D	NM_018469	NP_060939	Q8IWB9	TEX2_HUMAN	testis expressed sequence 2	49	Poly-Glu.				signal transduction|sphingolipid metabolic process	integral to membrane				ovary(1)	1			BRCA - Breast invasive adenocarcinoma(8;1.33e-10)	READ - Rectum adenocarcinoma(1115;0.0689)		TGAActcctcctcctcttcct	0.473000													17	103					2.23348e-06	2.41421e-06	0.004007	1	0	
RGS9	8787	broad.mit.edu	37	17	63156438	63156438	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:63156438G>A	uc002jfe.2	+	4	403	c.293G>A	c.(292-294)GGC>GAC	p.G98D	RGS9_uc010dem.2_Missense_Mutation_p.G98D|RGS9_uc002jfd.2_Missense_Mutation_p.G98D|RGS9_uc002jff.2_RNA	NM_003835	NP_003826	O75916	RGS9_HUMAN	regulator of G-protein signaling 9 isoform 1	98	DEP.				intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway|visual perception	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			ovary(2)|skin(2)	4						AAGCCTGATGGCAGCCTCTAC	0.473000													18	68					0	0	0.008871	0	0	
BPTF	2186	broad.mit.edu	37	17	65940481	65940481	+	Silent	SNP	A	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:65940481A>C	uc002jgf.2	+	20	6754	c.6693A>C	c.(6691-6693)ACA>ACC	p.T2231T	BPTF_uc002jge.2_Silent_p.T2357T|BPTF_uc002jgg.2_Silent_p.T31T	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	2357	Thr-rich.				brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			ovary(2)|skin(2)	4	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)			TTTCCACGACAGCAGCAGGTA	0.512000													22	71					0	0	0.012319	0	0	
SDK2	54549	broad.mit.edu	37	17	71426743	71426743	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:71426743C>T	uc010dfm.2	-	12	1490	c.1490G>A	c.(1489-1491)CGC>CAC	p.R497H	SDK2_uc010dfn.2_Missense_Mutation_p.R176H	NM_001144952	NP_001138424	Q58EX2	SDK2_HUMAN	sidekick 2	497	Extracellular (Potential).|Ig-like C2-type 6.				cell adhesion	integral to membrane				ovary(2)	2						CTTGGTGATGCGGGTCCGAGC	0.592000													8	9					0	0	0.003080	0	0	
TTYH2	94015	broad.mit.edu	37	17	72245498	72245498	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:72245498A>G	uc002jkc.2	+	8	921	c.890A>G	c.(889-891)TAC>TGC	p.Y297C	TTYH2_uc010wqw.1_Missense_Mutation_p.Y276C|TTYH2_uc002jkd.2_5'UTR	NM_032646	NP_116035	Q9BSA4	TTYH2_HUMAN	tweety 2 isoform 1	297	Extracellular (Potential).					chloride channel complex|plasma membrane	chloride channel activity|protein binding			ovary(3)|large_intestine(1)	4						ACTCGCTACTACCTGTATTGC	0.602000													45	164					0	0	0.014410	0	0	
GPR142	350383	broad.mit.edu	37	17	72368072	72368072	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:72368072C>T	uc010wqy.1	+	4	722	c.722C>T	c.(721-723)GCC>GTC	p.A241V	GPR142_uc010wqx.1_Missense_Mutation_p.A153V	NM_181790	NP_861455	Q7Z601	GP142_HUMAN	G protein-coupled receptor 142	241	Helical; Name=3; (Potential).					cell junction|cytoplasm|integral to membrane	G-protein coupled receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4						GAGTTTGCTGCCAACCACGCC	0.682000													8	34					0	0	0.004482	0	0	
CD300A	11314	broad.mit.edu	37	17	72470778	72470778	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:72470778C>A	uc002jkv.2	+	3	808	c.487C>A	c.(487-489)CAC>AAC	p.H163N	CD300A_uc002jkw.2_Missense_Mutation_p.H50N|CD300A_uc010dfr.2_Missense_Mutation_p.H50N|CD300A_uc010dfs.2_Intron	NM_007261	NP_009192	Q9UGN4	CLM8_HUMAN	leukocyte membrane antigen	163	Extracellular (Potential).				cell adhesion	integral to membrane|plasma membrane	receptor activity			ovary(1)|skin(1)	2						GGGTGCCACCCACAGTGCCAG	0.552000													17	65					1.67942e-08	1.86114e-08	0.006122	1	0	
NUP85	79902	broad.mit.edu	37	17	73229063	73229063	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:73229063G>A	uc002jng.1	+	15	1774	c.1514G>A	c.(1513-1515)AGG>AAG	p.R505K	NUP85_uc010dgd.1_Missense_Mutation_p.R460K|NUP85_uc010wrv.1_Missense_Mutation_p.R459K|NUP85_uc002jnh.1_Missense_Mutation_p.R108K	NM_024844	NP_079120	Q9BW27	NUP85_HUMAN	nucleoporin 85	505					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|nuclear membrane|Nup107-160 complex|spindle	protein binding			ovary(1)	1	all_lung(278;0.14)|Lung NSC(278;0.168)		all cancers(21;3.45e-06)			GTGTCAGACAGGTGGGTGCCG	0.617000													23	110					0	0	0.014323	0	0	
ITGB4	3691	broad.mit.edu	37	17	73753308	73753308	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:73753308C>G	uc002jpg.2	+	39	5433	c.5246C>G	c.(5245-5247)GCC>GGC	p.A1749G	ITGB4_uc002jph.2_Missense_Mutation_p.A1679G|ITGB4_uc002jpi.3_Missense_Mutation_p.A1679G|ITGB4_uc002jpj.2_Missense_Mutation_p.A1732G|GALK1_uc010wsi.1_Intron	NM_000213	NP_000204	P16144	ITB4_HUMAN	integrin beta 4 isoform 1 precursor	1749	Cytoplasmic (Potential).				cell communication|cell motility|cell-matrix adhesion|hemidesmosome assembly|integrin-mediated signaling pathway|multicellular organismal development|response to wounding	cell leading edge|cell surface|hemidesmosome|integrin complex	protein binding|receptor activity			lung(4)	4	all_cancers(13;1.5e-07)		all cancers(21;8.32e-07)|Epithelial(20;1.92e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00194)|Lung(188;0.132)|LUSC - Lung squamous cell carcinoma(166;0.154)			GGCAGCCGTGCCGGGCTCTTC	0.672000													19	87					0	0	0.008871	0	0	
RNF157	114804	broad.mit.edu	37	17	74151699	74151699	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:74151699C>T	uc002jqz.2	-	15	1711	c.1642G>A	c.(1642-1644)GGA>AGA	p.G548R	RNF157_uc002jra.2_Missense_Mutation_p.G548R|uc002jrb.1_5'Flank	NM_052916	NP_443148	Q96PX1	RN157_HUMAN	ring finger protein 157	548							zinc ion binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(166;0.187)			AGAGCCTCTCCCTCCTCTTCA	0.607000													10	38					0	0	0.006214	0	0	
C1QTNF1	114897	broad.mit.edu	37	17	77040120	77040120	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:77040120C>A	uc002jwp.2	+	2	410	c.70C>A	c.(70-72)CTG>ATG	p.L24M	C1QTNF1_uc002jwq.2_Intron|C1QTNF1_uc002jwr.3_Missense_Mutation_p.L34M|C1QTNF1_uc002jws.2_Missense_Mutation_p.L24M|C1QTNF1_uc002jwt.2_Missense_Mutation_p.L122M	NM_030968	NP_112230	Q9BXJ1	C1QT1_HUMAN	C1q and tumor necrosis factor related protein 1	24						collagen				ovary(1)	1			BRCA - Breast invasive adenocarcinoma(99;0.0294)|OV - Ovarian serous cystadenocarcinoma(97;0.201)			TGGCCTGGTCCTGAGTCGTGT	0.657000													19	64					1.33834e-09	1.49529e-09	0.007413	1	0	
CCDC40	55036	broad.mit.edu	37	17	78011966	78011966	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:78011966G>A	uc010dht.2	+	2	101	c.74G>A	c.(73-75)GGG>GAG	p.G25E	TBC1D16_uc002jxj.2_5'Flank|CCDC40_uc010wub.1_Missense_Mutation_p.G25E	NM_017950	NP_060420	Q4G0X9	CCD40_HUMAN	coiled-coil domain containing 40	25					axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium|cytoplasm				ovary(3)	3	all_neural(118;0.167)		OV - Ovarian serous cystadenocarcinoma(97;0.0292)|BRCA - Breast invasive adenocarcinoma(99;0.149)			GAGAAGGAAGGGAATAATGAA	0.378000													5	21					0	0	0.000602	0	0	
RNF213	57674	broad.mit.edu	37	17	78363029	78363029	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:78363029C>T	uc002jyh.1	+	40	9499	c.9276C>T	c.(9274-9276)AGC>AGT	p.S3092S	uc002jyi.1_Intron|RNF213_uc010dhx.1_Silent_p.S36S	NM_020914	NP_065965	Q9HCF4	ALO17_HUMAN	ring finger protein 213	Error:Variant_position_missing_in_Q9HCF4_after_alignment								p.S3092N(1)		ovary(8)|lung(6)|breast(3)|large_intestine(2)|central_nervous_system(1)|pancreas(1)	21	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			AGTCCTACAGCGATGCCTGTG	0.532000													4	136					0	0	0.009096	0	0	
RPTOR	57521	broad.mit.edu	37	17	78865595	78865595	+	Nonsense_Mutation	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:78865595G>T	uc002jyt.1	+	18	2864	c.2059G>T	c.(2059-2061)GAA>TAA	p.E687*	RPTOR_uc010wug.1_Nonsense_Mutation_p.E529*	NM_020761	NP_065812	Q8N122	RPTOR_HUMAN	raptor isoform 1	687					cell cycle arrest|cell growth|cellular response to amino acid stimulus|cellular response to nutrient levels|insulin receptor signaling pathway|positive regulation of protein serine/threonine kinase activity|positive regulation of TOR signaling cascade|TOR signaling cascade	cytosol|lysosome|TORC1 complex	protein complex binding			lung(4)|urinary_tract(1)|ovary(1)	6						GCAGTTCATAGAAGAGGAAAA	0.547000													8	159					0.00307968	0.00318596	0.003080	1	0	
ZNF750	79755	broad.mit.edu	37	17	80788060	80788060	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr17:80788060C>T	uc002kga.2	-	3	2441	c.2130G>A	c.(2128-2130)ACG>ACA	p.T710T	TBCD_uc002kfx.1_Intron|TBCD_uc002kfy.1_Intron|TBCD_uc002kfz.2_Intron	NM_024702	NP_078978	Q32MQ0	ZN750_HUMAN	zinc finger protein 750	710						intracellular	zinc ion binding			central_nervous_system(1)	1	Breast(20;0.000523)|all_neural(118;0.0779)	all_cancers(8;0.0514)|all_epithelial(8;0.0748)	OV - Ovarian serous cystadenocarcinoma(97;0.0868)|BRCA - Breast invasive adenocarcinoma(99;0.149)			ACACTCTGGCCGTGTCCTGCA	0.572000													21	90					0	0	0.012319	0	0	
MYOM1	8736	broad.mit.edu	37	18	3135622	3135622	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr18:3135622C>T	uc002klp.2	-	15	2466	c.2132G>A	c.(2131-2133)CGT>CAT	p.R711H	MYOM1_uc002klq.2_Missense_Mutation_p.R711H	NM_003803	NP_003794	P52179	MYOM1_HUMAN	myomesin 1 isoform a	711	Fibronectin type-III 2.					striated muscle myosin thick filament	structural constituent of muscle			ovary(3)|central_nervous_system(1)|pancreas(1)	5						ACAGCGGACACGGAAACAGTA	0.522000													4	40					0	0	0.009096	0	0	
EPB41L3	23136	broad.mit.edu	37	18	5397403	5397403	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr18:5397403G>A	uc002kmt.1	-	18	2581	c.2495C>T	c.(2494-2496)TCC>TTC	p.S832F	EPB41L3_uc010wzh.1_Missense_Mutation_p.S663F|EPB41L3_uc002kmu.1_Missense_Mutation_p.S610F|EPB41L3_uc010dkq.1_Missense_Mutation_p.S501F|EPB41L3_uc002kms.1_Missense_Mutation_p.S67F|EPB41L3_uc010wze.1_Missense_Mutation_p.S137F|EPB41L3_uc010wzf.1_Missense_Mutation_p.S129F|EPB41L3_uc010wzg.1_Missense_Mutation_p.S104F|EPB41L3_uc010dkr.2_Missense_Mutation_p.S224F	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	832	Spectrin--actin-binding (Potential).				cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						TATTCCACTGGACTCCGTCTT	0.537000													35	78					0	0	0.006230	0	0	
LAMA1	284217	broad.mit.edu	37	18	6997771	6997771	+	Silent	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr18:6997771T>C	uc002knm.2	-	33	4870	c.4776A>G	c.(4774-4776)TCA>TCG	p.S1592S	LAMA1_uc010wzj.1_Silent_p.S1068S	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	1592	Domain II and I.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TTTCCAGGTTTGACAAAATTC	0.418000													9	67					0	0	0.006214	0	0	
CIDEA	1149	broad.mit.edu	37	18	12274251	12274251	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr18:12274251A>C	uc002kqt.3	+	4	555	c.490A>C	c.(490-492)ACG>CCG	p.T164P	CIDEA_uc002kqu.3_Missense_Mutation_p.T198P|CIDEA_uc010dlc.2_RNA	NM_001279	NP_001270	O60543	CIDEA_HUMAN	cell death-inducing DFFA-like effector a isoform	164					DNA damage response, signal transduction resulting in induction of apoptosis|DNA fragmentation involved in apoptotic nuclear change|lipid metabolic process|lipid storage|negative regulation of apoptosis|negative regulation of cytokine secretion|negative regulation of lipid catabolic process|negative regulation of transforming growth factor beta receptor signaling pathway|negative regulation of tumor necrosis factor production|positive regulation of sequestering of triglyceride|temperature homeostasis	mitochondrial envelope|nucleus	protein homodimerization activity			ovary(1)|central_nervous_system(1)	2						CATCCGGTGCACGGGACTCAA	0.592000													14	63					0	0	0.002450	0	0	
FAM59A	64762	broad.mit.edu	37	18	29890192	29890192	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr18:29890192G>A	uc002kxl.2	-	3	413	c.357C>T	c.(355-357)CGC>CGT	p.R119R	FAM59A_uc002kxk.1_Silent_p.R119R	NM_022751	NP_073588	Q9H706	FA59A_HUMAN	family with sequence similarity 59, member A	119	CABIT.									ovary(1)|skin(1)	2						TGACGTACACGCGTTCAGGAA	0.413000													5	118					0	0	0.001168	0	0	
ASXL3	80816	broad.mit.edu	37	18	31326030	31326030	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr18:31326030C>T	uc010dmg.1	+	12	6273	c.6218C>T	c.(6217-6219)ACG>ATG	p.T2073M	ASXL3_uc002kxq.2_Missense_Mutation_p.T1780M	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	2073					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						CCACAGTCCACGGGCATATGT	0.398000													6	94					0	0	0.001984	0	0	
INO80C	125476	broad.mit.edu	37	18	33077704	33077704	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr18:33077704C>T	uc002kyy.3	-	1	252	c.135G>A	c.(133-135)GCG>GCA	p.A45A	INO80C_uc002kyw.1_Silent_p.A45A|INO80C_uc002kyx.3_5'Flank|INO80C_uc010dmt.2_Silent_p.A45A	NM_194281	NP_919257	Q6PI98	IN80C_HUMAN	Ies6-similar protein isoform 2	45					DNA recombination|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Ino80 complex|MLL1 complex					0						TGGAAGCGGACGCTTTTTTCT	0.672000													4	18					0	0	0.009096	0	0	
KIAA1632	57724	broad.mit.edu	37	18	43440128	43440128	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr18:43440128G>A	uc002lbm.2	-	40	7050	c.6950C>T	c.(6949-6951)GCG>GTG	p.A2317V	KIAA1632_uc010xcq.1_Missense_Mutation_p.A871V|KIAA1632_uc010xcr.1_RNA|KIAA1632_uc010xcs.1_RNA|KIAA1632_uc002lbn.2_Missense_Mutation_p.A1192V	NM_020964	NP_066015	Q9HCE0	EPG5_HUMAN	hypothetical protein LOC57724	2317					autophagy						0						GCGGACGGACGCCAGGCTCTG	0.532000													8	92					0	0	0.008291	0	0	
C18orf25	147339	broad.mit.edu	37	18	43795862	43795862	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr18:43795862G>A	uc002lbw.2	+	2	395	c.16G>A	c.(16-18)GCA>ACA	p.A6T	C18orf25_uc002lbx.2_Missense_Mutation_p.A6T	NM_145055	NP_659492	Q96B23	CR025_HUMAN	ARKadia-like 1 isoform a	6										central_nervous_system(2)	2						GATGGAGGAGGCAGTGGGAAA	0.418000													17	51					0	0	0.006122	0	0	
ACAA2	10449	broad.mit.edu	37	18	47323922	47323922	+	Missense_Mutation	SNP	G	A	A	rs145076043		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr18:47323922G>A	uc002ldw.3	-	3	623	c.226C>T	c.(226-228)CGT>TGT	p.R76C	ACAA2_uc002ldx.3_Missense_Mutation_p.R73C	NM_006111	NP_006102	P42765	THIM_HUMAN	acetyl-coenzyme A acyltransferase 2	76					anti-apoptosis|cholesterol biosynthetic process		acetyl-CoA C-acyltransferase activity|protein binding			ovary(1)	1						ATTCCCACACGCAAACCAACA	0.388000													14	63					0	0	0.004990	0	0	
CDH7	1005	broad.mit.edu	37	18	63477150	63477150	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr18:63477150A>G	uc002ljz.2	+	3	746	c.421A>G	c.(421-423)ATC>GTC	p.I141V	CDH7_uc002lka.2_Missense_Mutation_p.I141V|CDH7_uc002lkb.2_Missense_Mutation_p.I141V	NM_033646	NP_387450	Q9ULB5	CADH7_HUMAN	cadherin 7, type 2 preproprotein	141	Extracellular (Potential).|Cadherin 1.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4		Esophageal squamous(42;0.129)				GGAGTTTGTCATCAAAATTCA	0.512000													22	93					0	0	0.003330	0	0	
CBLN2	147381	broad.mit.edu	37	18	70209217	70209217	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr18:70209217A>G	uc002lku.2	-	2	414	c.179T>C	c.(178-180)CTG>CCG	p.L60P	CBLN2_uc002lkv.2_Missense_Mutation_p.L60P	NM_182511	NP_872317	Q8IUK8	CBLN2_HUMAN	cerebellin 2 precursor	60						integral to membrane					0		Esophageal squamous(42;0.131)				CTTGCCCTCCAGCACGATGGG	0.706000													8	48					0	0	0.004482	0	0	
NETO1	81832	broad.mit.edu	37	18	70461450	70461450	+	Nonsense_Mutation	SNP	C	A	A	rs138679154		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr18:70461450C>A	uc002lkw.2	-	6	825	c.541G>T	c.(541-543)GGA>TGA	p.G181*	NETO1_uc002lkx.1_Nonsense_Mutation_p.G180*|NETO1_uc002lky.1_Nonsense_Mutation_p.G181*	NM_138966	NP_620416	Q8TDF5	NETO1_HUMAN	neuropilin- and tolloid-like protein 1 isoform 3	181	CUB 2.|Extracellular (Potential).				memory|regulation of long-term neuronal synaptic plasticity|visual learning	cell junction|excitatory synapse|extracellular region|integral to membrane|postsynaptic density|postsynaptic membrane	receptor activity	p.G181R(1)		ovary(2)|skin(2)	4		Esophageal squamous(42;0.129)		READ - Rectum adenocarcinoma(1;0.0487)		TCCACAATTCCTTCGGAACCG	0.428000													24	72					5.35356e-11	6.0087e-11	0.002780	1	0	
ZNF407	55628	broad.mit.edu	37	18	72346733	72346733	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr18:72346733C>T	uc002llw.2	+	1	3815	c.3758C>T	c.(3757-3759)ACG>ATG	p.T1253M	ZNF407_uc010xfc.1_Missense_Mutation_p.T1253M|ZNF407_uc010dqu.1_Missense_Mutation_p.T1253M|ZNF407_uc002llu.2_Missense_Mutation_p.T1252M	NM_017757	NP_060227	Q9C0G0	ZN407_HUMAN	zinc finger protein 407 isoform 1	1253					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Esophageal squamous(42;0.131)|Prostate(75;0.173)		BRCA - Breast invasive adenocarcinoma(31;0.184)		TGCCCTGTGACGCTCGATGGG	0.572000													14	35					0	0	0.002450	0	0	
NFATC1	4772	broad.mit.edu	37	18	77170705	77170705	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr18:77170705G>A	uc010xfg.1	+	2	883	c.430G>A	c.(430-432)GTC>ATC	p.V144I	NFATC1_uc002lnc.1_Missense_Mutation_p.V144I|NFATC1_uc010xff.1_Missense_Mutation_p.V144I|NFATC1_uc002lnd.2_Missense_Mutation_p.V144I|NFATC1_uc002lne.2_Intron|NFATC1_uc010xfh.1_Missense_Mutation_p.V144I|NFATC1_uc010xfi.1_Missense_Mutation_p.V131I|NFATC1_uc010xfj.1_Intron|NFATC1_uc002lnf.2_Missense_Mutation_p.V131I|NFATC1_uc002lng.2_Missense_Mutation_p.V131I|NFATC1_uc010xfk.1_Missense_Mutation_p.V131I	NM_006162	NP_006153	O95644	NFAC1_HUMAN	nuclear factor of activated T-cells, cytosolic	144	Trans-activation domain A (TAD-A).				intracellular signal transduction|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	FK506 binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			large_intestine(1)|ovary(1)	2		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;3.73e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0257)		GGTGGAAGACGTCCTCCCTAG	0.627000													10	45					0	0	0.006214	0	0	
MED16	10025	broad.mit.edu	37	19	877145	877145	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:877145G>A	uc002lqd.1	-	9	1540	c.1389C>T	c.(1387-1389)CAC>CAT	p.H463H	MED16_uc010drw.1_Silent_p.H288H|MED16_uc002lqe.2_Silent_p.H452H|MED16_uc002lqf.2_Silent_p.H452H|MED16_uc010xfv.1_Intron|MED16_uc010xfw.1_Intron|MED16_uc010xfx.1_Silent_p.H308H|MED16_uc010xfy.1_Intron	NM_005481	NP_005472	Q9Y2X0	MED16_HUMAN	mediator complex subunit 16	463					androgen receptor signaling pathway|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	receptor activity|thyroid hormone receptor binding|thyroid hormone receptor coactivator activity|vitamin D receptor binding				0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;6.59e-06)|all_lung(49;9.97e-06)|Breast(49;9.42e-05)|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)		CCTCCAGCGGGTGGCCCATGG	0.672000													8	19					0	0	0.004482	0	0	
C19orf6	91304	broad.mit.edu	37	19	1014301	1014301	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:1014301C>T	uc002lqr.1	-	2	543	c.397G>A	c.(397-399)GGC>AGC	p.G133S	C19orf6_uc002lqq.1_5'Flank|C19orf6_uc002lqs.1_Missense_Mutation_p.G133S	NM_001033026	NP_001028198	Q4ZIN3	MBRL_HUMAN	membralin isoform 1	133						cytoplasm|integral to membrane				pancreas(2)|breast(1)	3		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|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)|GBM - Glioblastoma multiforme(1328;0.0252)|STAD - Stomach adenocarcinoma(1328;0.18)		CTCCCGCGGCCGCCGCTGTCA	0.637000													12	56					0	0	0.013537	0	0	
ADAT3	113179	broad.mit.edu	37	19	1912976	1912976	+	Silent	SNP	C	T	T	rs150936899		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:1912976C>T	uc002luh.2	+	2	1110	c.882C>T	c.(880-882)TGC>TGT	p.C294C	SCAMP4_uc002lui.1_Intron|SCAMP4_uc002luj.2_Intron|SCAMP4_uc002luk.2_Intron|SCAMP4_uc010dss.2_Intron	NM_138422	NP_612431	Q96EY9	ADAT3_HUMAN	tRNA-specific adenosine deaminase 3	294		Zinc (By similarity).			tRNA processing		hydrolase activity|zinc ion binding			breast(1)|skin(1)	2		Ovarian(11;2.11e-07)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GCGCCATGTGCGCCATGGCCC	0.716000													26	83					0	0	0.007291	0	0	
TMPRSS9	360200	broad.mit.edu	37	19	2408410	2408410	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:2408410C>T	uc010xgx.1	+	7	797	c.797C>T	c.(796-798)TCG>TTG	p.S266L	TMPRSS9_uc002lvv.1_Missense_Mutation_p.S300L	NM_182973	NP_892018	Q7Z410	TMPS9_HUMAN	transmembrane protease, serine 9	266	Extracellular (Potential).|Peptidase S1 1.				proteolysis	integral to plasma membrane	serine-type endopeptidase activity			ovary(1)|central_nervous_system(1)	2				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)		CTCAGCGGCTCGGAGGCCAGC	0.637000													25	66					0	0	0.004656	0	0	
LMNB2	84823	broad.mit.edu	37	19	2433834	2433834	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:2433834T>C	uc002lvy.2	-	8	1499	c.1412A>G	c.(1411-1413)AAC>AGC	p.N471S	LMNB2_uc002lwa.1_Missense_Mutation_p.N491S	NM_032737	NP_116126	Q03252	LMNB2_HUMAN	lamin B2	471	Tail.					nuclear inner membrane	structural molecule activity			large_intestine(1)|ovary(1)	2		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)		CTTGTCCGAGTTGTTCTTGAG	0.657000													7	113					0	0	0.001984	0	0	
PIP5K1C	23396	broad.mit.edu	37	19	3646034	3646034	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:3646034G>T	uc002lyj.1	-	11	1340	c.1283C>A	c.(1282-1284)CCC>CAC	p.P428H	PIP5K1C_uc010xhq.1_Missense_Mutation_p.P428H|PIP5K1C_uc010xhr.1_Missense_Mutation_p.P428H	NM_012398	NP_036530	O60331	PI51C_HUMAN	phosphatidylinositol-4-phosphate 5-kinase, type	428	PIPK.				axon guidance	cytosol|plasma membrane	1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding			stomach(2)|skin(2)	4		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.95e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0026)|STAD - Stomach adenocarcinoma(1328;0.183)		ATAGAAGCTGGGGCGGTGGAC	0.622000													13	88					4.3838e-07	4.78481e-07	0.001855	1	0	
FSD1	79187	broad.mit.edu	37	19	4323414	4323414	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:4323414C>T	uc002lzy.2	+	12	1514	c.1361C>T	c.(1360-1362)CCG>CTG	p.P454L	FSD1_uc002lzz.2_Missense_Mutation_p.R424C|FSD1_uc002maa.2_Missense_Mutation_p.P267L	NM_024333	NP_077309	Q9BTV5	FSD1_HUMAN	fibronectin type III and SPRY domain containing	454	B30.2/SPRY.				cell division|mitosis	cleavage furrow|microtubule|microtubule organizing center|nucleus				skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.034)|STAD - Stomach adenocarcinoma(1328;0.18)		TTCACACAGCCGCTGCTGCCT	0.657000													12	30					0	0	0.002450	0	0	
UHRF1	29128	broad.mit.edu	37	19	4929423	4929423	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:4929423G>A	uc002mbo.2	+	3	511	c.343G>A	c.(343-345)GCC>ACC	p.A115T	UHRF1_uc010xik.1_Intron|UHRF1_uc010duf.2_RNA|UHRF1_uc002mbp.2_Missense_Mutation_p.A128T	NM_001048201	NP_001041666	Q96T88	UHRF1_HUMAN	ubiquitin-like with PHD and ring finger domains	115					cell cycle|cell proliferation|DNA repair|regulation of transcription from RNA polymerase II promoter	nucleus	acid-amino acid ligase activity|methyl-CpG binding|methylated histone residue binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(2)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0276)		TGAGGCGGCCGCCGAGACTGA	0.652000													13	28					0	0	0.001855	0	0	
SAFB2	9667	broad.mit.edu	37	19	5590402	5590402	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:5590402G>A	uc002mcd.2	-	18	2624	c.2412C>T	c.(2410-2412)CGC>CGT	p.R804R		NM_014649	NP_055464	Q14151	SAFB2_HUMAN	scaffold attachment factor B2	804	Interacts with SAFB1.|Gly-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|nucleotide binding|protein binding|RNA binding				0				UCEC - Uterine corpus endometrioid carcinoma (162;0.000228)		CGTGGCCATGGCGGTCATCTC	0.667000													6	39					0	0	0.001984	0	0	
FBN3	84467	broad.mit.edu	37	19	8137014	8137014	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:8137014G>A	uc002mjf.2	-	62	8027	c.8006C>T	c.(8005-8007)TCG>TTG	p.S2669L	FBN3_uc002mje.2_Missense_Mutation_p.S465L	NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	2669						proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						GGCTTCAGACGAGAGCAGCTC	0.657000													42	223					0	0	0.014410	0	0	
RAB11B	9230	broad.mit.edu	37	19	8464825	8464825	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:8464825G>T	uc002mju.3	+	2	215	c.119G>T	c.(118-120)AGC>ATC	p.S40I	RAB11B_uc010xkd.1_Missense_Mutation_p.S40I	NM_004218	NP_004209	Q15907	RB11B_HUMAN	RAB11B, member RAS oncogene family	40	Effector region (By similarity).				cell cycle|protein transport|small GTPase mediated signal transduction	plasma membrane	GDP binding|GTP binding|GTPase activity				0						AACCTGGAGAGCAAGAGCACC	0.642000													6	45					3.59834e-05	3.82557e-05	0.001168	1	0	
HNRNPM	4670	broad.mit.edu	37	19	8548060	8548060	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:8548060T>C	uc010dwe.2	+	13	1219	c.1139T>C	c.(1138-1140)CTG>CCG	p.L380P	HNRNPM_uc010xke.1_Missense_Mutation_p.L326P|HNRNPM_uc010dwd.2_Missense_Mutation_p.L341P|HNRNPM_uc002mka.2_Missense_Mutation_p.L245P	NM_005968	NP_005959	P52272	HNRPM_HUMAN	heterogeneous nuclear ribonucleoprotein M	380					alternative nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome|integral to plasma membrane|nuclear matrix|nucleolus|paraspeckles	nucleotide binding|protein domain specific binding|RNA binding				0						AGTAATGCACTGAAGAGAGGA	0.378000													7	42					0	0	0.004482	0	0	
OR7E24	26648	broad.mit.edu	37	19	9362135	9362135	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:9362135A>T	uc002mlb.1	+	1	416	c.416A>T	c.(415-417)GAC>GTC	p.D139V		NM_001079935	NP_001073404	Q6IFN5	O7E24_HUMAN	olfactory receptor, family 7, subfamily E,	139	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						ATGGCCTATGACCGGTTTGTG	0.458000													20	64					0	0	0.008871	0	0	
DNM2	1785	broad.mit.edu	37	19	10893787	10893787	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:10893787G>A	uc002mps.1	+	6	1004	c.840G>A	c.(838-840)ACG>ACA	p.T280T	DNM2_uc010dxk.2_RNA|DNM2_uc002mpt.1_Silent_p.T280T|DNM2_uc002mpv.1_Silent_p.T280T|DNM2_uc002mpu.1_Silent_p.T280T|DNM2_uc010dxl.1_Silent_p.T280T|DNM2_uc002mpw.2_Silent_p.T13T	NM_001005361	NP_001005361	P50570	DYN2_HUMAN	dynamin 2 isoform 2	280					G2/M transition of mitotic cell cycle|positive regulation of apoptosis|positive regulation of transcription, DNA-dependent|post-Golgi vesicle-mediated transport|receptor internalization|signal transduction|synaptic vesicle transport|transferrin transport	cell junction|cytosol|Golgi membrane|microtubule|postsynaptic density|postsynaptic membrane	GTP binding|GTPase activity|microtubule binding			central_nervous_system(2)|skin(2)|ovary(1)|breast(1)	6			Epithelial(33;4.17e-05)|all cancers(31;8.48e-05)			TGCAGAAGACGCTGAATCAGG	0.577000													13	53					0	0	0.001855	0	0	
ZNF442	79973	broad.mit.edu	37	19	12461464	12461464	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:12461464T>C	uc002mtr.1	-	6	1546	c.935A>G	c.(934-936)GAA>GGA	p.E312G	ZNF442_uc010xmk.1_Missense_Mutation_p.E243G	NM_030824	NP_110451	Q9H7R0	ZN442_HUMAN	zinc finger protein 442	312	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(2)|breast(1)|kidney(1)	4						GTGAGTTCTTTCATGTATTCG	0.418000													69	169					0	0	0.014410	0	0	
TNPO2	30000	broad.mit.edu	37	19	12826220	12826220	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:12826220G>A	uc002muo.2	-	6	750	c.565C>T	c.(565-567)CGG>TGG	p.R189W	TNPO2_uc002mup.2_Missense_Mutation_p.R281W|TNPO2_uc002muq.2_Missense_Mutation_p.R189W|TNPO2_uc002mur.2_Missense_Mutation_p.R189W	NM_001136196	NP_001129668	O14787	TNPO2_HUMAN	transportin 2 (importin 3, karyopherin beta 2b)	189	HEAT 2.				intracellular protein transport	cytoplasm|nucleus	nuclear localization sequence binding|protein binding|protein transporter activity			ovary(1)	1						TGCACCCACCGGATCTTGGGA	0.627000													19	75					0	0	0.008871	0	0	
LPHN1	22859	broad.mit.edu	37	19	14272389	14272389	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:14272389C>T	uc010xnn.1	-	7	1556	c.1260G>A	c.(1258-1260)ACG>ACA	p.T420T	LPHN1_uc010xno.1_Silent_p.T415T|uc002myf.2_Intron	NM_001008701	NP_001008701	O94910	LPHN1_HUMAN	latrophilin 1 isoform 1 precursor	420	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			ovary(2)|lung(2)|central_nervous_system(1)	5						TGGTGAGGGGCGTGGGCCTGG	0.697000													3	22					0	0	0.009096	0	0	
CYP4F3	4051	broad.mit.edu	37	19	15760769	15760769	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:15760769G>A	uc002nbj.2	+	7	744	c.694G>A	c.(694-696)GTG>ATG	p.V232M	CYP4F3_uc010xok.1_Missense_Mutation_p.V232M|CYP4F3_uc010xol.1_Missense_Mutation_p.V232M|CYP4F3_uc010xom.1_Missense_Mutation_p.V83M|CYP4F3_uc002nbk.2_Missense_Mutation_p.V232M|CYP4F3_uc010xon.1_5'Flank	NM_000896	NP_000887	Q08477	CP4F3_HUMAN	cytochrome P450, family 4, subfamily F,	232					leukotriene metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	electron carrier activity|heme binding|leukotriene-B4 20-monooxygenase activity|oxygen binding			ovary(3)	3						CAGTGCCCTTGTGACAAAAAG	0.532000													8	261					0	0	0.004482	0	0	
SIN3B	23309	broad.mit.edu	37	19	16977341	16977341	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:16977341A>G	uc002ney.1	+	13	1890	c.1876A>G	c.(1876-1878)AAC>GAC	p.N626D	SIN3B_uc002nez.1_Missense_Mutation_p.N594D|SIN3B_uc010xpi.1_Missense_Mutation_p.N184D	NM_015260	NP_056075	O75182	SIN3B_HUMAN	SIN3 homolog B, transcription regulator	626					cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	protein binding			ovary(2)	2						GAGCTTGCTCAACGAGATCGA	0.627000													17	52					0	0	0.006122	0	0	
GTPBP3	84705	broad.mit.edu	37	19	17450368	17450368	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:17450368G>A	uc010eas.2	+	7	999	c.934G>A	c.(934-936)GGG>AGG	p.G312R	GTPBP3_uc010xpo.1_Missense_Mutation_p.G334R|GTPBP3_uc010ear.1_RNA|GTPBP3_uc002ngh.3_Missense_Mutation_p.G312R|GTPBP3_uc002ngg.3_Missense_Mutation_p.G344R|GTPBP3_uc002ngi.3_5'UTR	NM_032620	NP_116009	Q969Y2	GTPB3_HUMAN	GTP binding protein 3 (mitochondrial) isoform V	312					tRNA modification	mitochondrion	GTP binding|GTPase activity			skin(1)	1						GGAGGGCGTGGGGCCCGTGGA	0.716000													5	32					0	0	0.001168	0	0	
NCAN	1463	broad.mit.edu	37	19	19338930	19338930	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:19338930C>T	uc002nlz.2	+	8	2600	c.2501C>T	c.(2500-2502)ACG>ATG	p.T834M	NCAN_uc010ecc.1_Missense_Mutation_p.T398M	NM_004386	NP_004377	O14594	NCAN_HUMAN	chondroitin sulfate proteoglycan 3 precursor	834					axon guidance|cell adhesion	extracellular region	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(4)	4			Epithelial(12;0.00544)			TCCACAGTCACGCCGGCCCCC	0.547000													14	61					0	0	0.002450	0	0	
NCAN	1463	broad.mit.edu	37	19	19339050	19339050	+	Missense_Mutation	SNP	C	T	T	rs148196919		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:19339050C>T	uc002nlz.2	+	8	2720	c.2621C>T	c.(2620-2622)ACG>ATG	p.T874M	NCAN_uc010ecc.1_Missense_Mutation_p.T438M	NM_004386	NP_004377	O14594	NCAN_HUMAN	chondroitin sulfate proteoglycan 3 precursor	874					axon guidance|cell adhesion	extracellular region	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(4)	4			Epithelial(12;0.00544)			ACGCCCCTCACGACCCTGGAG	0.587000													17	104					0	0	0.006122	0	0	
HAPLN4	404037	broad.mit.edu	37	19	19371869	19371869	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:19371869G>A	uc002nmb.2	-	3	292	c.237C>T	c.(235-237)CAC>CAT	p.H79H	HAPLN4_uc002nmc.2_Silent_p.H79H	NM_023002	NP_075378	Q86UW8	HPLN4_HUMAN	hyaluronan and proteoglycan link protein 4	79	Ig-like C2-type.				cell adhesion	proteinaceous extracellular matrix	hyaluronic acid binding			pancreas(1)	1			Epithelial(12;0.00575)			GGACGCCGTCGTGACCGTGGG	0.662000													10	27					0	0	0.010729	0	0	
CILP2	148113	broad.mit.edu	37	19	19656297	19656297	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:19656297C>T	uc002nmv.3	+	8	3028	c.2943C>T	c.(2941-2943)CCC>CCT	p.P981P	CILP2_uc002nmw.3_Silent_p.P987P	NM_153221	NP_694953	Q8IUL8	CILP2_HUMAN	cartilage intermediate layer protein 2	981						proteinaceous extracellular matrix	carbohydrate binding|carboxypeptidase activity			ovary(1)	1						TGCGAGACCCCGAGCGTCCGG	0.677000													7	31					0	0	0.001984	0	0	
ATP13A1	57130	broad.mit.edu	37	19	19766902	19766902	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:19766902G>A	uc002nnh.3	-	8	1202	c.1174C>T	c.(1174-1176)CAG>TAG	p.Q392*	ATP13A1_uc002nnf.3_5'Flank|ATP13A1_uc002nng.2_Nonsense_Mutation_p.Q274*	NM_020410	NP_065143	Q9HD20	AT131_HUMAN	ATPase type 13A1	392	Extracellular (Potential).				ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(3)|large_intestine(2)|central_nervous_system(1)	6						GGGATGTGCTGCACCACCTTG	0.652000													15	53					0	0	0.004007	0	0	
ZNF253	56242	broad.mit.edu	37	19	20002841	20002841	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:20002841G>A	uc002noj.2	+	4	877	c.785G>A	c.(784-786)GGC>GAC	p.G262D	ZNF253_uc002nok.2_Missense_Mutation_p.G186D|ZNF253_uc002nol.2_RNA	NM_021047	NP_066385	O75346	ZN253_HUMAN	zinc finger protein 253	262	C2H2-type 4.			Missing (in Ref. 1; AAC26844).	negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GAAGAATGTGGCAAAGCCTTC	0.403000													15	60					0	0	0.003163	0	0	
TSHZ3	57616	broad.mit.edu	37	19	31769867	31769867	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:31769867T>C	uc002nsy.3	-	2	897	c.832A>G	c.(832-834)ATG>GTG	p.M278V		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	278	C2H2-type 2.				negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(2)|pancreas(1)|lung(1)	8	Esophageal squamous(110;0.226)					CCACAGTACATGCACTTCAGC	0.512000													40	162					0	0	0.006999	0	0	
ZNF181	339318	broad.mit.edu	37	19	35232137	35232137	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:35232137T>A	uc002nvu.3	+	4	1314	c.851T>A	c.(850-852)CTG>CAG	p.L284Q	ZNF181_uc010xsa.1_Missense_Mutation_p.L283Q|ZNF181_uc010xsb.1_Missense_Mutation_p.L283Q|ZNF181_uc010xsc.1_Missense_Mutation_p.L219Q	NM_001029997	NP_001025168	Q2M3W8	ZN181_HUMAN	zinc finger protein 181 isoform 1	284	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	all_lung(56;1.13e-07)|Lung NSC(56;1.81e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.138)			ACACGACATCTGATAAGCCAT	0.448000													4	103					0	0	0.000602	0	0	
ZNF181	339318	broad.mit.edu	37	19	35232234	35232234	+	Silent	SNP	T	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:35232234T>G	uc002nvu.3	+	4	1411	c.948T>G	c.(946-948)ACT>ACG	p.T316T	ZNF181_uc010xsa.1_Silent_p.T315T|ZNF181_uc010xsb.1_Silent_p.T315T|ZNF181_uc010xsc.1_Silent_p.T251T	NM_001029997	NP_001025168	Q2M3W8	ZN181_HUMAN	zinc finger protein 181 isoform 1	316					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	all_lung(56;1.13e-07)|Lung NSC(56;1.81e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.138)			GCACTCACACTGGAGAGAAAC	0.383000													10	78					0	0	0.010729	0	0	
ZNF30	90075	broad.mit.edu	37	19	35434229	35434229	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:35434229G>A	uc010edp.1	+	5	737	c.359G>A	c.(358-360)CGT>CAT	p.R120H	ZNF30_uc002nxf.2_Missense_Mutation_p.R39H|ZNF30_uc010edq.1_Missense_Mutation_p.R121H|ZNF30_uc010edr.1_Missense_Mutation_p.R121H	NM_194325	NP_919306	P17039	ZNF30_HUMAN	zinc finger protein 30 isoform b	120	C2H2-type 1; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_lung(56;8.38e-08)|Lung NSC(56;1.31e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0849)	GBM - Glioblastoma multiforme(1328;0.0265)		CAGAAACCACGTGAATGTCAG	0.383000													5	60					0	0	0.000602	0	0	
GRAMD1A	57655	broad.mit.edu	37	19	35500086	35500086	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:35500086G>A	uc010xse.1	+	2	209	c.72G>A	c.(70-72)CAG>CAA	p.Q24Q	GRAMD1A_uc002nxi.1_Silent_p.Q111Q|GRAMD1A_uc002nxk.2_Silent_p.Q24Q|GRAMD1A_uc002nxl.2_5'UTR|GRAMD1A_uc010xsf.1_Silent_p.Q29Q	NM_020895	NP_065946	Q96CP6	GRM1A_HUMAN	GRAM domain containing 1A isoform 1	24						integral to membrane					0	all_lung(56;2.66e-08)|Lung NSC(56;4.13e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0849)			AACGGCTGCAGCTCCTGCCCC	0.642000													5	112					0	0	0.001984	0	0	
ATP4A	495	broad.mit.edu	37	19	36046105	36046105	+	Silent	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:36046105A>G	uc002oal.1	-	15	2318	c.2289T>C	c.(2287-2289)GAT>GAC	p.D763D	ATP4A_uc010eee.1_5'UTR	NM_000704	NP_000695	P20648	ATP4A_HUMAN	hydrogen/potassium-exchanging ATPase 4A	763	Cytoplasmic (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport	integral to plasma membrane	ATP binding|hydrogen:potassium-exchanging ATPase activity|magnesium ion binding			ovary(1)	1	all_lung(56;1.05e-07)|Lung NSC(56;1.63e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)		Esomeprazole(DB00736)|Lansoprazole(DB00448)|Omeprazole(DB00338)|Pantoprazole(DB00213)|Rabeprazole(DB01129)|Trifluoperazine(DB00831)	CAAAGTTGTCATCCAGCAGGA	0.597000													13	46					0	0	0.002450	0	0	
ATP4A	495	broad.mit.edu	37	19	36050029	36050029	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:36050029G>A	uc002oal.1	-	8	1150	c.1121C>T	c.(1120-1122)GCG>GTG	p.A374V	ATP4A_uc010eee.1_5'Flank	NM_000704	NP_000695	P20648	ATP4A_HUMAN	hydrogen/potassium-exchanging ATPase 4A	374	Cytoplasmic (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport	integral to plasma membrane	ATP binding|hydrogen:potassium-exchanging ATPase activity|magnesium ion binding			ovary(1)	1	all_lung(56;1.05e-07)|Lung NSC(56;1.63e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)		Esomeprazole(DB00736)|Lansoprazole(DB00448)|Omeprazole(DB00338)|Pantoprazole(DB00213)|Rabeprazole(DB01129)|Trifluoperazine(DB00831)	TGTCTCCACCGCCTCCAGGTT	0.602000													45	187					0	0	0.014410	0	0	
ZBTB32	27033	broad.mit.edu	37	19	36207582	36207582	+	Silent	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:36207582C>A	uc002oay.2	+	6	1602	c.1392C>A	c.(1390-1392)ACC>ACA	p.T464T	ZBTB32_uc002oaz.2_RNA|MLL4_uc010eei.2_5'Flank	NM_014383	NP_055198	Q9Y2Y4	ZBT32_HUMAN	zinc finger and BTB domain containing 32	464					DNA repair|negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleoplasm	DNA binding|protein binding|transcription corepressor activity|zinc ion binding			ovary(1)|skin(1)	2	all_lung(56;2.22e-07)|Lung NSC(56;3.47e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			TCCGCTCCACCTTCCTCTACT	0.672000											OREG0025433	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	37	92					1.04594e-18	1.21041e-18	0.006230	1	0	
CLIP3	25999	broad.mit.edu	37	19	36510151	36510151	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:36510151C>T	uc010eeq.1	-	7	1258	c.976G>A	c.(976-978)GTG>ATG	p.V326M	uc002ocy.2_Missense_Mutation_p.R22C|CLIP3_uc002ocz.1_Missense_Mutation_p.V326M	NM_015526	NP_056341	Q96DZ5	CLIP3_HUMAN	CAP-GLY domain containing linker protein 3	326	CAP-Gly 1.				chaperone-mediated protein transport|fat cell differentiation|membrane biogenesis|negative regulation of microtubule polymerization|peptidyl-L-cysteine S-palmitoylation|positive regulation of apoptosis|positive regulation of endocytosis|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose transport|positive regulation of protein phosphorylation	early endosome membrane|Golgi stack|membrane raft|microsome|plasma membrane|recycling endosome membrane|trans-Golgi network membrane	ganglioside binding|microtubule binding			ovary(2)|pancreas(1)|skin(1)	4	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			TCCAGCTCCACGCCCACCCAC	0.637000													11	37					0	0	0.010729	0	0	
Unknown	0	broad.mit.edu	37	19	36913491	36913491	+	RNA	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:36913491C>A	uc002odz.1	+	1		c.1416C>A								Homo sapiens cDNA FLJ35203 fis, clone PLACE6018441, moderately similar to Mus musculus peroxisomal long chain acyl-CoA thioesterase Ib (Pte1b) gene.																		ATCTGTTACCCTGGGACTGGG	0.522000													12	28					2.27111e-07	2.48548e-07	0.013537	1	0	
ZNF571	51276	broad.mit.edu	37	19	38057129	38057129	+	Silent	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:38057129T>C	uc002ogt.2	-	4	302	c.201A>G	c.(199-201)TCA>TCG	p.S67S	uc002ogm.2_Intron|uc002ogn.2_Intron|ZNF540_uc002ogo.2_Intron|ZNF540_uc002ogp.2_Intron|ZNF540_uc002ogq.2_Intron|ZNF571_uc002ogr.1_Intron|uc002ogs.1_5'Flank|ZNF571_uc010efp.2_Silent_p.S67S	NM_016536	NP_057620	Q7Z3V5	ZN571_HUMAN	zinc finger protein 571	67	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			CCCACTGGAGTGATTCCATTT	0.388000													13	79					0	0	0.013537	0	0	
HNRNPL	3191	broad.mit.edu	37	19	39321970	39321970	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:39321970G>A	uc002ojj.1	-	6	946	c.866C>T	c.(865-867)GCC>GTC	p.A289V	ECH1_uc002oji.2_Missense_Mutation_p.A80V|ECH1_uc010xuk.1_Missense_Mutation_p.A80V|HNRNPL_uc010ege.1_Intron	NM_001005335	NP_001005335	P14866	HNRPL_HUMAN	heterogeneous nuclear ribonucleoprotein L	Error:Variant_position_missing_in_P14866_after_alignment					nuclear mRNA splicing, via spliceosome	cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|RNA binding|transcription regulatory region DNA binding				0	all_cancers(60;6.83e-06)|Ovarian(47;0.0454)		Lung(45;0.00342)|LUSC - Lung squamous cell carcinoma(53;0.00575)			CTTGTTCATGGCATTCCTCTT	0.602000													18	156					0	0	0.007413	0	0	
PAF1	54623	broad.mit.edu	37	19	39880926	39880926	+	Silent	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:39880926G>T	uc002old.2	-	2	226	c.51C>A	c.(49-51)CCC>CCA	p.P17P	PAF1_uc002ole.1_Intron|PAF1_uc010xuv.1_RNA|MED29_uc010xuw.1_5'Flank|MED29_uc002olf.2_5'Flank|MED29_uc010xux.1_5'Flank	NM_019088	NP_061961	Q8N7H5	PAF1_HUMAN	Paf1, RNA polymerase II associated factor,	17					histone H2B ubiquitination|histone monoubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Cdc73/Paf1 complex	protein binding			pancreas(1)	1	all_cancers(60;9.14e-07)|all_lung(34;4.03e-08)|Lung NSC(34;4.66e-08)|all_epithelial(25;1.88e-06)|Ovarian(47;0.0512)		Epithelial(26;9.6e-28)|all cancers(26;9.14e-25)|Lung(45;0.000168)|LUSC - Lung squamous cell carcinoma(53;0.000199)			GGTGGGAATTGGGCCTAGTGG	0.592000													12	15					2.80697e-09	3.13046e-09	0.010729	1	0	
FBL	2091	broad.mit.edu	37	19	40328363	40328363	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:40328363G>T	uc002omn.2	-	6	784	c.670C>A	c.(670-672)CGC>AGC	p.R224S	FBL_uc002omm.1_Missense_Mutation_p.R138S|FBL_uc002omo.2_Missense_Mutation_p.R223S	NM_001436	NP_001427	P22087	FBRL_HUMAN	fibrillarin	224					rRNA processing|tRNA processing	box C/D snoRNP complex|Cajal body	methyltransferase activity|protein binding|RNA binding			ovary(1)	1	all_cancers(60;5.79e-06)|all_lung(34;5.2e-08)|Lung NSC(34;6.14e-08)|Ovarian(47;0.06)	Renal(1328;0.000518)|Hepatocellular(1079;0.0893)	Epithelial(26;5.74e-25)|OV - Ovarian serous cystadenocarcinoma(5;3.13e-24)|all cancers(26;8.59e-23)	GBM - Glioblastoma multiforme(1328;0.000826)|STAD - Stomach adenocarcinoma(1328;0.138)		ATGAGCATGCGGTATTTGTGT	0.587000													14	117					4.14922e-12	4.6999e-12	0.004007	1	0	
ATP1A3	478	broad.mit.edu	37	19	42489310	42489310	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:42489310C>T	uc002osg.2	-	8	907	c.753G>A	c.(751-753)ACG>ACA	p.T251T	ATP1A3_uc010xwf.1_Silent_p.T262T|ATP1A3_uc010xwg.1_Silent_p.T221T|ATP1A3_uc010xwh.1_Silent_p.T264T|ATP1A3_uc002osh.2_Silent_p.T251T	NM_152296	NP_689509	P13637	AT1A3_HUMAN	Na+/K+ -ATPase alpha 3 subunit	251	Cytoplasmic (Potential).				ATP biosynthetic process	endoplasmic reticulum|Golgi apparatus	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(1)|pancreas(1)	2						TGCGGTCGCCCGTGGCCACCA	0.672000													3	34					0	0	0.009096	0	0	
GRIK5	2901	broad.mit.edu	37	19	42560855	42560855	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:42560855A>G	uc002osj.1	-	7	897	c.862T>C	c.(862-864)TGG>CGG	p.W288R	GRIK5_uc010eib.1_Missense_Mutation_p.W207R	NM_002088	NP_002079	Q16478	GRIK5_HUMAN	glutamate receptor KA2 precursor	288	Extracellular (Potential).					cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity				0		Prostate(69;0.059)			L-Glutamic Acid(DB00142)	TTCTCCCTCCAGGACATGTTG	0.502000													20	68					0	0	0.008871	0	0	
ZNF224	7767	broad.mit.edu	37	19	44610781	44610781	+	Silent	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:44610781C>A	uc002oyh.1	+	6	770	c.468C>A	c.(466-468)TCC>TCA	p.S156S	uc002oyi.2_RNA	NM_013398	NP_037530	Q9NZL3	ZN224_HUMAN	zinc finger protein 224	156					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	transcriptional repressor complex	DNA binding|protein binding|zinc ion binding			ovary(2)	2		Prostate(69;0.0435)				ATAAACCATCCTTCAGTGATG	0.418000													26	95					1.42536e-11	1.61008e-11	0.004656	1	0	
ZNF224	7767	broad.mit.edu	37	19	44611657	44611657	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:44611657C>T	uc002oyh.1	+	6	1646	c.1344C>T	c.(1342-1344)CGC>CGT	p.R448R	uc002oyi.2_RNA	NM_013398	NP_037530	Q9NZL3	ZN224_HUMAN	zinc finger protein 224	448	C2H2-type 10.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	transcriptional repressor complex	DNA binding|protein binding|zinc ion binding			ovary(2)	2		Prostate(69;0.0435)				TTCACCAGCGCGTCCATACAG	0.463000													4	84					0	0	0.000602	0	0	
PPM1N	147699	broad.mit.edu	37	19	46002426	46002426	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:46002426G>A	uc002pce.2	+	1	696	c.696G>A	c.(694-696)GCG>GCA	p.A232A	RTN2_uc002pcb.2_5'Flank|RTN2_uc002pcc.2_5'Flank|RTN2_uc002pcd.2_5'Flank|PPM1N_uc002pcf.2_5'Flank	NM_001080401	NP_001073870	Q8N819	PPM1N_HUMAN	protein phosphatase 1B-like	232	PP2C-like.						magnesium ion binding|manganese ion binding|phosphoprotein phosphatase activity				0						TGTCGCGAGCGTTGGGCGACT	0.721000													11	53					0	0	0.013537	0	0	
OPA3	80207	broad.mit.edu	37	19	46032599	46032599	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:46032599C>A	uc002pcj.3	-	2	358	c.258G>T	c.(256-258)GAG>GAT	p.E86D		NM_001017989	NP_001017989	Q9H6K4	OPA3_HUMAN	OPA3 protein isoform a	86					response to stimulus|visual perception	mitochondrion					0		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00778)|GBM - Glioblastoma multiforme(486;0.0976)|Epithelial(262;0.242)		AGATGATGCCCTCGCCCAGCA	0.627000													35	114					6.90743e-12	7.80978e-12	0.003755	1	0	
SNRPD2	6633	broad.mit.edu	37	19	46190822	46190822	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:46190822C>T	uc002pcw.2	-	3	643	c.346G>A	c.(346-348)GCC>ACC	p.A116T	SNRPD2_uc002pcv.2_Missense_Mutation_p.A106T	NM_004597	NP_004588	P62316	SMD2_HUMAN	small nuclear ribonucleoprotein D2 isoform 1	116					ncRNA metabolic process|spliceosomal snRNP assembly|spliceosome assembly	catalytic step 2 spliceosome|cytosol|nucleoplasm|small nuclear ribonucleoprotein complex|U12-type spliceosomal complex	protein binding				0		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00546)|GBM - Glioblastoma multiforme(486;0.0807)|Epithelial(262;0.194)		TACTTGCCGGCGATGAGCGGG	0.532000													6	65					0	0	0.004482	0	0	
FBXO46	23403	broad.mit.edu	37	19	46216383	46216383	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:46216383C>A	uc002pcy.2	-	2	496	c.371G>T	c.(370-372)TGG>TTG	p.W124L	FBXO46_uc002pcz.2_Missense_Mutation_p.W124L	NM_001080469	NP_001073938	Q6PJ61	FBX46_HUMAN	F-box protein 46	124							protein binding			ovary(1)|lung(1)|breast(1)	3		Ovarian(192;0.179)|all_neural(266;0.224)		OV - Ovarian serous cystadenocarcinoma(262;0.00568)|GBM - Glioblastoma multiforme(486;0.0844)|Epithelial(262;0.201)		ATCGCTGCCCCAGTGCCCCTT	0.667000													6	80					3.59834e-05	3.82557e-05	0.001168	1	0	
PPP5C	5536	broad.mit.edu	37	19	46891936	46891936	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:46891936G>A	uc002pem.2	+	11	1363	c.1303G>A	c.(1303-1305)GAG>AAG	p.E435K	PPP5C_uc010xya.1_Missense_Mutation_p.E302K|PPP5C_uc002pen.2_Missense_Mutation_p.E413K	NM_006247	NP_006238	P53041	PPP5_HUMAN	protein phosphatase 5, catalytic subunit	435	Catalytic.				mitosis|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein dephosphorylation|transcription, DNA-dependent	Golgi apparatus|nucleus	metal ion binding|protein binding|protein serine/threonine phosphatase activity|signal transducer activity			lung(1)|pancreas(1)	2		Ovarian(192;0.0731)|all_neural(266;0.196)		OV - Ovarian serous cystadenocarcinoma(262;0.000196)|all cancers(93;0.00192)|GBM - Glioblastoma multiforme(486;0.0499)|Epithelial(262;0.0504)		CGAGGGCTACGAGGTGGCTCA	0.582000													14	123					0	0	0.004007	0	0	
PRMT1	3276	broad.mit.edu	37	19	50185181	50185181	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:50185181C>T	uc010enf.1	+	4	249	c.207C>T	c.(205-207)GAC>GAT	p.D69D	PRMT1_uc002ppc.1_RNA|PRMT1_uc002ppd.2_Silent_p.D45D|PRMT1_uc002ppe.2_Silent_p.D51D|PRMT1_uc002ppf.2_RNA|PRMT1_uc002ppg.2_Silent_p.D16D|PRMT1_uc010yba.1_RNA	NM_001536	NP_001527	Q8WUW5	Q8WUW5_HUMAN	HMT1 hnRNP methyltransferase-like 2 isoform 1	50						cytoplasm	protein methyltransferase activity			ovary(1)	1		all_lung(116;3.24e-07)|Lung NSC(112;1.6e-06)|all_neural(266;0.0459)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00103)|GBM - Glioblastoma multiforme(134;0.012)		TGCTGAAGGACGAGGTGCGCA	0.612000													12	36					0	0	0.013537	0	0	
PTOV1	53635	broad.mit.edu	37	19	50360274	50360274	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:50360274C>T	uc002pqf.1	+	6	771	c.601C>T	c.(601-603)CGC>TGC	p.R201C	PTOV1_uc002ppz.3_RNA|PTOV1_uc002pqb.3_Missense_Mutation_p.R169C|PTOV1_uc002pqa.2_RNA|PTOV1_uc002pqc.1_RNA|PTOV1_uc002pqd.2_RNA|PTOV1_uc002pqe.1_RNA	NM_017432	NP_059128	Q86YD1	PTOV1_HUMAN	prostate tumor overexpressed 1	201	Interaction with FLOT1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perinuclear region of cytoplasm|plasma membrane					0		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.107)|Ovarian(192;0.231)		GBM - Glioblastoma multiforme(134;0.0116)|OV - Ovarian serous cystadenocarcinoma(262;0.0132)		CTGTGAGGTGCGCGTGCTCAT	0.657000													46	165					0	0	0.013114	0	0	
TBC1D17	79735	broad.mit.edu	37	19	50384662	50384662	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:50384662G>A	uc002pqo.2	+	5	609	c.457G>A	c.(457-459)GCA>ACA	p.A153T	TBC1D17_uc010enn.1_RNA|TBC1D17_uc010ybg.1_Missense_Mutation_p.A120T|TBC1D17_uc002pqp.2_5'UTR|TBC1D17_uc002pqq.1_RNA|TBC1D17_uc002pqr.2_5'UTR|TBC1D17_uc002pqs.2_5'Flank	NM_024682	NP_078958	Q9HA65	TBC17_HUMAN	TBC1 domain family, member 17	153						intracellular	Rab GTPase activator activity				0		all_lung(116;0.000338)|Lung NSC(112;0.000446)|all_neural(266;0.107)|Ovarian(192;0.231)		GBM - Glioblastoma multiforme(134;0.0116)|OV - Ovarian serous cystadenocarcinoma(262;0.017)		TTCCCTGCCCGCACTGCACTT	0.667000													4	68					0	0	0.000602	0	0	
ZNF473	25888	broad.mit.edu	37	19	50549654	50549654	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:50549654G>A	uc002prn.2	+	5	2191	c.1954G>A	c.(1954-1956)GGA>AGA	p.G652R	ZNF473_uc002prm.2_Missense_Mutation_p.G652R|ZNF473_uc010ybo.1_Missense_Mutation_p.G640R	NM_001006656	NP_001006657	Q8WTR7	ZN473_HUMAN	zinc finger protein 473	652	C2H2-type 13.				histone mRNA 3'-end processing|regulation of transcription, DNA-dependent|termination of RNA polymerase II transcription	Cajal body	DNA binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2		all_neural(266;0.0459)|Ovarian(192;0.0728)		GBM - Glioblastoma multiforme(134;0.00111)|OV - Ovarian serous cystadenocarcinoma(262;0.0058)		TAACGAATGCGGAAAGACCTT	0.453000													18	51					0	0	0.007413	0	0	
LRRC4B	94030	broad.mit.edu	37	19	51021694	51021694	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:51021694C>T	uc002pss.2	-	3	1413	c.1276G>A	c.(1276-1278)GTC>ATC	p.V426I		NM_001080457	NP_001073926	Q9NT99	LRC4B_HUMAN	leucine rich repeat containing 4B precursor	426	Extracellular (Potential).|Ig-like C2-type.					cell junction|integral to membrane|presynaptic membrane				central_nervous_system(1)|skin(1)	2		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00284)|GBM - Glioblastoma multiforme(134;0.0188)		TGCACGGTGACGTTGGTGAAG	0.647000													16	67					0	0	0.004007	0	0	
KLK9	284366	broad.mit.edu	37	19	51506431	51506431	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:51506431C>T	uc002pux.1	-	5	776	c.689G>A	c.(688-690)CGC>CAC	p.R230H	KLK9_uc002puw.1_RNA|KLK9_uc010eol.1_Missense_Mutation_p.R201H|KLK8_uc002puq.1_5'Flank|KLK8_uc002pur.1_5'Flank|KLK8_uc002pus.1_5'Flank|KLK8_uc002put.1_5'Flank|KLK8_uc002puu.1_5'UTR|KLK9_uc002puv.1_RNA	NM_012315	NP_036447	Q9UKQ9	KLK9_HUMAN	kallikrein-related peptidase 9 precursor	230	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			central_nervous_system(1)	1		all_neural(266;0.0652)		OV - Ovarian serous cystadenocarcinoma(262;0.00328)|GBM - Glioblastoma multiforme(134;0.00885)		GACTGCGGGGCGCCGGGGTCT	0.627000													14	132					0	0	0.001855	0	0	
C19orf75	284369	broad.mit.edu	37	19	51769106	51769106	+	Missense_Mutation	SNP	C	T	T	rs149546733		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:51769106C>T	uc002pwb.1	+	4	761	c.380C>T	c.(379-381)GCG>GTG	p.A127V	C19orf75_uc010eov.1_RNA|C19orf75_uc010ycw.1_Missense_Mutation_p.A33V	NM_173635	NP_775906	Q8N7X8	CS075_HUMAN	hypothetical protein LOC284369	127	Helical; (Potential).					integral to membrane				ovary(1)|pancreas(1)	2						ATTGTAATTGCGCTGCTCTTC	0.418000													29	256					0	0	0.007291	0	0	
NKG7	4818	broad.mit.edu	37	19	51875430	51875430	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:51875430C>T	uc002pwj.2	-	2	460	c.289G>A	c.(289-291)GCA>ACA	p.A97T	NKG7_uc002pwk.2_Missense_Mutation_p.A62T	NM_005601	NP_005592	Q16617	NKG7_HUMAN	natural killer cell group 7 sequence	97	Helical; (Potential).					integral to plasma membrane				central_nervous_system(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000211)|OV - Ovarian serous cystadenocarcinoma(262;0.00979)		GCAAAGGCTGCGGTGGTTGAG	0.622000													19	145					0	0	0.008871	0	0	
ZNF841	284371	broad.mit.edu	37	19	52570189	52570189	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:52570189G>A	uc002pyl.1	-	5	1150	c.598C>T	c.(598-600)CCA>TCA	p.P200S	ZNF841_uc010ydh.1_Missense_Mutation_p.P316S|ZNF841_uc010epk.1_Missense_Mutation_p.P200S	NM_001136499	NP_001129971	Q6ZN19	ZN841_HUMAN	zinc finger protein 841	200					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CATTGGTATGGTTTCCCTCTT	0.413000													6	37					0	0	0.001168	0	0	
PPP2R1A	5518	broad.mit.edu	37	19	52719794	52719794	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:52719794G>A	uc002pyp.2	+	9	1165	c.1006G>A	c.(1006-1008)GAT>AAT	p.D336N	PPP2R1A_uc010ydk.1_Missense_Mutation_p.D281N|PPP2R1A_uc010epm.1_Missense_Mutation_p.D376N|PPP2R1A_uc002pyq.2_Missense_Mutation_p.D157N	NM_014225	NP_055040	P30153	2AAA_HUMAN	alpha isoform of regulatory subunit A, protein	336	PP2A subunit B binding.|HEAT 9.				ceramide metabolic process|chromosome segregation|G2/M transition of mitotic cell cycle|inactivation of MAPK activity|induction of apoptosis|negative regulation of cell growth|negative regulation of tyrosine phosphorylation of Stat3 protein|protein complex assembly|protein dephosphorylation|regulation of cell adhesion|regulation of cell differentiation|regulation of DNA replication|regulation of transcription, DNA-dependent|regulation of Wnt receptor signaling pathway|response to organic substance|RNA splicing|second-messenger-mediated signaling	chromosome, centromeric region|cytosol|membrane|microtubule cytoskeleton|mitochondrion|nucleus|protein phosphatase type 2A complex|soluble fraction	antigen binding|protein heterodimerization activity|protein phosphatase type 2A regulator activity			endometrium(31)|ovary(28)|lung(2)|breast(2)|skin(1)|kidney(1)|pancreas(1)	66				GBM - Glioblastoma multiforme(134;0.00456)|OV - Ovarian serous cystadenocarcinoma(262;0.015)		GCTGGTGTCCGATGCCAACCA	0.557000			Mis		clear cell ovarian carcinoma								18	42					0	0	0.007413	0	0	
ZNF320	162967	broad.mit.edu	37	19	53384761	53384761	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:53384761T>G	uc002qag.2	-	4	809	c.618A>C	c.(616-618)AAA>AAC	p.K206N	ZNF320_uc010eqh.1_5'Flank|ZNF320_uc010eqi.1_Intron|ZNF320_uc002qah.2_Missense_Mutation_p.K152N|ZNF320_uc002qai.2_Missense_Mutation_p.K206N	NM_207333	NP_997216	A2RRD8	ZN320_HUMAN	zinc finger protein 320	206	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.0534)		TTCTAGTATGTTTTGCCAGGT	0.363000													3	62					0	0	0.004672	0	0	
ZNF347	84671	broad.mit.edu	37	19	53644779	53644779	+	Silent	SNP	G	A	A	rs77716783	byFrequency	TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:53644779G>A	uc002qbb.1	-	5	1371	c.1302C>T	c.(1300-1302)TGC>TGT	p.C434C	ZNF347_uc010eql.1_Silent_p.C435C|ZNF347_uc002qbc.1_Silent_p.C435C	NM_032584	NP_115973	Q96SE7	ZN347_HUMAN	zinc finger protein 347	434	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.0179)		AGGCTTTGCCGCACTCATTAC	0.423000													18	150					0	0	0.004990	0	0	
LENG1	79165	broad.mit.edu	37	19	54660650	54660650	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:54660650G>A	uc002qdm.2	-	3	439	c.426C>T	c.(424-426)CCC>CCT	p.P142P		NM_024316	NP_077292	Q96BZ8	LENG1_HUMAN	leukocyte receptor cluster (LRC) member 1	142										ovary(1)	1	all_cancers(19;0.0065)|all_epithelial(19;0.00348)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)					GGGCTGGGCCGGGCGGGGGGC	0.642000													13	116					0	0	0.004007	0	0	
RPS9	6203	broad.mit.edu	37	19	54710190	54710190	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:54710190G>T	uc002qdx.2	+	4	323	c.267G>T	c.(265-267)GAG>GAT	p.E89D	RPS9_uc002qdy.2_Intron|RPS9_uc002qdz.2_Missense_Mutation_p.E89D|RPS9_uc002qea.2_Missense_Mutation_p.E89D|RPS9_uc002qeb.2_Missense_Mutation_p.E89D|RPS9_uc002qec.2_RNA|RPS9_uc002qed.1_Missense_Mutation_p.E89D	NM_001013	NP_001004	P46781	RS9_HUMAN	ribosomal protein S9	89					endocrine pancreas development|positive regulation of cell proliferation|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit|nucleolus	protein binding|rRNA binding|structural constituent of ribosome|translation regulator activity			breast(1)	1	all_cancers(19;0.00723)|all_epithelial(19;0.00389)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.18)		TGCTGGATGAGGGCAAGATGA	0.522000													16	49					4.7546e-09	5.28337e-09	0.004007	1	0	
SUV420H2	84787	broad.mit.edu	37	19	55855161	55855161	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:55855161G>A	uc002qkj.3	+	5	748	c.500G>A	c.(499-501)CGC>CAC	p.R167H	SUV420H2_uc002qkl.2_Missense_Mutation_p.R52H	NM_032701	NP_116090	Q86Y97	SV422_HUMAN	suppressor of variegation 4-20 homolog 2	167	SET.				regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding				0	Breast(117;0.191)		BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.044)		TACTCAACCCGCAAGCGGAGT	0.632000													8	26					0	0	0.006214	0	0	
ZNF628	89887	broad.mit.edu	37	19	55994109	55994109	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:55994109C>A	uc002qld.2	+	3	2102	c.1537C>A	c.(1537-1539)CTC>ATC	p.L513I	NAT14_uc002qle.1_5'Flank	NM_033113	NP_149104	Q5EBL2	ZN628_HUMAN	zinc finger protein 628	513	C2H2-type 12.					nucleus	DNA binding|zinc ion binding				0	Breast(117;0.155)		BRCA - Breast invasive adenocarcinoma(297;0.18)|LUSC - Lung squamous cell carcinoma(43;0.193)	GBM - Glioblastoma multiforme(193;0.0531)		CCAGTGCGGCCTCACCTTCAA	0.682000													21	70					1.28384e-07	1.41257e-07	0.012319	1	0	
CCDC106	29903	broad.mit.edu	37	19	56163822	56163822	+	Silent	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:56163822C>A	uc002qlr.2	+	6	1288	c.553C>A	c.(553-555)CGG>AGG	p.R185R	CCDC106_uc002qls.2_Silent_p.R185R|U2AF2_uc002qlt.2_5'Flank|U2AF2_uc002qlu.2_5'Flank	NM_013301	NP_037433	Q9BWC9	CC106_HUMAN	coiled-coil domain containing 106	185						nucleus					0		Colorectal(82;0.00403)|Ovarian(87;0.133)	BRCA - Breast invasive adenocarcinoma(297;0.18)	GBM - Glioblastoma multiforme(193;0.105)		GGTCCTCTGCCGGTACAAGAA	0.652000													8	44					0.000442599	0.000465316	0.006214	1	0	
NLRP5	126206	broad.mit.edu	37	19	56549538	56549538	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:56549538C>T	uc002qmj.2	+	10	2763	c.2763C>T	c.(2761-2763)TCC>TCT	p.S921S	NLRP5_uc002qmi.2_Silent_p.S902S	NM_153447	NP_703148	P59047	NALP5_HUMAN	NACHT, LRR and PYD containing protein 5	921						mitochondrion|nucleolus	ATP binding			ovary(3)|skin(2)|kidney(1)|central_nervous_system(1)	7		Colorectal(82;3.46e-05)|Ovarian(87;0.0481)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0326)		TGAGAGTCTCCCAGTGCGCCC	0.517000													42	87					0	0	0.011902	0	0	
ZNF787	126208	broad.mit.edu	37	19	56600242	56600242	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:56600242C>T	uc010eth.1	-	3	418	c.299G>A	c.(298-300)GGC>GAC	p.G100D		NM_001002836	NP_001002836	Q6DD87	ZN787_HUMAN	zinc finger protein 787	100	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1		Colorectal(82;3.46e-05)|Ovarian(87;0.0822)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0559)		GAAGGTCTTGCCGCAGTCGGC	0.667000													3	34					0	0	0.004672	0	0	
ZSCAN5A	79149	broad.mit.edu	37	19	56733037	56733037	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:56733037T>G	uc002qmq.2	-	5	1564	c.1398A>C	c.(1396-1398)AAA>AAC	p.K466N	ZSCAN5A_uc010ygi.1_Missense_Mutation_p.K349N|ZSCAN5A_uc002qmr.2_Missense_Mutation_p.K466N|ZSCAN5A_uc002qms.1_Missense_Mutation_p.K465N	NM_024303	NP_077279	Q9BUG6	ZSA5A_HUMAN	zinc finger and SCAN domain containing 5A	466					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			large_intestine(1)|ovary(1)|skin(1)	3						ATTTGTAGGGTTTCTCTCCGG	0.498000													15	62					0	0	0.004007	0	0	
ZNF667	63934	broad.mit.edu	37	19	56953014	56953014	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:56953014T>G	uc002qnd.2	-	5	1512	c.1350A>C	c.(1348-1350)AAA>AAC	p.K450N	ZNF667_uc010etl.2_Missense_Mutation_p.K232N|ZNF667_uc002qne.2_Missense_Mutation_p.K450N|ZNF667_uc010etm.2_Missense_Mutation_p.K393N	NM_022103	NP_071386	Q5HYK9	ZN667_HUMAN	zinc finger protein 667	450	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0615)		GGCCGAAAACTTTACTACATT	0.373000													3	55					0	0	0.000602	0	0	
ZNF667	63934	broad.mit.edu	37	19	56953681	56953681	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:56953681A>C	uc002qnd.2	-	5	845	c.683T>G	c.(682-684)CTT>CGT	p.L228R	ZNF667_uc010etl.2_Missense_Mutation_p.L10R|ZNF667_uc002qne.2_Missense_Mutation_p.L228R|ZNF667_uc010etm.2_Missense_Mutation_p.L171R	NM_022103	NP_071386	Q5HYK9	ZN667_HUMAN	zinc finger protein 667	228					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0615)		CCCACAGTCAAGAATTTCCTT	0.393000													24	120					0	0	0.002780	0	0	
ZNF416	55659	broad.mit.edu	37	19	58083498	58083498	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:58083498T>C	uc002qpf.2	-	4	1945	c.1774A>G	c.(1774-1776)AAC>GAC	p.N592D	ZNF547_uc002qpm.3_Intron	NM_017879	NP_060349	Q9BWM5	ZN416_HUMAN	zinc finger protein 416	592					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0259)		TAAACAATGTTAGATCTTGGG	0.458000													8	155					0	0	0.003080	0	0	
ZNF814	730051	broad.mit.edu	37	19	58385546	58385546	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:58385546G>T	uc002qqo.2	-	3	1484	c.1212C>A	c.(1210-1212)GAC>GAA	p.D404E	ZNF814_uc002qqk.2_Intron|ZNF814_uc010yhl.1_Intron	NM_001144989	NP_001138461	B7Z6K7	ZN814_HUMAN	zinc finger protein 814	404					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding				0						AATGTTTTTTGTCAGTGTGAA	0.393000													5	10					5.9392e-07	6.46526e-07	0.001168	1	0	
ZNF324	25799	broad.mit.edu	37	19	58983336	58983336	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:58983336C>T	uc002qsw.1	+	4	1571	c.1477C>T	c.(1477-1479)CGC>TGC	p.R493C	ZNF324_uc002qsx.1_Missense_Mutation_p.R270C	NM_014347	NP_055162	O75467	Z324A_HUMAN	zinc finger protein 324	493	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(17;1.81e-17)|all_epithelial(17;1.21e-12)|Lung NSC(17;2.8e-05)|all_lung(17;0.000139)|Colorectal(82;0.000147)|Renal(17;0.00528)|all_neural(62;0.0133)|Ovarian(87;0.156)|Medulloblastoma(540;0.232)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0164)|Lung(386;0.179)		CTTCCGTGAGCGCCCGGCCCT	0.697000													5	42					0	0	0.000602	0	0	
Unknown	0	broad.mit.edu	37	2	905342	905342	+	RNA	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:905342A>G	uc010ewg.2	-	1		c.241T>C			uc010ewh.1_Missense_Mutation_p.C202R					Homo sapiens cDNA FLJ46162 fis, clone TESTI4002520.																		GAAATTTCACAAAGCTGGTGT	0.512000													14	138					0	0	0.003163	0	0	
PXDN	7837	broad.mit.edu	37	2	1642695	1642695	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:1642695A>C	uc002qxa.2	-	21	4193	c.4129T>G	c.(4129-4131)TCA>GCA	p.S1377A		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	1377					extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		GATGCATCTGAGCGTGTGCTG	0.532000													21	74					0	0	0.008871	0	0	
PXDN	7837	broad.mit.edu	37	2	1647230	1647230	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:1647230C>T	uc002qxa.2	-	19	3926	c.3862G>A	c.(3862-3864)GTG>ATG	p.V1288M		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	1288					extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		ACCCTGAACACGTCGCTCTGC	0.637000													19	150					0	0	0.008871	0	0	
PXDN	7837	broad.mit.edu	37	2	1652618	1652618	+	Silent	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:1652618G>T	uc002qxa.2	-	17	2998	c.2934C>A	c.(2932-2934)GCC>GCA	p.A978A		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	978					extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		GCTGCTCGTTGGCGCGGTGGT	0.697000													5	15					0.000602214	0.000629355	0.000602	1	0	
SOX11	6664	broad.mit.edu	37	2	5832927	5832927	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:5832927A>C	uc002qyj.2	+	1	129	c.74A>C	c.(73-75)GAA>GCA	p.E25A		NM_003108	NP_003099	P35716	SOX11_HUMAN	SRY-box 11	25					cardiac ventricle formation|closure of optic fissure|cornea development in camera-type eye|embryonic digestive tract morphogenesis|embryonic skeletal system morphogenesis|eyelid development in camera-type eye|glial cell proliferation|hard palate development|lens morphogenesis in camera-type eye|limb bud formation|lung morphogenesis|negative regulation of cell death|negative regulation of glial cell proliferation|negative regulation of lymphocyte proliferation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription regulatory region DNA binding|neural crest cell development|neural tube formation|neuroepithelial cell differentiation|noradrenergic neuron differentiation|outflow tract morphogenesis|positive regulation of BMP signaling pathway|positive regulation of hippo signaling cascade|positive regulation of hormone secretion|positive regulation of neurogenesis|positive regulation of neuron differentiation|positive regulation of ossification|positive regulation of osteoblast differentiation|positive regulation of stem cell proliferation|regulation of transforming growth factor beta receptor signaling pathway|signal transduction involved in G1/S transition checkpoint|soft palate development|somite development|spinal cord development|sympathetic nervous system development|ventricular septum morphogenesis	cytoplasm|nucleolus	enhancer sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|RNA polymerase II transcription coactivator activity|translation factor activity, nucleic acid binding			central_nervous_system(3)	3	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			OV - Ovarian serous cystadenocarcinoma(76;0.132)		GAGGAGGGCGAATTCATGGCT	0.657000													8	28					0	0	0.008291	0	0	
MBOAT2	129642	broad.mit.edu	37	2	9013332	9013332	+	Silent	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:9013332A>G	uc002qzg.1	-	8	922	c.789T>C	c.(787-789)CAT>CAC	p.H263H	MBOAT2_uc010yix.1_Silent_p.H263H	NM_138799	NP_620154	Q6ZWT7	MBOA2_HUMAN	O-acyltransferase (membrane bound) domain	263					phospholipid biosynthetic process	integral to membrane	1-acylglycerol-3-phosphate O-acyltransferase activity				0	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					TAGCTTGAAAATGCTCATCAA	0.418000													8	70					0	0	0.006214	0	0	
KLF11	8462	broad.mit.edu	37	2	10192518	10192518	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:10192518C>T	uc002raf.1	+	4	1585	c.1423C>T	c.(1423-1425)CGC>TGC	p.R475C	KLF11_uc010yjc.1_Missense_Mutation_p.R458C	NM_003597	NP_003588	O14901	KLF11_HUMAN	Kruppel-like factor 11	475	C2H2-type 3.				apoptosis|negative regulation of cell proliferation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of apoptosis|regulation of transcription involved in S phase of mitotic cell cycle	nucleus	sequence-specific DNA binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.133)|OV - Ovarian serous cystadenocarcinoma(76;0.228)		GCATGCCCGGCGCCACATGAC	0.607000													22	64					0	0	0.002780	0	0	
KCNF1	3754	broad.mit.edu	37	2	11053586	11053586	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:11053586T>C	uc002rax.2	+	1	1524	c.1034T>C	c.(1033-1035)ATG>ACG	p.M345T		NM_002236	NP_002227	Q9H3M0	KCNF1_HUMAN	potassium voltage-gated channel, subfamily F,	345	Helical; Name=Segment S5; (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.128)		GGCTACACCATGGAGCAGAGC	0.587000													14	59					0	0	0.001855	0	0	
ROCK2	9475	broad.mit.edu	37	2	11348480	11348480	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:11348480C>T	uc002rbd.1	-	19	2746	c.2297G>A	c.(2296-2298)TGT>TAT	p.C766Y		NM_004850	NP_004841	O75116	ROCK2_HUMAN	Rho-associated, coiled-coil containing protein	766	Potential.|Interaction with PPP1R12A.				axon guidance|cytokinesis|intracellular signal transduction	cytosol|plasma membrane	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|structural molecule activity			stomach(2)|skin(2)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.137)|OV - Ovarian serous cystadenocarcinoma(76;0.162)		TTTGAGGTCACAGTCTAATAG	0.338000													5	23					0	0	0.000602	0	0	
GREB1	9687	broad.mit.edu	37	2	11702638	11702638	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:11702638G>A	uc002rbk.1	+	3	507	c.207G>A	c.(205-207)GGG>GGA	p.G69G	GREB1_uc002rbl.2_Silent_p.G69G|GREB1_uc002rbm.2_5'UTR|GREB1_uc002rbn.1_Silent_p.G69G	NM_014668	NP_055483	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	69						integral to membrane				ovary(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.186)		GAGAAGGAGGGCTGGAAACAA	0.587000													40	105					0	0	0.007835	0	0	
GREB1	9687	broad.mit.edu	37	2	11750942	11750942	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:11750942C>T	uc002rbk.1	+	18	3095	c.2795C>T	c.(2794-2796)ACG>ATG	p.T932M	GREB1_uc002rbo.1_Missense_Mutation_p.T566M|GREB1_uc002rbp.1_5'Flank	NM_014668	NP_055483	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	932						integral to membrane				ovary(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.186)		CTGGAGATCACGCAGAACCTC	0.652000													6	92					0	0	0.001984	0	0	
NBAS	51594	broad.mit.edu	37	2	15415645	15415645	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:15415645A>G	uc002rcc.1	-	44	5713	c.5687T>C	c.(5686-5688)GTA>GCA	p.V1896A	NBAS_uc010exl.1_Missense_Mutation_p.V968A|NBAS_uc002rcd.1_RNA	NM_015909	NP_056993	A2RRP1	NBAS_HUMAN	neuroblastoma-amplified protein	1896										ovary(2)|liver(1)|skin(1)	4						AACTGCATCTACCACAGTGAT	0.413000													4	55					0	0	0.009096	0	0	
NBAS	51594	broad.mit.edu	37	2	15557796	15557796	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:15557796C>T	uc002rcc.1	-	24	2644	c.2618G>A	c.(2617-2619)CGG>CAG	p.R873Q	NBAS_uc010exl.1_Intron|NBAS_uc002rcd.1_RNA	NM_015909	NP_056993	A2RRP1	NBAS_HUMAN	neuroblastoma-amplified protein	873										ovary(2)|liver(1)|skin(1)	4						AGGAATATTCCGCTCCATCCC	0.383000													5	36					0	0	0.001984	0	0	
RAD51AP2	729475	broad.mit.edu	37	2	17699599	17699599	+	Silent	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:17699599G>T	uc002rcl.1	-	1	108	c.84C>A	c.(82-84)TCC>TCA	p.S28S	RAD51AP2_uc010exn.1_Silent_p.S19S	NM_001099218	NP_001092688	Q09MP3	R51A2_HUMAN	RAD51 associated protein 2	28										ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					TAGGTGGTTGGGAATCCGGGT	0.602000													30	127					3.99451e-17	4.59238e-17	0.009535	1	0	
APOB	338	broad.mit.edu	37	2	21231016	21231016	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:21231016G>A	uc002red.2	-	26	8852	c.8724C>T	c.(8722-8724)AAC>AAT	p.N2908N		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	2908					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	TCTTGATCTCGTTGCGCAGGT	0.468000													26	212					0	0	0.004656	0	0	
DTNB	1838	broad.mit.edu	37	2	25799766	25799766	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:25799766G>A	uc002rgh.2	-	8	1067	c.817C>T	c.(817-819)CGT>TGT	p.R273C	DTNB_uc010yko.1_Missense_Mutation_p.R216C|DTNB_uc010ykp.1_Missense_Mutation_p.R69C|DTNB_uc002rgo.2_Missense_Mutation_p.R94C|DTNB_uc002rgi.2_Missense_Mutation_p.R273C|DTNB_uc002rgj.2_Missense_Mutation_p.R273C|DTNB_uc002rgk.2_Missense_Mutation_p.R273C|DTNB_uc002rgl.2_Missense_Mutation_p.R273C|DTNB_uc002rgq.2_Missense_Mutation_p.R273C|DTNB_uc002rgm.2_Missense_Mutation_p.R273C|DTNB_uc002rgn.2_Missense_Mutation_p.R69C|DTNB_uc002rgr.1_Missense_Mutation_p.R262C|DTNB_uc010ykq.1_Missense_Mutation_p.R126C	NM_021907	NP_068707	O60941	DTNB_HUMAN	dystrobrevin, beta isoform 1	273	ZZ-type.					cytoplasm	calcium ion binding|zinc ion binding			large_intestine(2)|ovary(2)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GCATGGCCACGCCAAAAGCAA	0.542000													13	15					0	0	0.002450	0	0	
C2orf39	92749	broad.mit.edu	37	2	26677563	26677563	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:26677563C>T	uc002rhg.2	+	15	2042	c.1968C>T	c.(1966-1968)TCC>TCT	p.S656S		NM_145038	NP_659475	Q96MC2	CC164_HUMAN	hypothetical protein LOC92749	656											0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GTGACAACTCCAAGGACTCGG	0.572000													5	134					0	0	0.001168	0	0	
NRBP1	29959	broad.mit.edu	37	2	27662650	27662650	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:27662650C>T	uc002rko.2	+	12	1753	c.921C>T	c.(919-921)TGC>TGT	p.C307C	NRBP1_uc002rkq.2_Silent_p.C306C|NRBP1_uc002rkp.2_Silent_p.C307C|NRBP1_uc002rkr.2_Silent_p.C98C|KRTCAP3_uc002rks.2_5'Flank|KRTCAP3_uc010ylr.1_5'Flank|KRTCAP3_uc002rkt.2_5'Flank	NM_013392	NP_037524	Q9UHY1	NRBP_HUMAN	nuclear receptor binding protein	307	Protein kinase.				ER to Golgi vesicle-mediated transport|gene expression|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cell cortex|endomembrane system|lamellipodium|membrane|nucleoplasm	ATP binding|protein homodimerization activity|protein kinase activity			ovary(2)|lung(1)	3	Acute lymphoblastic leukemia(172;0.155)					TTCAAAAGTGCCTGCAGTCTG	0.453000													76	163					0	0	0.014410	0	0	
IFT172	26160	broad.mit.edu	37	2	27684328	27684328	+	Silent	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:27684328T>C	uc002rku.2	-	22	2301	c.2250A>G	c.(2248-2250)ACA>ACG	p.T750T		NM_015662	NP_056477	Q9UG01	IF172_HUMAN	selective LIM binding factor homolog	750					cilium assembly	cilium	binding			large_intestine(1)|ovary(1)	2	Acute lymphoblastic leukemia(172;0.155)					CCTCTTGCTGTGTGTCCATCA	0.582000													40	136					0	0	0.008740	0	0	
RBKS	64080	broad.mit.edu	37	2	28004550	28004550	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:28004550T>G	uc002rlo.1	-	8	912	c.901A>C	c.(901-903)AGT>CGT	p.S301R	RBKS_uc010ezi.1_Missense_Mutation_p.S234R	NM_022128	NP_071411	Q9H477	RBSK_HUMAN	ribokinase	301					D-ribose metabolic process		ATP binding|ribokinase activity			ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(172;0.155)					GCCTGGACACTGACTGCTGCA	0.448000													27	88					0	0	0.007291	0	0	
C2orf71	388939	broad.mit.edu	37	2	29294952	29294952	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:29294952G>A	uc002rmt.1	-	1	2176	c.2176C>T	c.(2176-2178)CCC>TCC	p.P726S		NM_001029883	NP_001025054	A6NGG8	CB071_HUMAN	hypothetical protein LOC388939	726					response to stimulus|visual perception	photoreceptor outer segment				skin(1)	1						GTTCTGGTGGGACAGCCTCTG	0.552000													13	97					0	0	0.001855	0	0	
NLRC4	58484	broad.mit.edu	37	2	32475569	32475569	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:32475569A>G	uc002roi.2	-	4	1610	c.1364T>C	c.(1363-1365)CTC>CCC	p.L455P	NLRC4_uc002roj.1_Missense_Mutation_p.L455P|NLRC4_uc010ezt.1_Intron	NM_021209	NP_067032	Q9NPP4	NLRC4_HUMAN	caspase recruitment domain protein 12	455	NACHT.				activation of caspase activity|defense response to bacterium|detection of bacterium|interleukin-1 beta secretion|positive regulation of apoptosis	cytoplasm	ATP binding|magnesium ion binding|protein homodimerization activity			ovary(3)|large_intestine(1)|lung(1)|skin(1)	6	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.208)					TAAACTGCTGAGTCTTCGTCC	0.438000													6	113					0	0	0.001168	0	0	
CRIM1	51232	broad.mit.edu	37	2	36749262	36749262	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:36749262G>A	uc002rpd.2	+	13	2273	c.2234G>A	c.(2233-2235)CGC>CAC	p.R745H		NM_016441	NP_057525	Q9NZV1	CRIM1_HUMAN	cysteine-rich motor neuron 1 precursor	745	Extracellular (Potential).				nervous system development|regulation of cell growth	extracellular region|integral to membrane|plasma membrane	insulin-like growth factor binding|insulin-like growth factor receptor activity|serine-type endopeptidase inhibitor activity			ovary(2)|skin(1)	3		all_hematologic(82;0.131)|Acute lymphoblastic leukemia(82;0.154)				TCCTTGTCCCGCAATAACAGC	0.443000													4	116					0	0	0.001168	0	0	
CDC42EP3	10602	broad.mit.edu	37	2	37873630	37873630	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:37873630G>A	uc002rqi.1	-	2	1094	c.101C>T	c.(100-102)CCG>CTG	p.P34L		NM_006449	NP_006440	Q9UKI2	BORG2_HUMAN	Cdc42 effector protein 3	34	CRIB.				regulation of cell shape|signal transduction	actin cytoskeleton|cytoplasm|endomembrane system|membrane	cytoskeletal regulatory protein binding				0		all_hematologic(82;0.172)				GTCTCCAAGCGGGGGACTGAT	0.458000													6	181					0	0	0.001984	0	0	
SLC8A1	6546	broad.mit.edu	37	2	40656482	40656482	+	Silent	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:40656482A>G	uc002rrx.2	-	1	963	c.939T>C	c.(937-939)GAT>GAC	p.D313D	SLC8A1_uc002rry.2_Silent_p.D313D|SLC8A1_uc002rrz.2_Silent_p.D313D|SLC8A1_uc002rsa.2_Silent_p.D313D|SLC8A1_uc002rsd.3_Silent_p.D313D|SLC8A1_uc002rsb.1_Silent_p.D313D|SLC8A1_uc010fan.1_Silent_p.D313D|SLC8A1_uc002rsc.1_Silent_p.D313D	NM_021097	NP_066920	P32418	NAC1_HUMAN	solute carrier family 8 (sodium/calcium	313	Cytoplasmic (Potential).				cell communication|muscle contraction|platelet activation	integral to plasma membrane	calcium:sodium antiporter activity|calmodulin binding|heat shock protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4					Alpha-Linolenic Acid(DB00132)|Icosapent(DB00159)	GGTCCCTCTCATCCACCTCCA	0.418000													28	180					0	0	0.006320	0	0	
EML4	27436	broad.mit.edu	37	2	42543190	42543190	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:42543190G>T	uc002rsi.2	+	18	2318	c.2056G>T	c.(2056-2058)GAT>TAT	p.D686Y	EML4_uc010fap.2_Missense_Mutation_p.D628Y|EML4_uc002rsj.2_Missense_Mutation_p.D375Y|EML4_uc010faq.2_Missense_Mutation_p.D31Y|EML4_uc010ynv.1_Intron	NM_019063	NP_061936	Q9HC35	EMAL4_HUMAN	echinoderm microtubule associated protein like 4	686	WD 7.				microtubule-based process|mitosis	cytoplasm|microtubule	protein binding		EML4/ALK(246)	lung(246)|ovary(2)|central_nervous_system(1)|skin(1)	250						CTACTCAATAGGTAGGCAAAT	0.428000			T	ALK	NSCLC								5	88					3.59834e-05	3.82557e-05	0.001168	1	0	
ZFP36L2	678	broad.mit.edu	37	2	43452530	43452530	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:43452530T>A	uc002rsv.3	-	2	704	c.413A>T	c.(412-414)CAG>CTG	p.Q138L	LOC100129726_uc010ynx.1_5'Flank	NM_006887	NP_008818	P47974	TISD_HUMAN	zinc finger protein 36, C3H type-like 2	138	Poly-Gln.				cell proliferation	nucleus	DNA binding|RNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Acute lymphoblastic leukemia(82;0.00323)|all_hematologic(82;0.00824)				CTGCTGCTGCTGCAGGTGCAG	0.662000													4	42					0	0	0.009096	0	0	
SRBD1	55133	broad.mit.edu	37	2	45807021	45807021	+	Silent	SNP	G	A	A	rs143177963		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:45807021G>A	uc002rus.2	-	7	1141	c.1065C>T	c.(1063-1065)GAC>GAT	p.D355D		NM_018079	NP_060549	Q8N5C6	SRBD1_HUMAN	S1 RNA binding domain 1	355					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		hydrolase activity, acting on ester bonds|RNA binding			central_nervous_system(1)	1		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)	LUSC - Lung squamous cell carcinoma(58;0.0917)|Lung(47;0.154)			TACCTTTAACGTCAGGCCTAA	0.388000													12	264					0	0	0.001855	0	0	
SOCS5	9655	broad.mit.edu	37	2	46986749	46986749	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:46986749C>T	uc002rvf.2	+	2	1244	c.1080C>T	c.(1078-1080)CAC>CAT	p.H360H	SOCS5_uc010yoe.1_Silent_p.H329H|SOCS5_uc002rvg.2_Silent_p.H360H	NM_014011	NP_054730	O75159	SOCS5_HUMAN	suppressor of cytokine signaling 5	360					cell growth|cytokine-mediated signaling pathway|intracellular signal transduction|negative regulation of signal transduction|negative regulation of T-helper 2 cell differentiation|positive regulation of T-helper 1 cell differentiation|regulation of growth					ovary(1)|lung(1)|central_nervous_system(1)	3		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)	LUSC - Lung squamous cell carcinoma(58;0.114)			GGAAAGTCCACACACAGATTG	0.498000													32	72					0	0	0.008361	0	0	
KLRAQ1	129285	broad.mit.edu	37	2	48707064	48707064	+	Silent	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:48707064T>C	uc002rwm.2	+	13	1412	c.1227T>C	c.(1225-1227)AGT>AGC	p.S409S	KLRAQ1_uc002rwj.2_Silent_p.S409S|KLRAQ1_uc002rwl.2_Silent_p.S363S|KLRAQ1_uc002rwk.2_Silent_p.S409S|KLRAQ1_uc010yok.1_Silent_p.S409S	NM_001135629	NP_001129101	Q6ZMI0	KLRAQ_HUMAN	KLRAQ motif containing 1 isoform 1	409										ovary(1)	1						ATTTCCTAGGTACAGAGCCAG	0.408000													4	60					0	0	0.009096	0	0	
SLC1A4	6509	broad.mit.edu	37	2	65245255	65245255	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:65245255T>C	uc010yqa.1	+	6	1407	c.1085T>C	c.(1084-1086)GTG>GCG	p.V362A	SLC1A4_uc010ypy.1_Missense_Mutation_p.V142A|SLC1A4_uc010ypz.1_Missense_Mutation_p.V64A|SLC1A4_uc010fcv.2_Missense_Mutation_p.V362A|SLC1A4_uc002sdh.2_Missense_Mutation_p.V142A	NM_003038	NP_003029	P43007	SATT_HUMAN	solute carrier family 1, member 4 isoform 1	362					cellular nitrogen compound metabolic process|cognition|synaptic transmission, glutamatergic	intermediate filament|melanosome	chloride channel activity|L-alanine transmembrane transporter activity|L-cystine transmembrane transporter activity|L-hydroxyproline transmembrane transporter activity|L-proline transmembrane transporter activity|L-serine transmembrane transporter activity|L-threonine transmembrane transporter activity|sodium:dicarboxylate symporter activity			pancreas(1)	1					L-Alanine(DB00160)	AACAATGGTGTGGACAAGAGG	0.532000													23	104					0	0	0.014323	0	0	
SPRED2	200734	broad.mit.edu	37	2	65541010	65541010	+	Silent	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:65541010C>A	uc002sdr.3	-	6	1417	c.882G>T	c.(880-882)CGG>CGT	p.R294R	SPRED2_uc010fcw.2_Silent_p.R291R	NM_181784	NP_861449	Q7Z698	SPRE2_HUMAN	sprouty-related protein with EVH-1 domain 2	294					inactivation of MAPK activity|multicellular organismal development	transport vesicle membrane	stem cell factor receptor binding			ovary(1)|lung(1)|central_nervous_system(1)	3						GCGACTTGCCCCGGGAGGGCT	0.662000													42	127					5.2432e-18	6.05061e-18	0.014410	1	0	
ASPRV1	151516	broad.mit.edu	37	2	70188248	70188248	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:70188248G>A	uc002sfz.3	-	1	1150	c.573C>T	c.(571-573)AGC>AGT	p.S191S		NM_152792	NP_690005	Q53RT3	APRV1_HUMAN	aspartic peptidase, retroviral-like 1 precursor	191	Extracellular (Potential).				protein maturation by peptide bond cleavage|skin development		aspartic-type endopeptidase activity			ovary(1)	1						CCTTACCCATGCTGTTGGCAA	0.587000													5	114					0	0	0.000602	0	0	
PCYOX1	51449	broad.mit.edu	37	2	70504467	70504467	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:70504467G>A	uc002sgn.3	+	6	1527	c.1461G>A	c.(1459-1461)GGG>GGA	p.G487G	PCYOX1_uc010fdo.2_Silent_p.G410G|PCYOX1_uc010yqu.1_Silent_p.G469G	NM_016297	NP_057381	Q9UHG3	PCYOX_HUMAN	prenylcysteine oxidase 1 precursor	487					prenylated protein catabolic process	lysosome|very-low-density lipoprotein particle	prenylcysteine oxidase activity			central_nervous_system(1)	1						GCTGGAACGGGCACACAGACA	0.463000													6	225					0	0	0.003080	0	0	
ZNF638	27332	broad.mit.edu	37	2	71607362	71607362	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:71607362T>C	uc002shx.2	+	9	2595	c.2276T>C	c.(2275-2277)GTG>GCG	p.V759A	ZNF638_uc010fec.2_Missense_Mutation_p.V865A|ZNF638_uc010yqw.1_Missense_Mutation_p.V338A|ZNF638_uc002shw.2_Missense_Mutation_p.V759A|ZNF638_uc002shy.2_Missense_Mutation_p.V759A|ZNF638_uc002shz.2_Missense_Mutation_p.V759A|ZNF638_uc002sia.2_Missense_Mutation_p.V759A|ZNF638_uc002sib.1_Missense_Mutation_p.V759A|ZNF638_uc010fed.2_RNA	NM_014497	NP_055312	Q14966	ZN638_HUMAN	zinc finger protein 638	759					RNA splicing	cytoplasm|nuclear speck	double-stranded DNA binding|nucleotide binding|RNA binding|zinc ion binding			pancreas(2)|ovary(1)|skin(1)	4						AACAAAGAGGTGAAGAAAAAG	0.264000													11	28					0	0	0.010729	0	0	
POLR1A	25885	broad.mit.edu	37	2	86272846	86272846	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:86272846G>A	uc002sqs.2	-	20	3159	c.2780C>T	c.(2779-2781)CCG>CTG	p.P927L	POLR1A_uc010ytb.1_Missense_Mutation_p.P293L|POLR1A_uc002sqt.1_5'Flank	NM_015425	NP_056240	O95602	RPA1_HUMAN	DNA-directed RNA polymerase I A	927					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	DNA-directed RNA polymerase I complex|nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|protein binding|zinc ion binding			ovary(2)|skin(1)	3						CGCCATCAGCGGGGGTCTCCG	0.552000													9	91					0	0	0.008291	0	0	
ASTL	431705	broad.mit.edu	37	2	96789603	96789603	+	Missense_Mutation	SNP	T	C	C	rs11292169		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:96789603T>C	uc010yui.1	-	9	1282	c.1282A>G	c.(1282-1284)ATG>GTG	p.M428V		NM_001002036	NP_001002036	Q6HA08	ASTL_HUMAN	astacin-like metalloendopeptidase precursor	428					proteolysis		metalloendopeptidase activity|zinc ion binding				0						TCTTCGGACATCCCCTTGAAA	0.582000													4	108					0	0	0.001168	0	0	
TMEM127	55654	broad.mit.edu	37	2	96919847	96919847	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:96919847T>C	uc002svq.2	-	4	673	c.416A>G	c.(415-417)CAG>CGG	p.Q139R	TMEM127_uc002svr.2_Missense_Mutation_p.Q139R	NM_017849	NP_060319	O75204	TM127_HUMAN	transmembrane protein 127	139	Helical; (Potential).				negative regulation of cell proliferation|negative regulation of TOR signaling cascade	cytoplasm|integral to membrane|plasma membrane					0						GGTGGCACACTGCAGAACTAG	0.522000									Pheochromocytoma_(Adrenal)_Familial				32	66					0	0	0.010818	0	0	
SNRNP200	23020	broad.mit.edu	37	2	96963431	96963431	+	Missense_Mutation	SNP	G	A	A	rs142216052		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:96963431G>A	uc002svu.2	-	10	1233	c.1147C>T	c.(1147-1149)CGT>TGT	p.R383C		NM_014014	NP_054733	O75643	U520_HUMAN	activating signal cointegrator 1 complex subunit	383						catalytic step 2 spliceosome|nucleoplasm|U5 snRNP	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			ovary(5)|skin(4)|large_intestine(1)	10						CGAGACTGACGCACTCGCTCT	0.483000													11	74					0	0	0.010729	0	0	
ARID5A	10865	broad.mit.edu	37	2	97217888	97217888	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:97217888C>T	uc002swe.2	+	7	1723	c.1623C>T	c.(1621-1623)ACC>ACT	p.T541T	ARID5A_uc010yuq.1_Silent_p.T489T|ARID5A_uc002swf.2_Silent_p.T377T|ARID5A_uc002swg.2_Silent_p.T489T	NM_212481	NP_997646	Q03989	ARI5A_HUMAN	AT rich interactive domain 5A	541					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding				0						TCCTGGCCACCGCAGGCCCCT	0.697000													54	181					0	0	0.014410	0	0	
FAHD2B	151313	broad.mit.edu	37	2	97751598	97751598	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:97751598C>T	uc002sxm.2	-	5	674	c.523G>A	c.(523-525)GCC>ACC	p.A175T		NM_199336	NP_955368	Q6P2I3	FAH2B_HUMAN	fumarylacetoacetate hydrolase domain containing	175							hydrolase activity|metal ion binding				0						GCATCTGTGGCCTATGGGGGC	0.567000													12	102					0	0	0.010729	0	0	
C2orf55	343990	broad.mit.edu	37	2	99448879	99448879	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:99448879C>T	uc002szf.1	-	5	766	c.472G>A	c.(472-474)GAC>AAC	p.D158N		NM_207362	NP_997245	Q6NV74	CB055_HUMAN	hypothetical protein LOC343990	158											0						GGCAGCCCGTCGTCCTCAGAG	0.587000													30	63					0	0	0.007291	0	0	
LONRF2	164832	broad.mit.edu	37	2	100916256	100916256	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:100916256G>A	uc002tal.3	-	5	1830	c.1190C>T	c.(1189-1191)GCT>GTT	p.A397V	LONRF2_uc010yvs.1_RNA	NM_198461	NP_940863	Q1L5Z9	LONF2_HUMAN	LON peptidase N-terminal domain and ring finger	397					proteolysis		ATP-dependent peptidase activity|zinc ion binding			large_intestine(1)|skin(1)	2						CTTTAAGCCAGCGCTGGGTGC	0.448000													13	108					0	0	0.002450	0	0	
FBLN7	129804	broad.mit.edu	37	2	112940466	112940466	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:112940466G>A	uc002tho.1	+	6	1040	c.769G>A	c.(769-771)GGT>AGT	p.G257S	FBLN7_uc002thn.2_Missense_Mutation_p.G257S|FBLN7_uc010fki.1_Missense_Mutation_p.G211S|FBLN7_uc010fkj.1_Intron	NM_153214	NP_694946	Q53RD9	FBLN7_HUMAN	fibulin 7 isoform 1	257	EGF-like 2; calcium-binding (Potential).				cell adhesion	proteinaceous extracellular matrix	calcium ion binding|heparin binding			ovary(1)|central_nervous_system(1)	2						CACCTGCCCCGGTGGATACCG	0.647000													33	70					0	0	0.013726	0	0	
CCDC93	54520	broad.mit.edu	37	2	118766148	118766148	+	Silent	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:118766148T>C	uc002tlj.2	-	2	255	c.129A>G	c.(127-129)AGA>AGG	p.R43R	CCDC93_uc010fld.1_Silent_p.R43R	NM_019044	NP_061917	Q567U6	CCD93_HUMAN	coiled-coil domain containing 93	43										large_intestine(1)|ovary(1)	2						AGCCTTTAATTCTTGCCCTGA	0.378000													7	120					0	0	0.001984	0	0	
NCKAP5	344148	broad.mit.edu	37	2	133540357	133540357	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:133540357C>A	uc002ttp.2	-	14	4401	c.4027G>T	c.(4027-4029)GGG>TGG	p.G1343W	NCKAP5_uc002ttq.2_Intron	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	1343							protein binding				0						GAGGGGTGCCCCGAGGGCCTC	0.602000													8	31					0.000442599	0.000465316	0.006214	1	0	
YSK4	80122	broad.mit.edu	37	2	135744541	135744541	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:135744541G>A	uc002tue.1	-	7	1932	c.1901C>T	c.(1900-1902)CCG>CTG	p.P634L	YSK4_uc002tuf.1_Intron|YSK4_uc010fnc.1_Intron|YSK4_uc010fnd.1_Missense_Mutation_p.P521L|YSK4_uc010zbg.1_Intron|YSK4_uc002tuh.3_Missense_Mutation_p.P362L|YSK4_uc002tui.3_Missense_Mutation_p.P651L	NM_025052	NP_079328	Q56UN5	YSK4_HUMAN	Yeast Sps1/Ste20-related kinase 4 isoform 1	634							ATP binding|protein serine/threonine kinase activity			stomach(2)|urinary_tract(1)|ovary(1)|breast(1)	5				BRCA - Breast invasive adenocarcinoma(221;0.112)		TGGCTCTGTCGGTTGAACAGA	0.383000													48	211					0	0	0.013114	0	0	
ZRANB3	84083	broad.mit.edu	37	2	136029371	136029371	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:136029371G>A	uc002tum.2	-	10	1290	c.1173C>T	c.(1171-1173)CGC>CGT	p.R391R	ZRANB3_uc002tuk.2_5'UTR|ZRANB3_uc002tul.2_Silent_p.R391R|ZRANB3_uc002tun.1_Silent_p.R331R	NM_032143	NP_115519	Q5FWF4	ZRAB3_HUMAN	zinc finger, RAN-binding domain containing 3	391	Helicase C-terminal.					intracellular	ATP binding|DNA binding|endonuclease activity|helicase activity|zinc ion binding			lung(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.135)		GGATAGCCACGCGAGTGTCAG	0.378000													14	52					0	0	0.002450	0	0	
LRP1B	53353	broad.mit.edu	37	2	141202148	141202148	+	Silent	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:141202148A>G	uc002tvj.1	-	64	11130	c.10158T>C	c.(10156-10158)TCT>TCC	p.S3386S		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3386	Extracellular (Potential).|LDL-receptor class A 22.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		TGAGTTCATCAGAATTGTCTC	0.383000										TSP Lung(27;0.18)			30	47					0	0	0.008361	0	0	
LRP1B	53353	broad.mit.edu	37	2	141625740	141625740	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:141625740A>G	uc002tvj.1	-	26	5234	c.4262T>C	c.(4261-4263)ATG>ACG	p.M1421T	LRP1B_uc010fnl.1_Missense_Mutation_p.M603T	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	1421	Extracellular (Potential).|LDL-receptor class B 11.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		CCCAGTTTTCATGTCTTTATA	0.403000										TSP Lung(27;0.18)			25	87					0	0	0.005443	0	0	
ZEB2	9839	broad.mit.edu	37	2	145153986	145153986	+	Silent	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:145153986T>C	uc002tvu.2	-	9	3540	c.3060A>G	c.(3058-3060)GAA>GAG	p.E1020E	ZEB2_uc002tvv.2_Silent_p.E1014E|ZEB2_uc010zbm.1_Silent_p.E991E|ZEB2_uc010fnp.2_Intron	NM_014795	NP_055610	O60315	ZEB2_HUMAN	zinc finger homeobox 1b	1020	C2H2-type 5.					cytoplasm|nucleolus	phosphatase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|SMAD binding|zinc ion binding			ovary(5)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)	9				BRCA - Breast invasive adenocarcinoma(221;0.112)		TACCTGTGTGTTCGTATTTAT	0.408000													62	136					0	0	0.014410	0	0	
NR4A2	4929	broad.mit.edu	37	2	157184520	157184520	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:157184520C>T	uc002tyz.3	-	5	1423	c.1001G>A	c.(1000-1002)CGC>CAC	p.R334H	NR4A2_uc002tyx.3_Missense_Mutation_p.R271H|NR4A2_uc010zcf.1_Missense_Mutation_p.R334H|NR4A2_uc010zcg.1_5'UTR	NM_006186	NP_006177	P43354	NR4A2_HUMAN	nuclear receptor subfamily 4, group A, member 2	334	Nuclear receptor.				cellular response to extracellular stimulus|dopaminergic neuron differentiation|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to protein stimulus	nucleoplasm	sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(3)	3						ACTGTCTGTGCGAACCACTGC	0.657000													5	11					0	0	0.000602	0	0	
BAZ2B	29994	broad.mit.edu	37	2	160289669	160289669	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:160289669C>A	uc002uao.2	-	9	1851	c.1499G>T	c.(1498-1500)AGT>ATT	p.S500I	BAZ2B_uc002uap.2_Missense_Mutation_p.S498I|BAZ2B_uc002uas.1_Missense_Mutation_p.S437I|BAZ2B_uc002uaq.1_Missense_Mutation_p.S428I|BAZ2B_uc002uar.1_Missense_Mutation_p.S73I	NM_013450	NP_038478	Q9UIF8	BAZ2B_HUMAN	bromodomain adjacent to zinc finger domain, 2B	500					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|skin(1)	4						TTGAATGACACTTTGAATAAC	0.383000													18	202					1.45105e-14	1.65892e-14	0.006122	1	0	
FIGN	55137	broad.mit.edu	37	2	164467050	164467050	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:164467050C>A	uc002uck.1	-	3	1603	c.1292G>T	c.(1291-1293)GGG>GTG	p.G431V		NM_018086	NP_060556	Q5HY92	FIGN_HUMAN	fidgetin	431						nuclear matrix	ATP binding|nucleoside-triphosphatase activity			large_intestine(2)|ovary(1)|skin(1)	4						GTGCTCGTCCCCATGCTCACT	0.517000													40	101					2.40579e-17	2.77106e-17	0.006230	1	0	
B3GALT1	8708	broad.mit.edu	37	2	168726164	168726164	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:168726164C>T	uc002udz.1	+	2	966	c.615C>T	c.(613-615)GGC>GGT	p.G205G		NM_020981	NP_066191	Q9Y5Z6	B3GT1_HUMAN	UDP-Gal:betaGlcNAc beta	205	Lumenal (Potential).				lipid glycosylation|protein glycosylation	Golgi membrane|integral to membrane	UDP-galactose:beta-N-acetylglucosamine beta-1,3-galactosyltransferase activity			ovary(2)|pancreas(1)|skin(1)	4						ATTTTACTGGCTATGTCATTA	0.428000													31	50					0	0	0.010818	0	0	
LRP2	4036	broad.mit.edu	37	2	170104000	170104000	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:170104000T>A	uc002ues.2	-	20	3009	c.2796A>T	c.(2794-2796)AGA>AGT	p.R932S	LRP2_uc010zdf.1_Missense_Mutation_p.R795S	NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	932	Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	TGGCACCCAGTCTCCAGTCAG	0.363000													32	64					0	0	0.010818	0	0	
GPR155	151556	broad.mit.edu	37	2	175346317	175346317	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:175346317A>G	uc002uit.2	-	3	759	c.368T>C	c.(367-369)TTG>TCG	p.L123S	GPR155_uc002uiu.2_Missense_Mutation_p.L123S|GPR155_uc002uiv.2_Missense_Mutation_p.L123S|GPR155_uc010fqs.2_Missense_Mutation_p.L123S	NM_001033045	NP_001028217	Q7Z3F1	GP155_HUMAN	G protein-coupled receptor 155 isoform 9	123	Helical; (Potential).				intracellular signal transduction|transmembrane transport	integral to membrane				ovary(1)	1						ACTGGCAACCAATAAGGTTAA	0.353000													8	273					0	0	0.006214	0	0	
OSBPL6	114880	broad.mit.edu	37	2	179247919	179247919	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:179247919A>G	uc002ulx.2	+	17	2168	c.1790A>G	c.(1789-1791)AAC>AGC	p.N597S	OSBPL6_uc002uly.2_Missense_Mutation_p.N622S|OSBPL6_uc010zfe.1_Missense_Mutation_p.N566S|OSBPL6_uc002ulz.2_Missense_Mutation_p.N561S|OSBPL6_uc002uma.2_Missense_Mutation_p.N601S	NM_032523	NP_115912	Q9BZF3	OSBL6_HUMAN	oxysterol-binding protein-like protein 6 isoform	597					lipid transport		lipid binding			pancreas(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.00578)|Epithelial(96;0.00847)|all cancers(119;0.0335)			GAGCCGCTCAACACCCTGCAG	0.458000													6	55					0	0	0.001984	0	0	
TTN	7273	broad.mit.edu	37	2	179410360	179410360	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:179410360A>G	uc010zfg.1	-	293	87997	c.87773T>C	c.(87772-87774)ATT>ACT	p.I29258T	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.I22953T|TTN_uc010zfi.1_Missense_Mutation_p.I22886T|TTN_uc010zfj.1_Missense_Mutation_p.I22761T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	30185							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)			TGTCCACTGAATGATGATATG	0.428000													72	274					0	0	0.014410	0	0	
TTN	7273	broad.mit.edu	37	2	179413378	179413378	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:179413378C>A	uc010zfg.1	-	288	85495	c.85271G>T	c.(85270-85272)GGG>GTG	p.G28424V	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.G22119V|TTN_uc010zfi.1_Missense_Mutation_p.G22052V|TTN_uc010zfj.1_Missense_Mutation_p.G21927V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	29351							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)			GGTATATTTCCCTGCATCATT	0.468000													39	152					4.32679e-17	4.96974e-17	0.006999	1	0	
TTN	7273	broad.mit.edu	37	2	179427507	179427507	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:179427507C>T	uc010zfg.1	-	275	75872	c.75648G>A	c.(75646-75648)ACG>ACA	p.T25216T	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.T18911T|TTN_uc010zfi.1_Silent_p.T18844T|TTN_uc010zfj.1_Silent_p.T18719T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	26143							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)			CCCAGGACAACGTCACTGAGT	0.413000													5	47					0	0	0.000602	0	0	
TTN	7273	broad.mit.edu	37	2	179430401	179430401	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:179430401G>A	uc010zfg.1	-	275	72978	c.72754C>T	c.(72754-72756)CAG>TAG	p.Q24252*	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Nonsense_Mutation_p.Q17947*|TTN_uc010zfi.1_Nonsense_Mutation_p.Q17880*|TTN_uc010zfj.1_Nonsense_Mutation_p.Q17755*	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	25179							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)			CCTTTGGGCTGCATTTCAACA	0.463000													6	243					0	0	0.001168	0	0	
TTN	7273	broad.mit.edu	37	2	179544699	179544699	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:179544699C>T	uc010zfg.1	-	137	29994	c.29770G>A	c.(29770-29772)GAA>AAA	p.E9924K	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.E6585K|TTN_uc010fre.1_Intron|TTN_uc002una.1_5'Flank|TTN_uc010frf.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	10851							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)			TCTTCTTCTTCTACAAGATAT	0.403000													18	74					0	0	0.004990	0	0	
CWC22	57703	broad.mit.edu	37	2	180830644	180830644	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:180830644C>T	uc010frh.1	-	12	1576	c.1276G>A	c.(1276-1278)GAG>AAG	p.E426K	CWC22_uc002unp.2_Missense_Mutation_p.E426K	NM_020943	NP_065994	Q9HCG8	CWC22_HUMAN	CWC22 spliceosome-associated protein homolog	426	Poly-Glu.					catalytic step 2 spliceosome	protein binding|RNA binding				0						tcttcttcctcgtcctcttcA	0.229000													7	54					0	0	0.001984	0	0	
PPP1R1C	151242	broad.mit.edu	37	2	182928520	182928520	+	Splice_Site	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:182928520T>C	uc002uoo.2	+	4	528	c.241_splice	c.e4+2	p.G81_splice	PPP1R1C_uc002uon.2_Splice_Site|PPP1R1C_uc002uop.1_Splice_Site_p.G81_splice|PPP1R1C_uc010frm.1_Splice_Site_p.G88_splice|PPP1R1C_uc010frn.1_Splice_Site	NM_001080545	NP_001074014	Q8WVI7	PPR1C_HUMAN	protein phosphatase 1, regulatory (inhibitor)						signal transduction	cytoplasm	protein phosphatase inhibitor activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.0628)			CCATAAAAGGTACTGTTCAGG	0.433000													49	98					0	0	0.014410	0	0	
PDE1A	5136	broad.mit.edu	37	2	183088619	183088619	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:183088619T>C	uc002uos.2	-	8	880	c.796A>G	c.(796-798)ACA>GCA	p.T266A	PDE1A_uc010zfp.1_Missense_Mutation_p.T162A|PDE1A_uc002uoq.1_Missense_Mutation_p.T266A|PDE1A_uc010zfq.1_Missense_Mutation_p.T266A|PDE1A_uc002uor.2_Missense_Mutation_p.T250A|PDE1A_uc002uou.2_Missense_Mutation_p.T232A	NM_001003683	NP_001003683	P54750	PDE1A_HUMAN	phosphodiesterase 1A isoform 2	266	Catalytic (By similarity).				activation of phospholipase C activity|nerve growth factor receptor signaling pathway|platelet activation	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			skin(2)|ovary(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.061)			TTGTTTGTTGTCCCTGTATGC	0.328000													3	38					0	0	0.009096	0	0	
MFSD6	54842	broad.mit.edu	37	2	191301681	191301681	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:191301681T>C	uc002urz.2	+	3	1250	c.926T>C	c.(925-927)GTA>GCA	p.V309A		NM_017694	NP_060164	Q6ZSS7	MFSD6_HUMAN	major facilitator superfamily domain containing	309					transmembrane transport	integral to membrane				ovary(2)	2						GTCACAATCGTAGACACGGTC	0.478000													18	204					0	0	0.006122	0	0	
PGAP1	80055	broad.mit.edu	37	2	197729777	197729777	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:197729777G>A	uc002utw.2	-	20	1909	c.1795C>T	c.(1795-1797)CCT>TCT	p.P599S	PGAP1_uc002utx.2_Missense_Mutation_p.P425S|PGAP1_uc002uty.1_Intron	NM_024989	NP_079265	Q75T13	PGAP1_HUMAN	GPI deacylase	599	Lumenal (Potential).				attachment of GPI anchor to protein|C-terminal protein lipidation|intracellular protein transport|myo-inositol transport	integral to membrane|intrinsic to endoplasmic reticulum membrane	nuclease activity|phosphoric ester hydrolase activity			ovary(3)|central_nervous_system(1)	4						ACATAAGCAGGAAGAGCTCCA	0.318000													8	32					0	0	0.003080	0	0	
AOX1	316	broad.mit.edu	37	2	201478593	201478593	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:201478593C>T	uc002uvx.2	+	15	1616	c.1515C>T	c.(1513-1515)GGC>GGT	p.G505G	AOX1_uc010zhf.1_Silent_p.G61G|AOX1_uc010fsu.2_5'UTR	NM_001159	NP_001150	Q06278	ADO_HUMAN	aldehyde oxidase 1	505					inflammatory response|reactive oxygen species metabolic process	cytoplasm	2 iron, 2 sulfur cluster binding|aldehyde oxidase activity|flavin adenine dinucleotide binding|iron ion binding|NAD binding|xanthine dehydrogenase activity			ovary(4)|pancreas(1)|skin(1)	6					Brimonidine(DB00484)|Chlorpromazine(DB00477)|Famciclovir(DB00426)|Menadione(DB00170)|Methotrexate(DB00563)|NADH(DB00157)|Palonosetron(DB00377)|Penciclovir(DB00299)|Raloxifene(DB00481)|Zaleplon(DB00962)|Zonisamide(DB00909)	CCCTTTTGGGCTCGGCGCCAG	0.478000													5	67					0	0	0.001168	0	0	
MPP4	58538	broad.mit.edu	37	2	202546262	202546262	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:202546262T>G	uc002uyk.3	-	9	897	c.689A>C	c.(688-690)AAG>ACG	p.K230T	MPP4_uc010ftj.2_Missense_Mutation_p.K230T|MPP4_uc010zhq.1_Missense_Mutation_p.K230T|MPP4_uc010zhr.1_Missense_Mutation_p.K230T|MPP4_uc010zhs.1_Missense_Mutation_p.K186T|MPP4_uc002uyj.3_Missense_Mutation_p.K186T|MPP4_uc010zht.1_Missense_Mutation_p.K203T|MPP4_uc002uyl.3_RNA|MPP4_uc010ftk.2_Missense_Mutation_p.K230T|MPP4_uc002uym.1_Missense_Mutation_p.K199T|MPP4_uc002uyn.2_Missense_Mutation_p.K186T	NM_033066	NP_149055	Q96JB8	MPP4_HUMAN	membrane protein, palmitoylated 4	230	PDZ.					cytoplasm	protein binding				0						TGGAACCACCTTGAACATGAT	0.483000													11	33					0	0	0.010729	0	0	
FZD7	8324	broad.mit.edu	37	2	202900082	202900082	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:202900082C>T	uc002uyw.1	+	1	773	c.712C>T	c.(712-714)CGT>TGT	p.R238C		NM_003507	NP_003498	O75084	FZD7_HUMAN	frizzled 7 precursor	238	Extracellular (Potential).				axonogenesis|brain development|canonical Wnt receptor signaling pathway|cellular response to retinoic acid|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|mesenchymal to epithelial transition|negative regulation of cell-substrate adhesion|negative regulation of ectodermal cell fate specification|positive regulation of epithelial cell proliferation involved in wound healing|positive regulation of phosphorylation|positive regulation of transcription, DNA-dependent|regulation of catenin import into nucleus|vasculature development|Wnt receptor signaling pathway, calcium modulating pathway	apical part of cell|cytoplasm|integral to membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			skin(2)|ovary(1)|breast(1)	4						CGAACCGGGCCGTGCCAACGG	0.672000											OREG0015146	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	71					0	0	0.013537	0	0	
NDUFS1	4719	broad.mit.edu	37	2	206991509	206991509	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:206991509T>G	uc002vbe.2	-	17	2071	c.1944A>C	c.(1942-1944)GAA>GAC	p.E648D	NDUFS1_uc010ziq.1_Missense_Mutation_p.E662D|NDUFS1_uc010zir.1_Missense_Mutation_p.E612D|NDUFS1_uc010zis.1_Missense_Mutation_p.E591D|NDUFS1_uc010zit.1_Missense_Mutation_p.E537D|NDUFS1_uc010ziu.1_Missense_Mutation_p.E532D	NM_005006	NP_004997	P28331	NDUS1_HUMAN	NADH dehydrogenase (ubiquinone) Fe-S protein 1,	648					apoptosis|ATP metabolic process|mitochondrial electron transport, NADH to ubiquinone|reactive oxygen species metabolic process|regulation of mitochondrial membrane potential|transport	mitochondrial intermembrane space|mitochondrial respiratory chain complex I	2 iron, 2 sulfur cluster binding|4 iron, 4 sulfur cluster binding|electron carrier activity|metal ion binding|NADH dehydrogenase (ubiquinone) activity|protein binding			ovary(1)	1					NADH(DB00157)	TAGGAGAGACTTCTTCCAATC	0.398000													53	93					0	0	0.014410	0	0	
CCNYL1	151195	broad.mit.edu	37	2	208618400	208618400	+	Missense_Mutation	SNP	G	A	A	rs34427171		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:208618400G>A	uc002vci.2	+	8	1262	c.905G>A	c.(904-906)CGC>CAC	p.R302H	CCNYL1_uc002vch.2_Missense_Mutation_p.R283H	NM_001142300	NP_001135772	Q8N7R7	CCYL1_HUMAN	cyclin Y-like 1 isoform 1	353					regulation of cyclin-dependent protein kinase activity		protein kinase binding				0				LUSC - Lung squamous cell carcinoma(261;0.0731)|Epithelial(149;0.139)|Lung(261;0.14)		GGTATTCAGCGCTCTAAAGCC	0.418000													31	66					0	0	0.007291	0	0	
UNC80	285175	broad.mit.edu	37	2	210658516	210658516	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:210658516C>T	uc010zjc.1	+	7	951	c.871C>T	c.(871-873)CGA>TGA	p.R291*	UNC80_uc002vdj.1_Nonsense_Mutation_p.R291*	NM_032504	NP_115893	Q8N2C7	UNC80_HUMAN	chromosome 2 open reading frame 21 isoform 1	291						integral to membrane					0						AGGCTGTCACCGAGGAAACTC	0.488000													8	60					0	0	0.003080	0	0	
ATIC	471	broad.mit.edu	37	2	216214270	216214270	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:216214270G>A	uc002vex.3	+	16	1845	c.1671G>A	c.(1669-1671)GCG>GCA	p.A557A	ATIC_uc010zjo.1_Silent_p.A498A|ATIC_uc002vey.3_Silent_p.A556A	NM_004044	NP_004035	P31939	PUR9_HUMAN	5-aminoimidazole-4-carboxamide ribonucleotide	557					IMP biosynthetic process|purine base metabolic process	cytosol	IMP cyclohydrolase activity|phosphoribosylaminoimidazolecarboxamide formyltransferase activity|protein homodimerization activity	p.A557A(1)	ATIC/ALK(24)	haematopoietic_and_lymphoid_tissue(22)|ovary(2)|lung(2)|soft_tissue(2)|skin(1)	29		Renal(323;0.229)		Epithelial(149;2.02e-06)|all cancers(144;0.000316)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.0097)	Tetrahydrofolic acid(DB00116)	GTGGTGTGGCGTACATTGCGG	0.468000			T	ALK	ALCL								4	96					0	0	0.009096	0	0	
CYP27A1	1593	broad.mit.edu	37	2	219674400	219674400	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:219674400G>A	uc002viz.3	+	2	790	c.356G>A	c.(355-357)CGG>CAG	p.R119Q		NM_000784	NP_000775	Q02318	CP27A_HUMAN	cytochrome P450, family 27, subfamily A,	119					bile acid biosynthetic process|xenobiotic metabolic process	mitochondrial matrix	cholestanetriol 26-monooxygenase activity|electron carrier activity|heme binding			ovary(1)	1		Renal(207;0.0474)		Epithelial(149;9.48e-07)|all cancers(144;0.000171)|LUSC - Lung squamous cell carcinoma(224;0.00813)|Lung(261;0.00981)	Cholecalciferol(DB00169)	CAAGTGATGCGGCAAGAGGGC	0.587000													83	134					0	0	0.014410	0	0	
IHH	3549	broad.mit.edu	37	2	219920330	219920330	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:219920330T>C	uc002vjo.1	-	3	835	c.835A>G	c.(835-837)ACG>GCG	p.T279A		NM_002181	NP_002172	Q14623	IHH_HUMAN	Indian hedgehog homolog precursor	279					cell-cell signaling|intein-mediated protein splicing|proteolysis	extracellular space|plasma membrane	cholesterol binding|patched binding|peptidase activity			breast(1)	1		Renal(207;0.0915)		Epithelial(149;1.13e-06)|all cancers(144;0.000188)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TTGTCAGCCGTAAAGAGCAGG	0.662000													4	47					0	0	0.009096	0	0	
WDFY1	57590	broad.mit.edu	37	2	224782711	224782711	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:224782711G>A	uc002vnq.2	-	2	205	c.154C>T	c.(154-156)CTG>TTG	p.L52L		NM_020830	NP_065881	Q8IWB7	WDFY1_HUMAN	WD repeat and FYVE domain containing 1	52	WD 1.					cytosol|early endosome|nucleus	1-phosphatidylinositol binding|zinc ion binding			lung(1)	1		all_lung(227;0.00682)|Lung NSC(271;0.00859)|Renal(207;0.0112)|all_hematologic(139;0.189)		Epithelial(121;5.34e-10)|all cancers(144;1.67e-07)|Lung(261;0.00807)|LUSC - Lung squamous cell carcinoma(224;0.00843)		TCTCTTTTCAGCCATACCCGG	0.353000													12	52					0	0	0.002450	0	0	
FAM124B	79843	broad.mit.edu	37	2	225265836	225265836	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:225265836G>T	uc002vnx.2	-	1	876	c.650C>A	c.(649-651)CCT>CAT	p.P217H	FAM124B_uc002vnw.2_Missense_Mutation_p.P217H	NM_001122779	NP_001116251	Q9H5Z6	F124B_HUMAN	hypothetical protein LOC79843 isoform a	217							protein binding			ovary(2)	2		Renal(207;0.0112)|all_lung(227;0.0126)|Lung NSC(271;0.0161)|all_hematologic(139;0.138)		Epithelial(121;4.4e-10)|all cancers(144;2.02e-07)|Lung(261;0.00766)|LUSC - Lung squamous cell carcinoma(224;0.00825)		GGGTAGCAGAGGCACTAACTG	0.532000													6	67					8.12818e-05	8.61167e-05	0.001984	1	0	
TRIP12	9320	broad.mit.edu	37	2	230723553	230723553	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:230723553A>G	uc002vpw.1	-	3	945	c.836T>C	c.(835-837)CTT>CCT	p.L279P	TRIP12_uc002vpx.1_Missense_Mutation_p.L321P|TRIP12_uc002vpy.1_Intron|TRIP12_uc010zlz.1_RNA|TRIP12_uc010fxh.1_Missense_Mutation_p.L279P	NM_004238	NP_004229	Q14669	TRIPC_HUMAN	thyroid hormone receptor interactor 12	279					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	proteasome complex	thyroid hormone receptor binding|ubiquitin-protein ligase activity			ovary(4)|lung(2)|breast(1)|central_nervous_system(1)|skin(1)	9		Renal(207;0.025)|all_hematologic(139;0.122)|all_lung(227;0.126)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;4.76e-13)|all cancers(144;4.34e-10)|LUSC - Lung squamous cell carcinoma(224;0.00864)|Lung(119;0.0116)		AGACCCTGGAAGAGACAGTTT	0.388000													8	70					0	0	0.004482	0	0	
ALPI	248	broad.mit.edu	37	2	233322527	233322527	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:233322527G>A	uc002vst.3	+	7	883	c.806G>A	c.(805-807)CGC>CAC	p.R269H	ALPI_uc002vsu.3_Missense_Mutation_p.R180H	NM_001631	NP_001622	P09923	PPBI_HUMAN	intestinal alkaline phosphatase precursor	269					phosphorylation	anchored to membrane|integral to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding|protein binding			central_nervous_system(1)	1		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;1.64e-16)|Kidney(3;9.71e-08)|KIRC - Kidney renal clear cell carcinoma(3;2.74e-06)|BRCA - Breast invasive adenocarcinoma(100;0.000763)|Lung(119;0.00564)|LUSC - Lung squamous cell carcinoma(224;0.00746)		GTGTGGAACCGCACTGAGCTC	0.627000													17	143					0	0	0.007413	0	0	
HJURP	55355	broad.mit.edu	37	2	234749594	234749594	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:234749594T>C	uc002vvg.2	-	8	1898	c.1832A>G	c.(1831-1833)AAA>AGA	p.K611R	HJURP_uc010znd.1_Missense_Mutation_p.K550R|HJURP_uc010zne.1_Missense_Mutation_p.K519R	NM_018410	NP_060880	Q8NCD3	HJURP_HUMAN	Holliday junction recognition protein	611					cell cycle|CenH3-containing nucleosome assembly at centromere|centromeric core chromatin assembly|chromosome segregation|regulation of DNA binding|regulation of protein complex assembly	condensed chromosome kinetochore|cytoplasm|nucleolus|nucleoplasm	DNA binding|histone binding			ovary(1)	1		Breast(86;0.00204)|all_lung(227;0.00433)|Renal(207;0.00685)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0326)|Lung NSC(271;0.0719)|Lung SC(224;0.128)		Epithelial(121;2.01e-18)|BRCA - Breast invasive adenocarcinoma(100;0.000186)|Lung(119;0.00521)|LUSC - Lung squamous cell carcinoma(224;0.00829)		CATACTTGCTTTATCTGTAGA	0.403000													46	83					0	0	0.014410	0	0	
GBX2	2637	broad.mit.edu	37	2	237076276	237076276	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:237076276G>A	uc002vvw.1	-	1	377	c.339C>T	c.(337-339)TCC>TCT	p.S113S	GBX2_uc010zng.1_Silent_p.S103S	NM_001485	NP_001476	P52951	GBX2_HUMAN	gastrulation brain homeo box 2	113				LPPAHPHHQIPSLPTGFCSSLAQGMALTSTLMATLPGGFSA SPQHQEAAAARKFAPQPLPGGGNFDKAEALQADAEDGKGFL AKEGSLLAFSAAETVQASLVGAVRGQGKDESKVEDDPKG -> CRPHTLTTRSPACPQASAPAWRRAWRSPLRSWPRSPAA SPRRPSTRRRQRPASSRRSRCPAAVTSTRRRRCRLTRRTAK ASWPKRARCSPSPRPRRCRLRSSGLSEGKGKTSQRWKTTRS (in Ref. 1; AAC03241).		nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		Breast(86;0.00235)|Renal(207;0.00339)|all_hematologic(139;0.00357)|all_lung(227;0.0616)|Acute lymphoblastic leukemia(138;0.0775)|Ovarian(221;0.089)|Lung NSC(271;0.179)		Epithelial(121;4.5e-25)|OV - Ovarian serous cystadenocarcinoma(60;5.16e-11)|BRCA - Breast invasive adenocarcinoma(100;3.4e-05)|Lung(119;0.00195)|LUSC - Lung squamous cell carcinoma(224;0.00471)		GGGGCGACGCGGAGAAGCCGC	0.726000													18	35					0	0	0.008871	0	0	
COPS8	10920	broad.mit.edu	37	2	238002750	238002750	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:238002750G>A	uc002vwh.2	+	5	873	c.349G>A	c.(349-351)GCC>ACC	p.A117T	COPS8_uc010fys.1_RNA|COPS8_uc002vwg.2_Missense_Mutation_p.A68T|COPS8_uc002vwi.2_Missense_Mutation_p.A117T	NM_006710	NP_006701	Q99627	CSN8_HUMAN	COP9 signalosome subunit 8 isoform 1	117	PCI.				cullin deneddylation	cytoplasm|signalosome				ovary(1)	1		Breast(86;0.000162)|Renal(207;0.00339)|all_hematologic(139;0.0123)|Ovarian(221;0.0694)|Acute lymphoblastic leukemia(138;0.0775)|all_lung(227;0.169)|all_neural(83;0.211)		Epithelial(121;7.41e-23)|OV - Ovarian serous cystadenocarcinoma(60;5.42e-11)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;5.98e-08)|BRCA - Breast invasive adenocarcinoma(100;0.000175)|Lung(119;0.011)|LUSC - Lung squamous cell carcinoma(224;0.0258)		AAGGAGACGCGCCTTTGCCCT	0.478000													16	158					0	0	0.004990	0	0	
MLPH	79083	broad.mit.edu	37	2	238419298	238419298	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:238419298C>T	uc002vwt.2	+	3	419	c.192C>T	c.(190-192)TGC>TGT	p.C64C	MLPH_uc002vws.2_Silent_p.C64C|MLPH_uc010fyt.1_Silent_p.C64C|MLPH_uc002vwu.2_Silent_p.C64C|MLPH_uc002vwv.2_Silent_p.C64C|MLPH_uc002vww.2_Silent_p.C40C	NM_024101	NP_077006	Q9BV36	MELPH_HUMAN	melanophilin isoform 1	64	FYVE-type.|RabBD.						metal ion binding			ovary(1)	1		Breast(86;0.000381)|Renal(207;0.000966)|Ovarian(221;0.0695)|all_hematologic(139;0.095)|all_lung(227;0.17)|Melanoma(123;0.203)		Epithelial(121;1.17e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.02e-10)|Kidney(56;4.23e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.15e-07)|BRCA - Breast invasive adenocarcinoma(100;0.000439)|Lung(119;0.0132)|LUSC - Lung squamous cell carcinoma(224;0.0316)		AGACCCACTGCGCCCGCTGCC	0.562000													27	37					0	0	0.004656	0	0	
OR6B2	389090	broad.mit.edu	37	2	240969039	240969039	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:240969039A>G	uc002vyr.2	-	2	854	c.808T>C	c.(808-810)TCC>CCC	p.S270P	OR6B2_uc010zoc.1_Missense_Mutation_p.S270P	NM_001005853	NP_001005853	Q6IFH4	OR6B2_HUMAN	olfactory receptor, family 6, subfamily B,	270	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		all_epithelial(40;1.64e-11)|Breast(86;0.000327)|Renal(207;0.00571)|Ovarian(221;0.104)|all_hematologic(139;0.182)|all_lung(227;0.229)|Melanoma(123;0.238)		Epithelial(121;3.4e-29)|all cancers(36;2.08e-27)|OV - Ovarian serous cystadenocarcinoma(60;4.63e-14)|Kidney(56;2.99e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.56e-05)|Lung(119;0.00344)|LUSC - Lung squamous cell carcinoma(224;0.0148)		AGCTTGTTGGAGCTCTGGGAA	0.488000													15	116					0	0	0.003163	0	0	
TBC1D20	128637	broad.mit.edu	37	20	419299	419299	+	Silent	SNP	C	T	T	rs141648576		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr20:419299C>T	uc002wds.2	-	8	1281	c.1143G>A	c.(1141-1143)GCG>GCA	p.A381A	TBC1D20_uc002wdv.2_Silent_p.A204A|TBC1D20_uc002wdt.2_RNA|TBC1D20_uc002wdu.2_RNA	NM_144628	NP_653229	Q96BZ9	TBC20_HUMAN	TBC1 domain family, member 20	381	Helical; (Potential).				interspecies interaction between organisms	integral to membrane|intracellular	Rab GTPase activator activity			central_nervous_system(1)	1		all_epithelial(17;0.228)|Breast(17;0.231)				CCAGTGCAGCCGCTCCAAGTG	0.532000													20	166					0	0	0.008871	0	0	
ZNF343	79175	broad.mit.edu	37	20	2464827	2464827	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr20:2464827C>T	uc002wge.1	-	6	1268	c.780G>A	c.(778-780)CCG>CCA	p.P260P	ZNF343_uc010gao.1_Silent_p.P260P|ZNF343_uc002wgd.1_Silent_p.P170P	NM_024325	NP_077301	Q6P1L6	ZN343_HUMAN	zinc finger protein 343	260					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						AGAGGGTCCTCGGGTTTGTAA	0.433000													28	69					0	0	0.005443	0	0	
C20orf27	54976	broad.mit.edu	37	20	3735049	3735049	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr20:3735049A>G	uc002wji.1	-	5	648	c.419T>C	c.(418-420)GTC>GCC	p.V140A	C20orf27_uc002wjf.1_3'UTR|C20orf27_uc002wjh.1_Missense_Mutation_p.V165A	NM_001039140	NP_001034229	Q9GZN8	CT027_HUMAN	hypothetical protein LOC54976	140											0						CTCACCCATGACGCGGGCCTG	0.612000													5	126					0	0	0.001168	0	0	
FERMT1	55612	broad.mit.edu	37	20	6088264	6088264	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr20:6088264C>T	uc002wmr.2	-	6	1553	c.764G>A	c.(763-765)CGC>CAC	p.R255H	FERMT1_uc010gbt.2_5'UTR|FERMT1_uc002wms.2_Missense_Mutation_p.R255H|FERMT1_uc002wmt.2_5'UTR	NM_017671	NP_060141	Q9BQL6	FERM1_HUMAN	kindlin-1	255	FERM.				cell adhesion|establishment of epithelial cell polarity|keratinocyte migration|keratinocyte proliferation	cytosol|focal adhesion|ruffle membrane	binding			ovary(1)|pancreas(1)|skin(1)	3						CATAAGGGAGCGTGAGGAGTC	0.338000													9	15					0	0	0.008291	0	0	
CST2	1470	broad.mit.edu	37	20	23807170	23807170	+	Missense_Mutation	SNP	C	T	T	rs148004300	byFrequency	TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr20:23807170C>T	uc002wtq.1	-	1	143	c.128G>A	c.(127-129)CGG>CAG	p.R43Q		NM_001322	NP_001313	P09228	CYTT_HUMAN	cystatin SA precursor	43						extracellular region	cysteine-type endopeptidase inhibitor activity				0						ACGCTGTACCCGCTCATCATT	0.592000													4	45					0	0	0.009096	0	0	
DEFB116	245930	broad.mit.edu	37	20	29891233	29891233	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr20:29891233C>T	uc010ztm.1	-	2	91	c.91G>A	c.(91-93)GGC>AGC	p.G31S		NM_001037731	NP_001032820	Q30KQ4	DB116_HUMAN	beta-defensin 116 precursor	31					defense response to bacterium	extracellular region					0	all_hematologic(12;0.158)		Colorectal(19;0.00254)|COAD - Colon adenocarcinoma(19;0.0347)			CGGCTCTTGCCATTGTGGGAT	0.463000													4	131					0	0	0.009096	0	0	
TM9SF4	9777	broad.mit.edu	37	20	30733169	30733169	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr20:30733169G>A	uc002wxj.2	+	8	1061	c.826G>A	c.(826-828)GTC>ATC	p.V276I	TM9SF4_uc010ztr.1_Missense_Mutation_p.V202I|TM9SF4_uc010zts.1_Missense_Mutation_p.V183I|TM9SF4_uc002wxk.2_Missense_Mutation_p.V259I|TM9SF4_uc010gdz.2_Missense_Mutation_p.V183I	NM_014742	NP_055557	Q92544	TM9S4_HUMAN	transmembrane 9 superfamily protein member 4	276						integral to membrane				central_nervous_system(1)|pancreas(1)	2			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)			CATGAGTGACGTCCAGATCCA	0.527000													26	43					0	0	0.007291	0	0	
CHMP4B	128866	broad.mit.edu	37	20	32439984	32439984	+	Silent	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr20:32439984C>A	uc002xaa.2	+	4	741	c.585C>A	c.(583-585)CCC>CCA	p.P195P		NM_176812	NP_789782	Q9H444	CHM4B_HUMAN	chromatin modifying protein 4B	195					cellular membrane organization|endosome transport|protein transport	cytosol|late endosome membrane	protein binding			ovary(1)|central_nervous_system(1)	2						CAAATGTTCCCTCTATAGCCC	0.488000													15	167					1.49906e-05	1.60065e-05	0.002450	1	0	
AHCY	191	broad.mit.edu	37	20	32883286	32883286	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr20:32883286A>C	uc002xai.2	-	2	273	c.134T>G	c.(133-135)CTG>CGG	p.L45R	AHCY_uc002xaj.2_Missense_Mutation_p.L17R|AHCY_uc010get.2_Missense_Mutation_p.L45R	NM_000687	NP_000678	P23526	SAHH_HUMAN	adenosylhomocysteinase isoform 1	45					methylation|xenobiotic metabolic process	cytosol|melanosome	adenosylhomocysteinase activity|protein binding				0						GGCGCCCTTCAGTGGCTTGGA	0.662000													4	21					0	0	0.009096	0	0	
NCOA6	23054	broad.mit.edu	37	20	33345744	33345744	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr20:33345744C>T	uc002xav.2	-	8	3378	c.807G>A	c.(805-807)CAG>CAA	p.Q269Q	NCOA6_uc002xaw.2_Silent_p.Q269Q|NCOA6_uc010gew.1_Silent_p.Q226Q	NM_014071	NP_054790	Q14686	NCOA6_HUMAN	nuclear receptor coactivator 6	269	TBP/GTF2A-binding region.|NCOA1-binding region.|Gln-rich.|CREBBP-binding region.				brain development|cellular lipid metabolic process|DNA recombination|DNA repair|DNA replication|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|heart development|myeloid cell differentiation|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus|transcription initiation from RNA polymerase II promoter	transcription factor complex	chromatin binding|enzyme binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|retinoid X receptor binding|thyroid hormone receptor binding			ovary(3)|breast(3)|central_nervous_system(1)	7						gctgctgctgctgttgttgtt	0.313000													20	24					0	0	0.007413	0	0	
GSS	2937	broad.mit.edu	37	20	33523414	33523414	+	Missense_Mutation	SNP	G	A	A	rs121909308		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr20:33523414G>A	uc002xbg.2	-	9	879	c.799C>T	c.(799-801)CGG>TGG	p.R267W	GSS_uc010zun.1_Missense_Mutation_p.R139W|GSS_uc010zuo.1_Missense_Mutation_p.R156W|GSS_uc010zup.1_Missense_Mutation_p.R198W|GSS_uc002xbh.2_RNA|GSS_uc010gez.1_5'UTR	NM_000178	NP_000169	P48637	GSHB_HUMAN	glutathione synthetase	267	Substrate binding.		R -> W (in GSS deficiency).		nervous system development|response to oxidative stress|xenobiotic metabolic process	cytosol	ATP binding|glutathione binding|glutathione synthase activity|magnesium ion binding|protein homodimerization activity			ovary(3)	3			BRCA - Breast invasive adenocarcinoma(18;0.035)		Glutathione(DB00143)|Glycine(DB00145)|L-Cysteine(DB00151)	TAGCCATCCCGGAAGTAAACC	0.468000													5	66					0	0	0.000602	0	0	
MYL9	10398	broad.mit.edu	37	20	35176475	35176475	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr20:35176475C>T	uc002xfl.1	+	3	319	c.225C>T	c.(223-225)AGC>AGT	p.S75S	uc002xfk.3_Intron|MYL9_uc002xfm.1_Intron	NM_006097	NP_006088	P24844	MYL9_HUMAN	myosin regulatory light chain 9 isoform a	75					axon guidance|muscle contraction|regulation of muscle contraction	cytosol|muscle myosin complex	calcium ion binding|structural constituent of muscle				0	Breast(12;0.0192)	Myeloproliferative disorder(115;0.00878)				GCATGATGAGCGAGGCCCCGG	0.612000													3	34					0	0	0.004672	0	0	
LPIN3	64900	broad.mit.edu	37	20	39980775	39980775	+	Silent	SNP	T	C	C	rs146167352	byFrequency	TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr20:39980775T>C	uc002xjx.2	+	9	1369	c.1278T>C	c.(1276-1278)CAT>CAC	p.H426H	LPIN3_uc010ggh.2_Silent_p.H427H|LPIN3_uc010zwf.1_RNA	NM_022896	NP_075047	Q9BQK8	LPIN3_HUMAN	lipin 3	426					fatty acid metabolic process	nucleus	phosphatidate phosphatase activity			ovary(3)|central_nervous_system(1)	4		Myeloproliferative disorder(115;0.000739)				ACCCTGAACATGAACCTGAAC	0.567000													40	76					0	0	0.010771	0	0	
SEMG2	6407	broad.mit.edu	37	20	43851236	43851236	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr20:43851236A>C	uc010ggz.2	+	2	1020	c.963A>C	c.(961-963)AAA>AAC	p.K321N	SEMG2_uc002xnk.2_Missense_Mutation_p.K321N|SEMG2_uc002xnl.2_Missense_Mutation_p.K321N	NM_003008	NP_002999	Q02383	SEMG2_HUMAN	semenogelin II precursor	321	Repeat-rich region.|4 X 60 AA tandem repeats, type I.				sexual reproduction	extracellular space|stored secretory granule	structural molecule activity			skin(1)	1		Myeloproliferative disorder(115;0.0122)				CTGAAGAGAAAATACATGGCA	0.378000													4	45					0	0	0.009096	0	0	
MATN4	8785	broad.mit.edu	37	20	43933091	43933091	+	Silent	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr20:43933091A>G	uc002xnn.2	-	3	607	c.420T>C	c.(418-420)CGT>CGC	p.R140R	MATN4_uc002xno.2_Silent_p.R140R|MATN4_uc002xnp.2_Silent_p.R140R|MATN4_uc010zwr.1_Silent_p.R88R|MATN4_uc002xnr.1_Silent_p.R140R|RBPJL_uc002xns.2_5'Flank|RBPJL_uc002xnt.2_5'Flank	NM_003833	NP_003824	O95460	MATN4_HUMAN	matrilin 4 isoform 1 precursor	140	VWFA 1.					extracellular region	protein binding				0		Myeloproliferative disorder(115;0.0122)				TGACAGCGACACGCGGCACGC	0.701000													3	19					0	0	0.004672	0	0	
PLTP	5360	broad.mit.edu	37	20	44533614	44533614	+	Silent	SNP	C	T	T	rs61731059	byFrequency	TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr20:44533614C>T	uc002xqn.1	-	9	929	c.849G>A	c.(847-849)GCG>GCA	p.A283A	PLTP_uc002xql.1_Silent_p.A195A|PLTP_uc002xqm.1_Silent_p.A303A|PLTP_uc002xqo.1_Silent_p.A231A|PLTP_uc002xqp.1_Silent_p.A283A|PLTP_uc002xqq.1_Silent_p.A252A|PLTP_uc010zxj.1_Silent_p.A188A|PLTP_uc010ghj.1_Silent_p.A283A	NM_006227	NP_006218	P55058	PLTP_HUMAN	phospholipid transfer protein isoform a	283					cellular lipid metabolic process|lipid transport	extracellular region	lipid binding			ovary(1)	1		Myeloproliferative disorder(115;0.0122)				GCAGGGCCCCCGCCCGGAAGT	0.597000													6	71					0	0	0.001168	0	0	
SLC9A8	23315	broad.mit.edu	37	20	48503419	48503419	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr20:48503419G>A	uc002xuv.1	+	15	1832	c.1622G>A	c.(1621-1623)CGG>CAG	p.R541Q	SLC9A8_uc010zym.1_Missense_Mutation_p.R241Q|SLC9A8_uc010gid.2_Missense_Mutation_p.R165Q	NM_015266	NP_056081	Q9Y2E8	SL9A8_HUMAN	sodium/hydrogen exchanger 8	541						Golgi membrane|integral to membrane	sodium:hydrogen antiporter activity			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(9;3.91e-07)			TTCTTCACTCGGAGGCTGACG	0.647000													31	59					0	0	0.013726	0	0	
PCK1	5105	broad.mit.edu	37	20	56138681	56138681	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr20:56138681G>A	uc002xyn.3	+	6	1022	c.859G>A	c.(859-861)GCC>ACC	p.A287T	PCK1_uc010zzm.1_Intron	NM_002591	NP_002582	P35558	PCKGC_HUMAN	cytosolic phosphoenolpyruvate carboxykinase 1	287	GTP.				gluconeogenesis|glucose homeostasis|glycerol biosynthetic process from pyruvate|response to insulin stimulus	cytosol|nucleus	carboxylic acid binding|GTP binding|magnesium ion binding|manganese ion binding|phosphoenolpyruvate carboxykinase (GTP) activity			skin(1)	1	Lung NSC(12;0.000764)|all_lung(29;0.00264)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(13;9.88e-12)|Epithelial(14;3.41e-08)|all cancers(14;2.13e-07)			ATTTCCCAGCGCCTGCGGGAA	0.542000													34	63					0	0	0.012213	0	0	
STX16	8675	broad.mit.edu	37	20	57227154	57227154	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr20:57227154A>G	uc002xzi.2	+	1	827	c.92A>G	c.(91-93)CAC>CGC	p.H31R	STX16_uc010zzq.1_5'UTR|STX16_uc002xzk.2_Intron|STX16_uc002xzm.2_Missense_Mutation_p.H31R|STX16_uc002xzj.2_Intron|STX16_uc002xzl.2_Intron	NM_001001433	NP_001001433	O14662	STX16_HUMAN	syntaxin 16 isoform a	31	Cytoplasmic (Potential).				intra-Golgi vesicle-mediated transport|intracellular protein transport|retrograde transport, endosome to Golgi	Golgi membrane|integral to membrane|microsome|SNARE complex	SNAP receptor activity			ovary(1)	1	all_lung(29;0.0175)		BRCA - Breast invasive adenocarcinoma(13;3.73e-09)|Epithelial(14;8.54e-06)|all cancers(14;6.89e-05)			GTGAGTAGTCACATCACCTCC	0.542000													5	52					0	0	0.000602	0	0	
TH1L	51497	broad.mit.edu	37	20	57561169	57561169	+	Nonsense_Mutation	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr20:57561169G>T	uc002yag.2	+	2	136	c.109G>T	c.(109-111)GGA>TGA	p.G37*	TH1L_uc010zzu.1_Nonsense_Mutation_p.G37*|TH1L_uc002yaf.1_RNA|TH1L_uc002yah.2_Nonsense_Mutation_p.G37*	NM_198976	NP_945327	Q8IXH7	NELFD_HUMAN	TH1-like protein	37					negative regulation of transcription, DNA-dependent|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	protein binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3	all_lung(29;0.00711)		Colorectal(105;0.109)			TTCTGGAGAAGGAGAGGATGA	0.373000													6	135					3.59834e-05	3.82557e-05	0.001168	1	0	
PSMA7	5688	broad.mit.edu	37	20	60714232	60714232	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr20:60714232G>A	uc002ybx.1	-	4	485	c.370C>T	c.(370-372)CGC>TGC	p.R124C	PSMA7_uc002yby.1_RNA	NM_002792	NP_002783	O14818	PSA7_HUMAN	proteasome alpha 7 subunit	124					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex, alpha-subunit complex	identical protein binding|threonine-type endopeptidase activity				0	Breast(26;3.97e-09)		BRCA - Breast invasive adenocarcinoma(19;1.28e-07)			AACGGCCTGCGCCCATTGCTC	0.502000													7	62					0	0	0.003080	0	0	
BHLHE23	128408	broad.mit.edu	37	20	61637673	61637673	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr20:61637673G>A	uc002yeb.2	-	1	715	c.406C>T	c.(406-408)CGC>TGC	p.R136C		NM_080606	NP_542173	Q8NDY6	BHE23_HUMAN	basic helix-loop-helix domain containing, class	136	Helix-loop-helix motif.				transcription, DNA-dependent	nucleus	DNA binding				0						GAGAGCTTGCGCACCGACGGG	0.552000													3	45					0	0	0.009096	0	0	
ZGPAT	84619	broad.mit.edu	37	20	62366010	62366010	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr20:62366010C>T	uc002ygk.2	+	5	1063	c.885C>T	c.(883-885)GAC>GAT	p.D295D	ZGPAT_uc002ygi.2_Intron|ZGPAT_uc002ygj.2_Intron|ZGPAT_uc010gkk.1_Intron|ZGPAT_uc010gkl.1_Intron|ZGPAT_uc002ygm.2_Intron|ZGPAT_uc002ygn.3_Intron|LIME1_uc011abi.1_5'Flank|LIME1_uc002ygp.3_5'Flank	NM_032527	NP_115916	Q8N5A5	ZGPAT_HUMAN	zinc finger, CCCH-type with G patch domain	295					negative regulation of epidermal growth factor receptor activity|negative regulation of transcription, DNA-dependent	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_cancers(38;1.13e-12)|all_epithelial(29;2.64e-14)|Lung NSC(23;4.79e-10)|all_lung(23;1.7e-09)					TGGGGTCGGACGCCGTGGACT	0.617000													67	125					0	0	0.014410	0	0	
TPTE	7179	broad.mit.edu	37	21	10942730	10942730	+	Silent	SNP	T	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr21:10942730T>G	uc002yip.1	-	13	1079	c.711A>C	c.(709-711)CTA>CTC	p.L237L	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Silent_p.L219L|TPTE_uc002yir.1_Silent_p.L199L|TPTE_uc010gkv.1_Silent_p.L99L	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	237	Phosphatase tensin-type.				signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		AAGTGAGGTCTAGGTCAAATC	0.328000													20	367					0	0	0.003330	0	0	
POTED	317754	broad.mit.edu	37	21	14982981	14982981	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr21:14982981C>A	uc002yjb.1	+	1	484	c.432C>A	c.(430-432)CAC>CAA	p.H144Q		NM_174981	NP_778146	Q86YR6	POTED_HUMAN	pote protein	144						plasma membrane				ovary(3)|skin(3)	6						ACAAGCTCCACAGAGCTGCCT	0.577000													16	131					1.99824e-07	2.19271e-07	0.004990	1	0	
APP	351	broad.mit.edu	37	21	27328060	27328060	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr21:27328060C>T	uc002ylz.2	-	12	1668	c.1468G>A	c.(1468-1470)GTG>ATG	p.V490M	APP_uc011acg.1_Translation_Start_Site|APP_uc010glk.2_Missense_Mutation_p.V466M|APP_uc002yma.2_Missense_Mutation_p.V471M|APP_uc011ach.1_Missense_Mutation_p.V434M|APP_uc002ymb.2_Missense_Mutation_p.V415M|APP_uc010glj.2_Missense_Mutation_p.V359M|APP_uc011aci.1_Missense_Mutation_p.V380M	NM_000484	NP_000475	P05067	A4_HUMAN	amyloid beta A4 protein isoform a precursor	490	Extracellular (Potential).				adult locomotory behavior|axon cargo transport|axon midline choice point recognition|cell adhesion|cellular copper ion homeostasis|collateral sprouting in absence of injury|dendrite development|endocytosis|extracellular matrix organization|G2 phase of mitotic cell cycle|innate immune response|ionotropic glutamate receptor signaling pathway|mating behavior|mRNA polyadenylation|neuron apoptosis|neuron remodeling|Notch signaling pathway|platelet activation|platelet degranulation|positive regulation of mitotic cell cycle|protein phosphorylation|regulation of epidermal growth factor receptor activity|regulation of multicellular organism growth|regulation of synapse structure and activity|regulation of translation|visual learning	axon|cell surface|coated pit|dendritic shaft|dendritic spine|extracellular region|Golgi apparatus|integral to plasma membrane|platelet alpha granule lumen	acetylcholine receptor binding|DNA binding|heparin binding|identical protein binding|metal ion binding|protein binding|protein binding|PTB domain binding|serine-type endopeptidase inhibitor activity			ovary(1)	1		Breast(209;0.00295)				ATATTGAACACGTGACGAGGC	0.463000													11	58					0	0	0.010729	0	0	
TIAM1	7074	broad.mit.edu	37	21	32595734	32595734	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr21:32595734C>T	uc002yow.1	-	9	2455	c.1983G>A	c.(1981-1983)TCG>TCA	p.S661S	TIAM1_uc011adk.1_Silent_p.S661S|TIAM1_uc011adl.1_Silent_p.S661S|TIAM1_uc002yox.1_Silent_p.S269S	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	661					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						GGGCATGAAACGATGATACCG	0.463000													24	91					0	0	0.003330	0	0	
IFNAR1	3454	broad.mit.edu	37	21	34697376	34697376	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr21:34697376C>A	uc002yrn.2	+	1	163	c.16C>A	c.(16-18)CTG>ATG	p.L6M	IFNAR1_uc011adv.1_Intron	NM_000629	NP_000620	P17181	INAR1_HUMAN	interferon-alpha receptor 1 precursor	6					JAK-STAT cascade|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	integral to plasma membrane	type I interferon receptor activity			central_nervous_system(1)|skin(1)	2					Interferon Alfa-2a, Recombinant(DB00034)|Interferon Alfa-2b, Recombinant(DB00105)|Interferon alfa-n1(DB00011)|Interferon alfa-n3(DB00018)|Interferon alfacon-1(DB00069)|Interferon beta-1b(DB00068)|Peginterferon alfa-2a(DB00008)|Peginterferon alfa-2b(DB00022)	GGTCGTCCTCCTGGGCGCGAC	0.682000													7	23					2.62144e-13	2.98587e-13	0.004482	1	0	
ERG	2078	broad.mit.edu	37	21	39775628	39775628	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr21:39775628G>T	uc010gnw.2	-	6	708	c.413C>A	c.(412-414)CCT>CAT	p.P138H	ERG_uc002yxa.2_Missense_Mutation_p.P131H|ERG_uc011aek.1_Missense_Mutation_p.P39H|ERG_uc010gnv.2_Missense_Mutation_p.P39H|ERG_uc010gnx.2_Missense_Mutation_p.P138H|ERG_uc011ael.1_Missense_Mutation_p.P138H|ERG_uc002yxb.2_Missense_Mutation_p.P138H|ERG_uc011aem.1_Intron|ERG_uc002yxc.3_Missense_Mutation_p.P138H|ERG_uc010gny.1_RNA	NM_001136155	NP_001129627	P11308	ERG_HUMAN	ets-related isoform 4	138	PNT.				cell proliferation|multicellular organismal development|protein phosphorylation	cytoplasm|nucleus|ribonucleoprotein complex	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity		TMPRSS2/ERG(2499)|FUS/ERG(163)|EWSR1/ERG(162)	prostate(2499)|bone(167)|haematopoietic_and_lymphoid_tissue(153)|soft_tissue(5)|lung(2)|skin(1)|ovary(1)	2828		Prostate(19;3.6e-06)				CCATAGCGTAGGATCTGAAAG	0.512000													3	41					0.00024832	0.000262187	0.009096	1	0	
UMODL1	89766	broad.mit.edu	37	21	43496242	43496242	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr21:43496242C>T	uc002zaf.1	+	2	205	c.205C>T	c.(205-207)CGG>TGG	p.R69W	UMODL1_uc002zad.1_5'UTR|UMODL1_uc002zae.1_5'UTR|UMODL1_uc002zag.1_Missense_Mutation_p.R69W|uc002zah.1_RNA	NM_001004416	NP_001004416	Q5DID0	UROL1_HUMAN	uromodulin-like 1 isoform 1 precursor	69	Extracellular (Potential).|EMI.					cytoplasm|extracellular region|integral to membrane|plasma membrane	calcium ion binding|peptidase inhibitor activity			ovary(2)|skin(1)	3						CCCCTGGAGGCGGTGCCCTAA	0.607000													13	74					0	0	0.001855	0	0	
UMODL1	89766	broad.mit.edu	37	21	43529775	43529775	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr21:43529775C>T	uc002zaf.1	+	10	1623	c.1623C>T	c.(1621-1623)GAC>GAT	p.D541D	UMODL1_uc002zad.1_Silent_p.D469D|UMODL1_uc002zae.1_Silent_p.D469D|UMODL1_uc002zag.1_Silent_p.D541D|C21orf128_uc002zak.2_5'Flank	NM_001004416	NP_001004416	Q5DID0	UROL1_HUMAN	uromodulin-like 1 isoform 1 precursor	541	EGF-like 2; calcium-binding (Potential).|Extracellular (Potential).					cytoplasm|extracellular region|integral to membrane|plasma membrane	calcium ion binding|peptidase inhibitor activity			ovary(2)|skin(1)	3						CCACCAGGGACGCCACCCCCT	0.687000													15	76					0	0	0.004007	0	0	
C21orf58	54058	broad.mit.edu	37	21	47722461	47722461	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr21:47722461C>T	uc002zjf.2	-	8	1885	c.751G>A	c.(751-753)GCA>ACA	p.A251T	C21orf58_uc002ziz.2_Missense_Mutation_p.A168T|C21orf58_uc002zja.2_Missense_Mutation_p.A145T|C21orf58_uc011afw.1_Missense_Mutation_p.A168T|C21orf58_uc002zjc.2_Missense_Mutation_p.A145T|C21orf58_uc011afx.1_Missense_Mutation_p.A145T|C21orf58_uc010gqj.1_RNA	NM_058180	NP_478060	P58505	CU058_HUMAN	hypothetical protein LOC54058	251										pancreas(1)	1	Breast(49;0.112)			Colorectal(79;0.239)		TGCACCTGTGCGTTCTGCAGC	0.547000													3	22					0	0	0.004672	0	0	
BID	637	broad.mit.edu	37	22	18220977	18220977	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr22:18220977C>T	uc002znd.1	-	5	552	c.382G>A	c.(382-384)GCC>ACC	p.A128T	BID_uc002znc.1_Missense_Mutation_p.A174T|BID_uc002zne.1_Missense_Mutation_p.A32T|BID_uc010gra.1_RNA|BID_uc002znf.1_Missense_Mutation_p.A32T|BID_uc010grb.1_Missense_Mutation_p.A128T|BID_uc010grc.1_Missense_Mutation_p.A32T	NM_001196	NP_001187	P55957	BID_HUMAN	BH3 interacting domain death agonist isoform 2	128					activation of pro-apoptotic gene products|establishment of protein localization in membrane|induction of apoptosis by intracellular signals|induction of apoptosis via death domain receptors|neuron apoptosis|positive regulation of protein homooligomerization|positive regulation of release of cytochrome c from mitochondria|release of cytochrome c from mitochondria	cytosol|membrane fraction|mitochondrial outer membrane	death receptor binding				0		all_epithelial(15;0.198)		Lung(27;0.0419)		AGGGCAGTGGCCAGGTCCCTG	0.577000													16	57					0	0	0.004007	0	0	
HIRA	7290	broad.mit.edu	37	22	19398267	19398267	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr22:19398267G>A	uc002zpf.1	-	2	292	c.72C>T	c.(70-72)GAC>GAT	p.D24D	HIRA_uc011agx.1_Translation_Start_Site|HIRA_uc010grn.1_Silent_p.D24D|HIRA_uc010gro.1_Translation_Start_Site|HIRA_uc010grp.2_RNA	NM_003325	NP_003316	P54198	HIRA_HUMAN	HIR histone cell cycle regulation defective	24	WD 1.				chromatin modification|regulation of transcription from RNA polymerase II promoter	PML body	chromatin binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1	Colorectal(54;0.0993)					ACTTGGTCCCGTCAGGGTGAA	0.398000													66	199					0	0	0.014410	0	0	
C22orf25	128989	broad.mit.edu	37	22	20050943	20050943	+	Missense_Mutation	SNP	C	T	T	rs140525489		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr22:20050943C>T	uc010grw.1	+	9	1025	c.688C>T	c.(688-690)CGC>TGC	p.R230C	C22orf25_uc002zrb.1_Missense_Mutation_p.R168C|C22orf25_uc002zrc.1_Missense_Mutation_p.R230C|C22orf25_uc002zrd.1_Missense_Mutation_p.R196C|C22orf25_uc011ahe.1_RNA|C22orf25_uc011ahf.1_3'UTR|C22orf25_uc011ahg.1_Intron|C22orf25_uc002zrg.2_Missense_Mutation_p.R271C|C22orf25_uc011ahh.1_Missense_Mutation_p.A229V|C22orf25_uc002zrf.2_Missense_Mutation_p.R168C|C22orf25_uc011ahi.1_Missense_Mutation_p.R132C|C22orf25_uc010gry.1_RNA|C22orf25_uc002zrh.1_Missense_Mutation_p.R132C	NM_152906	NP_690870	Q6ICL3	CV025_HUMAN	hypothetical protein LOC128989	230											0	Colorectal(54;0.0533)					TGTGTGCGTGCGCTGCCCTGG	0.652000													8	30					0	0	0.004482	0	0	
ZNF74	7625	broad.mit.edu	37	22	20749701	20749701	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr22:20749701G>A	uc010gsm.2	+	3	325	c.113G>A	c.(112-114)AGG>AAG	p.R38K	ZNF74_uc002zsg.2_5'UTR|ZNF74_uc002zsh.2_Missense_Mutation_p.R38K|ZNF74_uc002zsi.2_Intron|ZNF74_uc010gsn.2_5'UTR	NM_003426	NP_003417	Q16587	ZNF74_HUMAN	zinc finger protein 74	38					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	actin cytoskeleton|nucleus	DNA binding|RNA binding|zinc ion binding			ovary(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.0025)|Colorectal(54;0.0221)|all_neural(72;0.219)	Lung SC(17;0.0262)|all_lung(157;0.248)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)			CCCGAAGCCAGGTCCAAGGTG	0.537000													20	81					0	0	0.008871	0	0	
DERL3	91319	broad.mit.edu	37	22	24180574	24180574	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr22:24180574C>T	uc002zyh.2	-	4	317	c.292G>A	c.(292-294)GTC>ATC	p.V98I	DERL3_uc002zyk.3_Missense_Mutation_p.V98I|DERL3_uc002zyi.2_Missense_Mutation_p.V98I|DERL3_uc002zyj.2_Missense_Mutation_p.V24I	NM_001002862	NP_001002862	Q96Q80	DERL3_HUMAN	derlin 3 isoform 2	98	Cytoplasmic (Potential).				endoplasmic reticulum unfolded protein response|ER-associated protein catabolic process	integral to endoplasmic reticulum membrane	protein binding			ovary(1)	1						AACATGAAGACGAAGTCGGCC	0.652000													4	14					0	0	0.001168	0	0	
MIF	4282	broad.mit.edu	37	22	24236713	24236713	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr22:24236713G>T	uc002zyr.1	+	1	149	c.52G>T	c.(52-54)GGG>TGG	p.G18W	MIF_uc011aje.1_Missense_Mutation_p.G18W|uc002zys.1_3'UTR	NM_002415	NP_002406	P14174	MIF_HUMAN	macrophage migration inhibitory factor	18					cell proliferation|cell surface receptor linked signaling pathway|inflammatory response|innate immune response|negative regulation of apoptosis|negative regulation of cell aging|negative regulation of cell cycle arrest|negative regulation of DNA damage response, signal transduction by p53 class mediator|negative regulation of gene expression|positive regulation of B cell proliferation|positive regulation of cytokine secretion|positive regulation of ERK1 and ERK2 cascade|positive regulation of fibroblast proliferation|positive regulation of peptidyl-serine phosphorylation|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of protein kinase A signaling cascade|prostaglandin biosynthetic process|protein homotrimerization|regulation of macrophage activation	cell surface|cytoplasm|extracellular space	cell surface binding|chemoattractant activity|cytokine activity|cytokine receptor binding|dopachrome isomerase activity|phenylpyruvate tautomerase activity				0						CGTGCCGGACGGGTTCCTCTC	0.692000													6	58					3.59834e-05	3.82557e-05	0.001168	1	0	
CABIN1	23523	broad.mit.edu	37	22	24530289	24530289	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr22:24530289C>T	uc002zzi.1	+	29	4780	c.4653C>T	c.(4651-4653)GAC>GAT	p.D1551D	CABIN1_uc002zzj.1_Silent_p.D1472D|CABIN1_uc002zzl.1_Silent_p.D1551D	NM_012295	NP_036427	Q9Y6J0	CABIN_HUMAN	calcineurin binding protein 1	1551					cell surface receptor linked signaling pathway|chromatin modification	nucleus	protein phosphatase inhibitor activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						GGGCCCGCGACGTGTTGCTAG	0.587000													7	25					0	0	0.001984	0	0	
CRYBB3	1417	broad.mit.edu	37	22	25598726	25598726	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr22:25598726A>C	uc003abo.1	+	3	233	c.161A>C	c.(160-162)GAG>GCG	p.E54A		NM_004076	NP_004067	P26998	CRBB3_HUMAN	crystallin, beta B3	54	Beta/gamma crystallin 'Greek key' 1.				visual perception		protein binding|structural constituent of eye lens				0						AGCCTGCTGGAGAAGGTGGGC	0.537000											OREG0026423	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	54					0	0	0.002450	0	0	
EWSR1	2130	broad.mit.edu	37	22	29668385	29668385	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr22:29668385G>A	uc003aet.2	+	3	395	c.67G>A	c.(67-69)GCC>ACC	p.A23T	EWSR1_uc003aes.3_Missense_Mutation_p.A23T|EWSR1_uc003aev.2_Missense_Mutation_p.A23T|EWSR1_uc003aew.2_Missense_Mutation_p.A23T|EWSR1_uc003aex.2_Missense_Mutation_p.A23T	NM_005243	NP_005234	Q01844	EWS_HUMAN	Ewing sarcoma breakpoint region 1 isoform 2	23	EAD (Gln/Pro/Thr-rich).|2.|31 X approximate tandem repeats.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	calmodulin binding|nucleotide binding|RNA binding|zinc ion binding		EWSR1/FLI1(2266)|EWSR1/ATF1(323)|EWSR1/WT1(231)|EWSR1/ERG(162)|EWSR1/NR4A3(140)|EWSR1/DDIT3(43)|EWSR1/CREB1(42)|EWSR1/FEV(10)|EWSR1/POU5F1(10)|EWSR1/ETV1(7)|EWSR1/ETV4(6)|EWSR1/ZNF384(4)|EWSR1/PBX1(3)|EWSR1/SP3(3)|EWSR1/PATZ1(2)	bone(2526)|soft_tissue(702)|skin(8)|autonomic_ganglia(4)|haematopoietic_and_lymphoid_tissue(4)|salivary_gland(2)|central_nervous_system(2)|NS(2)|pancreas(2)|lung(1)|ovary(1)	3254						TGCTTACACCGCCCAGCCCAC	0.368000			T	FLI1|ERG|ZNF278|NR4A3|FEV|ATF1|ETV1|ETV4|WT1|ZNF384|CREB1|POU5F1| PBX1	Ewing sarcoma| desmoplastic small round cell tumor |ALL|clear cell sarcoma|sarcoma|myoepithelioma								21	54					0	0	0.012319	0	0	
DRG1	4733	broad.mit.edu	37	22	31823111	31823111	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr22:31823111C>T	uc003aku.2	+	8	1078	c.947C>T	c.(946-948)ACC>ATC	p.T316I		NM_004147	NP_004138	Q9Y295	DRG1_HUMAN	developmentally regulated GTP binding protein 1	316					multicellular organismal development|transcription, DNA-dependent	cytoplasm|intermediate filament cytoskeleton|nucleus	GTP binding|transcription factor binding			central_nervous_system(1)	1						TACTCCAGGACCACAGTGGAG	0.418000													5	104					0	0	0.001168	0	0	
EIF4ENIF1	56478	broad.mit.edu	37	22	31859034	31859034	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr22:31859034G>A	uc003akz.1	-	6	835	c.671C>T	c.(670-672)GCT>GTT	p.A224V	EIF4ENIF1_uc003ala.1_Missense_Mutation_p.A224V|EIF4ENIF1_uc003alb.1_Intron	NM_019843	NP_062817	Q9NRA8	4ET_HUMAN	eukaryotic translation initiation factor 4E	224						nucleus	protein binding|protein transporter activity			ovary(1)	1						TGTGGGTCCAGCAGAGAACCA	0.428000													6	46					0	0	0.001168	0	0	
PISD	23761	broad.mit.edu	37	22	32015676	32015676	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr22:32015676G>A	uc003alm.3	-	8	1159	c.1152C>T	c.(1150-1152)TTC>TTT	p.F384F	PISD_uc003alk.2_Silent_p.F350F|PISD_uc003all.2_3'UTR|PISD_uc011alr.1_Silent_p.F349F|PISD_uc003aln.3_Silent_p.F346F	NM_014338	NP_055153	Q9UG56	PISD_HUMAN	phosphatidylserine decarboxylase	384					phospholipid biosynthetic process	mitochondrion	phosphatidylserine decarboxylase activity			central_nervous_system(2)|ovary(1)	3					Phosphatidylserine(DB00144)	TGGGGGCCTCGAAGATGAGCA	0.557000													10	50					0	0	0.010729	0	0	
LARGE	9215	broad.mit.edu	37	22	33670462	33670462	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr22:33670462C>T	uc003and.3	-	16	2801	c.2222G>A	c.(2221-2223)CGC>CAC	p.R741H	LARGE_uc011amd.1_Missense_Mutation_p.R540H|LARGE_uc003ane.3_Missense_Mutation_p.R741H|LARGE_uc010gwp.2_Missense_Mutation_p.R689H|LARGE_uc011ame.1_Missense_Mutation_p.R673H|LARGE_uc011amf.1_Missense_Mutation_p.R692H	NM_004737	NP_004728	O95461	LARGE_HUMAN	like-glycosyltransferase	741	Lumenal (Potential).				glycosphingolipid biosynthetic process|muscle cell homeostasis|N-acetylglucosamine metabolic process|protein glycosylation	integral to Golgi membrane	acetylglucosaminyltransferase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(1;0.219)				AAAGCCGTAGCGGCGGGACAT	0.537000											OREG0026497	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	27	117					0	0	0.005524	0	0	
TMPRSS6	164656	broad.mit.edu	37	22	37480395	37480395	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr22:37480395A>G	uc003aqs.1	-	10	1277	c.1163T>C	c.(1162-1164)CTG>CCG	p.L388P	TMPRSS6_uc003aqt.1_Missense_Mutation_p.L379P|TMPRSS6_uc003aqu.2_Missense_Mutation_p.L379P	NM_153609	NP_705837	Q8IU80	TMPS6_HUMAN	transmembrane protease, serine 6	388	CUB 2.|Extracellular (Potential).				angiogenesis|extracellular matrix organization|fibrinolysis|intracellular signal transduction|proteolysis	integral to membrane|intracellular|plasma membrane	serine-type endopeptidase activity			breast(4)|ovary(1)|skin(1)	6						CTGCCTCCTCAGTGCATAGGC	0.512000													4	18					0	0	0.000602	0	0	
DDX17	10521	broad.mit.edu	37	22	38894492	38894492	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr22:38894492G>A	uc003avy.3	-	4	728	c.625C>T	c.(625-627)CGG>TGG	p.R209W	DDX17_uc003avx.3_Missense_Mutation_p.R209W|DDX17_uc011anu.1_Missense_Mutation_p.R122W	NM_001098504	NP_001091974	Q92841	DDX17_HUMAN	DEAD box polypeptide 17 isoform 3	130	Helicase ATP-binding.				RNA processing	nucleus	ATP binding|ATP-dependent helicase activity|RNA binding|RNA helicase activity|RNA-dependent ATPase activity			skin(3)|upper_aerodigestive_tract(1)	4	Melanoma(58;0.0286)					ACCATATCCCGGCCACTAAGA	0.438000													4	80					0	0	0.000602	0	0	
PDGFB	5155	broad.mit.edu	37	22	39621767	39621767	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr22:39621767C>T	uc003axf.2	-	6	1676	c.687G>A	c.(685-687)ACG>ACA	p.T229T	PDGFB_uc003axe.2_Silent_p.T214T	NM_002608	NP_002599	P01127	PDGFB_HUMAN	platelet-derived growth factor beta isoform 1	229					activation of protein kinase B activity|cellular response to mycophenolic acid|embryonic placenta development|heart development|hemopoiesis|metanephric glomerular mesangial cell development|monocyte chemotaxis|negative regulation of phosphatidylinositol biosynthetic process|negative regulation of platelet activation|negative regulation of transcription, DNA-dependent|paracrine signaling|peptidyl-serine phosphorylation|peptidyl-tyrosine phosphorylation|platelet activation|platelet degranulation|positive regulation of blood vessel endothelial cell migration|positive regulation of calcium ion import|positive regulation of cell division|positive regulation of chemotaxis|positive regulation of cyclin-dependent protein kinase activity|positive regulation of DNA biosynthetic process|positive regulation of DNA replication|positive regulation of endothelial cell proliferation|positive regulation of ERK1 and ERK2 cascade|positive regulation of fibroblast proliferation|positive regulation of glomerular filtration|positive regulation of glomerular mesangial cell proliferation|positive regulation of MAP kinase activity|positive regulation of metanephric mesenchymal cell migration by platelet-derived growth factor receptor-beta signaling pathway|positive regulation of mitosis|positive regulation of phosphatidylinositol 3-kinase activity|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein autophosphorylation|positive regulation of protein tyrosine kinase activity|positive regulation of reactive oxygen species metabolic process|positive regulation of smooth muscle cell migration|positive regulation of smooth muscle cell proliferation|positive regulation of transcription, DNA-dependent|reactive oxygen species metabolic process|transforming growth factor beta receptor signaling pathway	basolateral plasma membrane|cell surface|endoplasmic reticulum lumen|extracellular region|Golgi membrane|platelet alpha granule lumen	collagen binding|eukaryotic cell surface binding|growth factor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein heterodimerization activity|protein homodimerization activity|superoxide-generating NADPH oxidase activator activity		COL1A1/PDGFB(372)	soft_tissue(372)|central_nervous_system(1)	373	Melanoma(58;0.04)				Becaplermin(DB00102)	TCTTGTCATGCGTGTGCTTGA	0.622000			T	COL1A1	DFSP								7	42					0	0	0.001984	0	0	
MGAT3	4248	broad.mit.edu	37	22	39884484	39884484	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr22:39884484G>A	uc003axv.3	+	2	1371	c.1132G>A	c.(1132-1134)GGC>AGC	p.G378S	MGAT3_uc010gxy.2_Missense_Mutation_p.G378S	NM_002409	NP_002400	Q09327	MGAT3_HUMAN	mannosyl (beta-1,4-)-glycoprotein	378	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	beta-1,4-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity				0	Melanoma(58;0.04)					TGGGCTGGACGGCATCCGCCT	0.647000													20	77					0	0	0.014323	0	0	
EP300	2033	broad.mit.edu	37	22	41556645	41556645	+	Splice_Site	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr22:41556645G>T	uc003azl.3	+	20	3986	c.3591_splice	c.e20-1	p.R1197_splice		NM_001429	NP_001420	Q09472	EP300_HUMAN	E1A binding protein p300						apoptosis|cell cycle|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|histone H4 acetylation|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of androgen receptor signaling pathway|response to estrogen stimulus|response to hypoxia	centrosome|histone acetyltransferase complex	androgen receptor binding|beta-catenin binding|DNA binding|histone acetyltransferase activity|RNA polymerase II activating transcription factor binding|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(22)|large_intestine(13)|breast(9)|central_nervous_system(5)|upper_aerodigestive_tract(4)|pancreas(4)|lung(3)|ovary(2)|stomach(1)|skin(1)	64						CTTGCCGACAGGTATCATTTC	0.507000			T| N|F|Mis|O	MLL|RUNXBP2	colorectal|breast|pancreatic|AML|ALL|DLBCL				Rubinstein-Taybi_syndrome				10	66					1.58986e-06	1.72457e-06	0.008291	1	0	
SAMM50	25813	broad.mit.edu	37	22	44379812	44379812	+	Splice_Site	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr22:44379812G>T	uc003bej.2	+	12	1205	c.1008_splice	c.e12-1	p.R336_splice	SAMM50_uc011aqd.1_Splice_Site_p.R126_splice|SAMM50_uc003bek.2_Splice_Site_p.R141_splice	NM_015380	NP_056195	Q9Y512	SAM50_HUMAN	sorting and assembly machinery component 50						protein import into mitochondrial outer membrane	integral to membrane|integral to membrane of membrane fraction|mitochondrial sorting and assembly machinery complex	protein binding			skin(1)	1		all_neural(38;0.0966)|Ovarian(80;0.105)|Glioma(61;0.222)				TTTTGTCCTAGGTTTTACCTT	0.537000													9	100					6.40141e-05	6.78804e-05	0.010729	1	0	
UPK3A	7380	broad.mit.edu	37	22	45681923	45681923	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr22:45681923A>G	uc003bfy.2	+	2	160	c.154A>G	c.(154-156)AAA>GAA	p.K52E	UPK3A_uc010gzy.2_Missense_Mutation_p.K52E	NM_006953	NP_008884	O75631	UPK3A_HUMAN	uroplakin 3A precursor	52	Lumenal (Potential).				epithelial cell differentiation	endoplasmic reticulum membrane|integral to membrane					0		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)		GTTTGACAGCAAAGAGGCCCT	0.567000													14	62					0	0	0.002450	0	0	
FBLN1	2192	broad.mit.edu	37	22	45944543	45944543	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr22:45944543T>C	uc003bgj.1	+	13	1639	c.1492T>C	c.(1492-1494)TGC>CGC	p.C498R	FBLN1_uc003bgg.1_Missense_Mutation_p.C498R|FBLN1_uc003bgh.2_Missense_Mutation_p.C498R|FBLN1_uc010gzz.2_Missense_Mutation_p.C536R|FBLN1_uc003bgi.1_Missense_Mutation_p.C498R	NM_006486	NP_006477	P23142	FBLN1_HUMAN	fibulin 1 isoform D	498	EGF-like 8; calcium-binding.				interspecies interaction between organisms	extracellular space|soluble fraction	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(1)|central_nervous_system(1)	2		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)		CTCCTACCGCTGCATCAACAT	0.652000													22	56					0	0	0.012319	0	0	
PANX2	56666	broad.mit.edu	37	22	50617614	50617614	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr22:50617614G>A	uc003bjn.3	+	3	1942	c.1942G>A	c.(1942-1944)GTG>ATG	p.V648M	PANX2_uc003bjp.3_Intron|PANX2_uc003bjo.3_Intron	NM_052839	NP_443071	Q96RD6	PANX2_HUMAN	pannexin 2 isoform 1	648					protein hexamerization|synaptic transmission	gap junction|integral to membrane	gap junction hemi-channel activity|ion channel activity			breast(1)	1		all_cancers(38;1.14e-10)|all_epithelial(38;2.12e-09)|all_lung(38;7.01e-05)|Breast(42;0.000523)|Lung NSC(38;0.0018)|Ovarian(80;0.0365)|Lung SC(80;0.113)		LUAD - Lung adenocarcinoma(64;0.105)		GCCGCAGGACGTGGGGGACCT	0.657000													8	39					0	0	0.006214	0	0	
SRGAP3	9901	broad.mit.edu	37	3	9027355	9027355	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:9027355C>T	uc003brf.1	-	22	3824	c.3148G>A	c.(3148-3150)GCC>ACC	p.A1050T	SRGAP3_uc003brg.1_Missense_Mutation_p.A1026T	NM_014850	NP_055665	O43295	SRGP2_HUMAN	SLIT-ROBO Rho GTPase activating protein 3	1050					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding		SRGAP3/RAF1(4)	central_nervous_system(4)|skin(3)|urinary_tract(1)|breast(1)	9				OV - Ovarian serous cystadenocarcinoma(96;0.0563)		CGGAGCTGGGCGCCAGCCAGG	0.751000			T	RAF1	pilocytic astrocytoma								10	23					0	0	0.004990	0	0	
MTMR14	64419	broad.mit.edu	37	3	9714373	9714373	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:9714373A>G	uc003brz.2	+	7	806	c.682A>G	c.(682-684)ACC>GCC	p.T228A	MTMR14_uc003bsa.2_Missense_Mutation_p.T228A|MTMR14_uc003bsb.2_Missense_Mutation_p.T228A|MTMR14_uc011ath.1_RNA|MTMR14_uc010hcl.2_Intron|MTMR14_uc003bsc.2_RNA	NM_001077525	NP_001070993	Q8NCE2	MTMRE_HUMAN	jumpy isoform 2	228						perinuclear region of cytoplasm|ruffle	phosphatidylinositol-3-phosphatase activity|protein tyrosine phosphatase activity			skin(1)	1	Medulloblastoma(99;0.227)					TTGTAGTGTAACCTCCTCTGA	0.488000													27	72					0	0	0.006320	0	0	
ZFYVE20	64145	broad.mit.edu	37	3	15116004	15116004	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:15116004C>T	uc003bzm.1	-	14	2254	c.1640G>A	c.(1639-1641)CGG>CAG	p.R547Q	ZFYVE20_uc010hek.1_Missense_Mutation_p.R547Q	NM_022340	NP_071735	Q9H1K0	RBNS5_HUMAN	FYVE-finger-containing Rab5 effector protein	547	Necessary for the interaction with EHD1.				blood coagulation|endosome transport|protein transport	early endosome membrane|plasma membrane	protein binding|zinc ion binding			skin(2)	2						GTCCAGGGACCGAGTCCGTGT	0.582000													8	93					0	0	0.003080	0	0	
RBMS3	27303	broad.mit.edu	37	3	30029683	30029683	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:30029683C>T	uc003cel.2	+	13	1378	c.1148C>T	c.(1147-1149)ACG>ATG	p.T383M	RBMS3_uc003cek.2_Missense_Mutation_p.T367M|RBMS3_uc010hfq.2_Missense_Mutation_p.T380M|RBMS3_uc003cem.2_Missense_Mutation_p.T365M|RBMS3_uc010hfr.2_Missense_Mutation_p.T367M	NM_001003793	NP_001003793	Q6XE24	RBMS3_HUMAN	RNA binding motif, single stranded interacting	383						cytoplasm	nucleotide binding|RNA binding			central_nervous_system(1)	1		Ovarian(412;0.0956)				CCTCAGTACACGCCTGTGCCT	0.433000													22	69					0	0	0.007291	0	0	
EPM2AIP1	9852	broad.mit.edu	37	3	37033859	37033859	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:37033859C>T	uc003cgk.2	-	1	937	c.710G>A	c.(709-711)AGC>AAC	p.S237N	MLH1_uc011aye.1_5'Flank|MLH1_uc003cgl.2_5'Flank|MLH1_uc011ayb.1_5'Flank|MLH1_uc010hge.2_5'Flank|MLH1_uc003cgn.3_5'Flank|MLH1_uc011ayc.1_5'Flank|MLH1_uc011ayd.1_5'Flank|MLH1_uc003cgo.2_5'Flank	NM_014805	NP_055620	Q7L775	EPMIP_HUMAN	EPM2A interacting protein 1	237						endoplasmic reticulum					0						TCTCTGCAAGCTAAGCCCTGC	0.498000													12	166					0	0	0.010729	0	0	
SCN10A	6336	broad.mit.edu	37	3	38793834	38793834	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:38793834C>A	uc003ciq.2	-	11	1631	c.1631G>T	c.(1630-1632)GGC>GTC	p.G544V		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha	544					sensory perception	voltage-gated sodium channel complex				ovary(5)|skin(3)|large_intestine(1)|kidney(1)	10				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dibucaine(DB00527)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)	GCCTTGCTGGCCAGCACCCCC	0.602000													9	93					1.12685e-05	1.20846e-05	0.004482	1	0	
ZNF619	285267	broad.mit.edu	37	3	40529635	40529635	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:40529635A>T	uc011azb.1	+	6	2032	c.1754A>T	c.(1753-1755)AAC>ATC	p.N585I	ZNF619_uc010hhz.2_Missense_Mutation_p.N536I|ZNF619_uc003ckj.2_Missense_Mutation_p.N529I|ZNF619_uc011azc.1_Missense_Mutation_p.N545I|ZNF619_uc011azd.1_Missense_Mutation_p.N501I|ZNF619_uc011aza.1_Missense_Mutation_p.N487I	NM_001145082	NP_001138554	E9PCD9	E9PCD9_HUMAN	zinc finger protein 619 isoform 1	585					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0525)|Kidney(284;0.0661)		GAAAAGGCCAACCCTTCACCT	0.522000													26	131					0	0	0.004656	0	0	
CTNNB1	1499	broad.mit.edu	37	3	41265566	41265566	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:41265566A>G	uc010hia.1	+	3	163	c.7A>G	c.(7-9)ACT>GCT	p.T3A	CTNNB1_uc003ckp.2_Missense_Mutation_p.T3A|CTNNB1_uc003ckq.2_Missense_Mutation_p.T3A|CTNNB1_uc003ckr.2_Missense_Mutation_p.T3A|CTNNB1_uc011azf.1_5'UTR|CTNNB1_uc011azg.1_Missense_Mutation_p.T3A|uc010hib.1_Intron	NM_001904	NP_001895	P35222	CTNB1_HUMAN	beta-catenin	3	Interaction with VCL (By similarity).				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	p.T3_A126del(2)|p.A5_A80del(2)|p.T3S(2)|p.M1_V173del(1)|p.?(1)|p.M1_T42del(1)|p.M1_A87del(1)	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)	GACAATGGCTACTCAAGGTTT	0.393000		15	H|Mis|T	PLAG1	colorectal|cvarian| hepatoblastoma|others|pleomorphic salivary adenoma				Pilomatrixoma_Familial_Clustering_of				24	88					0	0	0.003954	0	0	
VIPR1	7433	broad.mit.edu	37	3	42568962	42568962	+	Silent	SNP	C	T	T	rs149397146	byFrequency	TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:42568962C>T	uc003clf.2	+	5	601	c.477C>T	c.(475-477)GTC>GTT	p.V159V	VIPR1_uc011azl.1_Silent_p.V111V|VIPR1_uc011azm.1_Intron|VIPR1_uc011azn.1_Silent_p.V132V	NM_004624	NP_004615	P32241	VIPR1_HUMAN	vasoactive intestinal peptide receptor 1	159	Helical; Name=1; (Potential).				digestion|G-protein signaling, coupled to cyclic nucleotide second messenger|immune response|muscle contraction|positive regulation of cell proliferation|synaptic transmission	integral to plasma membrane	vasoactive intestinal polypeptide receptor activity			skin(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.241)		CCCTTCTGGTCGCCACAGCTA	0.612000													15	52					0	0	0.003163	0	0	
FYCO1	79443	broad.mit.edu	37	3	46009009	46009009	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:46009009T>C	uc003cpb.3	-	8	2023	c.1817A>G	c.(1816-1818)CAA>CGA	p.Q606R	FYCO1_uc011bal.1_Missense_Mutation_p.Q606R	NM_024513	NP_078789	Q9BQS8	FYCO1_HUMAN	FYVE and coiled-coil domain containing 1	606	Potential.				transport	integral to membrane	metal ion binding|protein binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00147)|KIRC - Kidney renal clear cell carcinoma(197;0.0272)|Kidney(197;0.0323)		GCTGCCCTCTTGCACCTTGGT	0.627000													10	196					0	0	0.008291	0	0	
CCR2	729230	broad.mit.edu	37	3	46399125	46399125	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:46399125A>T	uc003cpn.3	+	2	592	c.107A>T	c.(106-108)GAC>GTC	p.D36V	CCR2_uc003cpm.3_Missense_Mutation_p.D36V	NM_001123041	NP_001116513	P41597	CCR2_HUMAN	chemokine (C-C motif) receptor 2 isoform A	36	Extracellular (Potential).				astrocyte cell migration|blood vessel remodeling|cellular defense response|chemokine-mediated signaling pathway|dendritic cell chemotaxis|elevation of cytosolic calcium ion concentration|immune response|inflammatory response|interspecies interaction between organisms|JAK-STAT cascade|monocyte extravasation|negative regulation of adenylate cyclase activity|negative regulation of angiogenesis|negative regulation of eosinophil degranulation|negative regulation of type 2 immune response|positive regulation of alpha-beta T cell proliferation|positive regulation of immune complex clearance by monocytes and macrophages|positive regulation of inflammatory response|positive regulation of interferon-gamma production|positive regulation of interleukin-2 production|positive regulation of monocyte chemotaxis|positive regulation of T cell chemotaxis|positive regulation of T cell extravasation|positive regulation of T-helper 1 type immune response|positive regulation of tumor necrosis factor biosynthetic process|regulation of vascular endothelial growth factor production|T-helper 17 cell chemotaxis	cytosol|dendrite|integral to plasma membrane|perikaryon|perinuclear region of cytoplasm|soluble fraction	C-C chemokine receptor activity|CCR2 chemokine receptor binding|protein homodimerization activity			lung(1)|breast(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.00114)|KIRC - Kidney renal clear cell carcinoma(197;0.0174)|Kidney(197;0.0206)		CATAAATTTGACGTGAAGCAA	0.463000													40	147					0	0	0.006230	0	0	
SETD2	29072	broad.mit.edu	37	3	47147551	47147551	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:47147551C>T	uc003cqs.2	-	6	4828	c.4775G>A	c.(4774-4776)CGA>CAA	p.R1592Q	SETD2_uc003cqv.2_Missense_Mutation_p.R1581Q	NM_014159	NP_054878	Q9BYW2	SETD2_HUMAN	SET domain containing 2	1592	SET.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	DNA binding|histone-lysine N-methyltransferase activity|oxidoreductase activity|transition metal ion binding			kidney(24)|ovary(5)|skin(1)|central_nervous_system(1)|breast(1)	32		Acute lymphoblastic leukemia(5;0.0169)		BRCA - Breast invasive adenocarcinoma(193;0.000302)|KIRC - Kidney renal clear cell carcinoma(197;0.00732)|Kidney(197;0.00844)		CTCCTTCACTCGAGCTTTAAA	0.398000			N|F|S|Mis		clear cell renal carcinoma								18	63					0	0	0.007413	0	0	
PTPN23	25930	broad.mit.edu	37	3	47449946	47449946	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:47449946C>T	uc003crf.1	+	15	1392	c.1296C>T	c.(1294-1296)CCC>CCT	p.P432P	PTPN23_uc011baw.1_Silent_p.P397P|PTPN23_uc011bax.1_RNA|PTPN23_uc011bay.1_Silent_p.P302P	NM_015466	NP_056281	Q9H3S7	PTN23_HUMAN	protein tyrosine phosphatase, non-receptor type	432					cilium morphogenesis	cilium|cytoplasmic membrane-bounded vesicle|microtubule basal body	protein tyrosine phosphatase activity			breast(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000271)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		GCGTCCGGCCCGACACTGTCA	0.587000													11	50					0	0	0.010729	0	0	
PLXNB1	5364	broad.mit.edu	37	3	48454291	48454291	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:48454291C>T	uc003csw.2	-	25	4984	c.4714G>A	c.(4714-4716)GCG>ACG	p.A1572T	PLXNB1_uc003cst.2_Missense_Mutation_p.A22T|PLXNB1_uc003csu.2_Missense_Mutation_p.A1389T|PLXNB1_uc003csx.2_Missense_Mutation_p.A1572T	NM_002673	NP_002664	O43157	PLXB1_HUMAN	plexin B1 precursor	1572	Cytoplasmic (Potential).				axon guidance|cell migration|intracellular signal transduction|regulation of cell shape|regulation of cytoskeleton organization|regulation of small GTPase mediated signal transduction|semaphorin-plexin signaling pathway	extracellular region|integral to plasma membrane|intracellular|semaphorin receptor complex	GTPase activator activity|semaphorin receptor activity|semaphorin receptor binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		ATCCTCTCCGCATACACCTTG	0.617000													9	60					0	0	0.006214	0	0	
COL7A1	1294	broad.mit.edu	37	3	48612948	48612948	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:48612948G>A	uc003ctz.2	-	73	6005	c.6004C>T	c.(6004-6006)CGC>TGC	p.R2002C		NM_000094	NP_000085	Q02388	CO7A1_HUMAN	alpha 1 type VII collagen precursor	2002	Triple-helical region.				cell adhesion|epidermis development	basement membrane|collagen type VII	protein binding|serine-type endopeptidase inhibitor activity			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		TTCAGCCCGCGTTCTCCAGGA	0.692000													9	42					0	0	0.006214	0	0	
COL7A1	1294	broad.mit.edu	37	3	48628240	48628240	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:48628240C>T	uc003ctz.2	-	13	1647	c.1646G>A	c.(1645-1647)CGG>CAG	p.R549Q		NM_000094	NP_000085	Q02388	CO7A1_HUMAN	alpha 1 type VII collagen precursor	549	Fibronectin type-III 4.|Nonhelical region (NC1).				cell adhesion|epidermis development	basement membrane|collagen type VII	protein binding|serine-type endopeptidase inhibitor activity			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		CACCAGGGTCCGCTCAACCCC	0.587000													15	64					0	0	0.003163	0	0	
AMIGO3	386724	broad.mit.edu	37	3	49755668	49755668	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:49755668G>A	uc003cxj.2	-	1	1571	c.1231C>T	c.(1231-1233)CGC>TGC	p.R411C	RNF123_uc003cxh.2_Intron|RNF123_uc003cxi.2_Intron	NM_198722	NP_942015	Q86WK7	AMGO3_HUMAN	adhesion molecule with Ig-like domain 3	411	Cytoplasmic (Potential).				heterophilic cell-cell adhesion	integral to membrane				pancreas(1)	1				BRCA - Breast invasive adenocarcinoma(193;4.47e-05)|Kidney(197;0.00216)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		caggcacggcggcagcagcgg	0.522000													22	56					0	0	0.010504	0	0	
DNAH1	25981	broad.mit.edu	37	3	52395698	52395698	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:52395698C>T	uc011bef.1	+	30	5157	c.4896C>T	c.(4894-4896)TTC>TTT	p.F1632F		NM_015512	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	1632	CFDEFNR motif.|AAA 1 (By similarity).				ciliary or flagellar motility|microtubule-based movement|response to mechanical stimulus	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			large_intestine(3)	3				BRCA - Breast invasive adenocarcinoma(193;2.02e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000207)|Kidney(197;0.0022)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		GGGCCTGCTTCGACGAGTTCA	0.642000													5	12					0	0	0.001168	0	0	
ITIH3	3699	broad.mit.edu	37	3	52841006	52841006	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:52841006G>A	uc003dfv.2	+	19	2182	c.2146G>A	c.(2146-2148)GCC>ACC	p.A716T	ITIH3_uc011bek.1_Intron	NM_002217	NP_002208	Q06033	ITIH3_HUMAN	inter-alpha (globulin) inhibitor H3	716				A -> R (in Ref. 1; CAA47439 and 8; CAA32821).	hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|liver(1)	3				BRCA - Breast invasive adenocarcinoma(193;7e-05)|Kidney(197;0.000656)|KIRC - Kidney renal clear cell carcinoma(197;0.000794)|OV - Ovarian serous cystadenocarcinoma(275;0.0496)		ACTGGGCATCGCCAATGCTCA	0.562000													4	11					0	0	0.009096	0	0	
ACTR8	93973	broad.mit.edu	37	3	53911269	53911269	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:53911269T>C	uc003dhd.2	-	5	715	c.656A>G	c.(655-657)TAC>TGC	p.Y219C	ACTR8_uc003dhb.2_Translation_Start_Site|ACTR8_uc003dhc.2_Missense_Mutation_p.Y108C	NM_022899	NP_075050	Q9H981	ARP8_HUMAN	actin-related protein 8	219					cell division|DNA recombination|DNA repair|mitosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Ino80 complex	protein binding			ovary(1)|central_nervous_system(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000143)|KIRC - Kidney renal clear cell carcinoma(284;0.00544)|Kidney(284;0.00607)|OV - Ovarian serous cystadenocarcinoma(275;0.111)		GATTTCCAAGTATTTTTGTAT	0.388000													23	51					0	0	0.003330	0	0	
ABHD6	57406	broad.mit.edu	37	3	58279408	58279408	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:58279408G>A	uc003djs.3	+	9	1340	c.930G>A	c.(928-930)ATG>ATA	p.M310I	ABHD6_uc003djr.2_Missense_Mutation_p.M311I|ABHD6_uc003djt.3_Missense_Mutation_p.M310I	NM_020676	NP_065727	Q9BV23	ABHD6_HUMAN	abhydrolase domain containing 6	310	Cytoplasmic (Potential).					integral to membrane	acylglycerol lipase activity			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(55;0.000225)|KIRC - Kidney renal clear cell carcinoma(284;0.0471)|Kidney(284;0.0589)|OV - Ovarian serous cystadenocarcinoma(275;0.209)		CAGTAGTGATGGAAAGACCCA	0.532000													15	75					0	0	0.003163	0	0	
ADAMTS9	56999	broad.mit.edu	37	3	64619404	64619404	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:64619404T>C	uc003dmg.2	-	13	2040	c.2008A>G	c.(2008-2010)AAT>GAT	p.N670D	ADAMTS9_uc011bfo.1_Missense_Mutation_p.N642D|ADAMTS9_uc003dmh.1_Missense_Mutation_p.N499D|ADAMTS9_uc003dmk.1_Missense_Mutation_p.N670D	NM_182920	NP_891550	Q9P2N4	ATS9_HUMAN	ADAM metallopeptidase with thrombospondin type 1	670	Cys-rich.				glycoprotein catabolic process|multicellular organismal development|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|urinary_tract(1)|skin(1)	4		Lung NSC(201;0.00682)		BRCA - Breast invasive adenocarcinoma(55;0.00142)|Kidney(15;0.00202)|KIRC - Kidney renal clear cell carcinoma(15;0.00221)		CAGCGCACATTGGGAAGCAGA	0.522000													41	245					0	0	0.011902	0	0	
FAM19A4	151647	broad.mit.edu	37	3	68788325	68788325	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:68788325C>G	uc003dnh.1	-	5	755	c.312G>C	c.(310-312)TGG>TGC	p.W104C	FAM19A4_uc003dni.1_Missense_Mutation_p.W104C	NM_182522	NP_872328	Q96LR4	F19A4_HUMAN	family with sequence similarity 19 (chemokine	104						extracellular region				skin(2)	2		Lung NSC(201;0.0198)		BRCA - Breast invasive adenocarcinoma(55;1.38e-05)|Epithelial(33;0.000124)|LUSC - Lung squamous cell carcinoma(21;0.0248)|KIRC - Kidney renal clear cell carcinoma(39;0.0729)|Kidney(39;0.0904)		TCATGTGACACCACCATTTCT	0.403000													18	68					0	0	0.010504	0	0	
C3orf64	285203	broad.mit.edu	37	3	69027566	69027566	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:69027566C>T	uc003dnl.2	-	17	1760	c.1355G>A	c.(1354-1356)CGC>CAC	p.R452H	C3orf64_uc003dnj.2_Missense_Mutation_p.R131H|C3orf64_uc003dnk.2_Missense_Mutation_p.R368H|C3orf64_uc011bfw.1_RNA	NM_173654	NP_775925	Q5NDL2	AER61_HUMAN	AER61 glycosyltransferase	452						extracellular region	transferase activity, transferring glycosyl groups			ovary(1)	1		Lung NSC(201;0.126)		BRCA - Breast invasive adenocarcinoma(55;4.61e-05)|Epithelial(33;0.000291)|LUSC - Lung squamous cell carcinoma(21;0.0127)|KIRC - Kidney renal clear cell carcinoma(39;0.216)		TAAGTAACAGCGTTCATCTTC	0.433000													5	85					0	0	0.000602	0	0	
ROBO2	6092	broad.mit.edu	37	3	77147272	77147272	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:77147272C>T	uc003dpy.3	+	2	812	c.169C>T	c.(169-171)CGG>TGG	p.R57W	ROBO2_uc003dpz.2_Missense_Mutation_p.R57W|ROBO2_uc011bgj.1_RNA|ROBO2_uc011bgk.1_Missense_Mutation_p.R57W	NM_002942	NP_002933	Q9HCK4	ROBO2_HUMAN	roundabout, axon guidance receptor, homolog 2	57	Ig-like C2-type 1.|Extracellular (Potential).				apoptosis involved in luteolysis|axon midline choice point recognition|cellular response to hormone stimulus|homophilic cell adhesion|metanephros development|negative regulation of negative chemotaxis|negative regulation of synaptogenesis|olfactory bulb interneuron development|positive regulation of axonogenesis|retinal ganglion cell axon guidance|ureteric bud development	axolemma|cell surface|integral to membrane	axon guidance receptor activity|identical protein binding			lung(5)|skin(3)|ovary(1)|large_intestine(1)|liver(1)	11				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)		GGCGGAGGGCCGGCCAACGCC	0.607000													15	35					0	0	0.004990	0	0	
HTR1F	3355	broad.mit.edu	37	3	88040785	88040785	+	Nonsense_Mutation	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:88040785G>T	uc003dqr.2	+	2	1044	c.886G>T	c.(886-888)GGA>TGA	p.G296*		NM_000866	NP_000857	P30939	5HT1F_HUMAN	5-hydroxytryptamine (serotonin) receptor 1F	296	Helical; Name=6; (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|synaptic transmission	integral to plasma membrane	serotonin binding|serotonin receptor activity			ovary(3)	3	all_cancers(8;0.147)	Lung NSC(201;0.0283)		LUSC - Lung squamous cell carcinoma(29;0.00353)|Lung(72;0.00664)	Eletriptan(DB00216)|Naratriptan(DB00952)|Rizatriptan(DB00953)|Sumatriptan(DB00669)|Zolmitriptan(DB00315)	CACTACCCTGGGATTAATCTT	0.378000													4	42					0.000602214	0.000629355	0.000602	1	0	
ARL13B	200894	broad.mit.edu	37	3	93768344	93768344	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:93768344G>A	uc003drc.2	+	8	1405	c.1119G>A	c.(1117-1119)ACG>ACA	p.T373T	ARL13B_uc010hop.2_Silent_p.T224T|ARL13B_uc003drd.2_Silent_p.T266T|ARL13B_uc003dre.2_Silent_p.T358T|ARL13B_uc003drf.2_Silent_p.T373T|ARL13B_uc003drg.2_Silent_p.T270T	NM_182896	NP_878899	Q3SXY8	AR13B_HUMAN	ADP-ribosylation factor-like 2-like 1 isoform 1	373	Pro-rich.						GTP binding				0						AGAGTCCAACGCCACCCCCAC	0.373000													17	70					0	0	0.008871	0	0	
BOC	91653	broad.mit.edu	37	3	112969475	112969475	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:112969475C>T	uc003dzx.2	+	4	792	c.171C>T	c.(169-171)TGC>TGT	p.C57C	BOC_uc010hqi.2_Silent_p.C57C|BOC_uc003dzy.2_Silent_p.C57C|BOC_uc003dzz.2_Silent_p.C57C|BOC_uc003dzw.1_Silent_p.C57C|BOC_uc003eaa.1_Silent_p.C57C	NM_033254	NP_150279	Q9BWV1	BOC_HUMAN	brother of CDO precursor	57	Extracellular (Potential).|Ig-like C2-type 1.				cell adhesion|muscle cell differentiation|positive regulation of myoblast differentiation	integral to membrane|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|pancreas(1)	6			Epithelial(53;0.227)			TCTTGGGCTGCGTGGTGGAAC	0.597000													19	64					0	0	0.007413	0	0	
BOC	91653	broad.mit.edu	37	3	112993495	112993495	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:112993495C>T	uc003dzx.2	+	9	2129	c.1508C>T	c.(1507-1509)GCG>GTG	p.A503V	BOC_uc003dzy.2_Missense_Mutation_p.A503V|BOC_uc003dzz.2_Missense_Mutation_p.A503V|BOC_uc003eab.2_Missense_Mutation_p.A204V	NM_033254	NP_150279	Q9BWV1	BOC_HUMAN	brother of CDO precursor	503	Fibronectin type-III 1.|Extracellular (Potential).				cell adhesion|muscle cell differentiation|positive regulation of myoblast differentiation	integral to membrane|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|pancreas(1)	6			Epithelial(53;0.227)			AGTGGCCGGGCGCCAATCCTC	0.632000													13	49					0	0	0.002450	0	0	
WDR52	55779	broad.mit.edu	37	3	113122717	113122717	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:113122717C>T	uc003eae.1	-	9	1198	c.1152G>A	c.(1150-1152)GGG>GGA	p.G384G		NM_018338	NP_060808	Q96MT7	WDR52_HUMAN	WD repeat domain 52 isoform 2	384	WD 4.									central_nervous_system(1)	1						ATCCATCTGACCCAACAGTGA	0.433000													6	121					0	0	0.001984	0	0	
CD80	941	broad.mit.edu	37	3	119263419	119263419	+	Silent	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:119263419A>G	uc003ecq.2	-	3	791	c.396T>C	c.(394-396)GCT>GCC	p.A132A	CD80_uc010hqt.1_Silent_p.A132A|CD80_uc010hqu.1_Silent_p.A132A|CD80_uc003ecr.1_Silent_p.A132A	NM_005191	NP_005182	P33681	CD80_HUMAN	CD80 antigen precursor	132	Extracellular (Potential).|Ig-like V-type.				interspecies interaction between organisms|intracellular signal transduction|positive regulation of granulocyte macrophage colony-stimulating factor biosynthetic process|positive regulation of interleukin-2 biosynthetic process|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of signal transduction|positive regulation of T-helper 1 cell differentiation|positive regulation of transcription, DNA-dependent|T cell costimulation	intracellular	coreceptor activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2					Abatacept(DB01281)	ACGTCACTTCAGCCAGGTGTT	0.463000													21	62					0	0	0.003330	0	0	
CD80	941	broad.mit.edu	37	3	119263442	119263442	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:119263442C>T	uc003ecq.2	-	3	768	c.373G>A	c.(373-375)GCT>ACT	p.A125T	CD80_uc010hqt.1_Missense_Mutation_p.A125T|CD80_uc010hqu.1_Missense_Mutation_p.A125T|CD80_uc003ecr.1_Missense_Mutation_p.A125T	NM_005191	NP_005182	P33681	CD80_HUMAN	CD80 antigen precursor	125	Extracellular (Potential).|Ig-like V-type.				interspecies interaction between organisms|intracellular signal transduction|positive regulation of granulocyte macrophage colony-stimulating factor biosynthetic process|positive regulation of interleukin-2 biosynthetic process|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of signal transduction|positive regulation of T-helper 1 cell differentiation|positive regulation of transcription, DNA-dependent|T cell costimulation	intracellular	coreceptor activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2					Abatacept(DB01281)	CGCTTGAAAGCGTCTTTTTCA	0.453000													5	92					0	0	0.000602	0	0	
NR1I2	8856	broad.mit.edu	37	3	119534599	119534599	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:119534599G>A	uc003edj.2	+	8	2920	c.1081G>A	c.(1081-1083)GTG>ATG	p.V361M	NR1I2_uc003edi.2_Missense_Mutation_p.V324M|NR1I2_uc003edk.2_Missense_Mutation_p.V400M|NR1I2_uc003edl.2_Missense_Mutation_p.V249M	NM_003889	NP_003880	O75469	NR1I2_HUMAN	nuclear receptor subfamily 1, group I, member 2	361	Ligand-binding.				drug export|exogenous drug catabolic process|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|steroid metabolic process|xenobiotic metabolic process|xenobiotic transport	nucleoplasm	drug binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|transcription coactivator activity|zinc ion binding			ovary(2)	2				GBM - Glioblastoma multiforme(114;0.175)	Estradiol(DB00783)|Ethinyl Estradiol(DB00977)|Rifampin(DB01045)|Vitamin E(DB00163)	GCAGCACCGCGTGGTGGACCA	0.597000													6	20					0	0	0.001168	0	0	
PDIA5	10954	broad.mit.edu	37	3	122864423	122864424	+	Missense_Mutation	DNP	TC	AA	AA			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:122864423_122864424TC>AA	uc003egc.1	+	12	1021_1022	c.965_966TC>AA	c.(964-966)CTC>CAA	p.L322Q	PDIA5_uc003egd.1_RNA	NM_006810	NP_006801	Q14554	PDIA5_HUMAN	protein disulfide isomerase A5 precursor	322	Thioredoxin 2.				cell redox homeostasis|glycerol ether metabolic process|protein folding|response to stress	endoplasmic reticulum lumen	electron carrier activity|protein disulfide isomerase activity|protein disulfide oxidoreductase activity			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.0427)		GCAGAAGCCCTCCATGGAGAAG	0.510000													6	49					0	0	0.004672	0	0	
PLXNA1	5361	broad.mit.edu	37	3	126710304	126710304	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:126710304G>A	uc003ejg.2	+	2	1207	c.1203G>A	c.(1201-1203)ACG>ACA	p.T401T		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	424	Sema.|Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		TTGAGGGGACGCCCCTGTTCG	0.647000													4	47					0	0	0.009096	0	0	
PLXNA1	5361	broad.mit.edu	37	3	126732871	126732871	+	Silent	SNP	C	T	T	rs147176760		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:126732871C>T	uc003ejg.2	+	10	2257	c.2253C>T	c.(2251-2253)TAC>TAT	p.Y751Y		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	774	Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		AGTACTCCTACGAGGGGAACG	0.597000													29	123					0	0	0.009535	0	0	
COPG	22820	broad.mit.edu	37	3	128973580	128973580	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:128973580C>T	uc003els.2	+	6	493	c.393C>T	c.(391-393)ATC>ATT	p.I131I	COPG_uc010htb.2_Silent_p.I37I	NM_016128	NP_057212	Q9Y678	COPG_HUMAN	coatomer protein complex, subunit gamma 1	131					COPI coating of Golgi vesicle|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol	protein binding|structural molecule activity			ovary(3)|breast(1)	4						TCTGCCAGATCACTGATGTGA	0.562000													17	18					0	0	0.004990	0	0	
SLCO2A1	6578	broad.mit.edu	37	3	133664053	133664053	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:133664053C>T	uc003eqa.3	-	10	1621	c.1347G>A	c.(1345-1347)TCG>TCA	p.S449S	SLCO2A1_uc003eqb.3_Silent_p.S373S|SLCO2A1_uc011blv.1_Silent_p.S268S	NM_005630	NP_005621	Q92959	SO2A1_HUMAN	solute carrier organic anion transporter family,	449	Extracellular (Potential).|Kazal-like.				sodium-independent organic anion transport	integral to plasma membrane|membrane fraction	prostaglandin transmembrane transporter activity|protein binding			central_nervous_system(1)	1						AATCTGGGCACGAGCAGTCCC	0.527000													46	247					0	0	0.014410	0	0	
PLCH1	23007	broad.mit.edu	37	3	155200068	155200068	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:155200068C>T	uc011bok.1	-	23	4048	c.3771G>A	c.(3769-3771)GAG>GAA	p.E1257E	PLCH1_uc011boj.1_3'UTR|PLCH1_uc011bol.1_Silent_p.E1219E	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	1257					lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			GTGCTATCAGCTCCGGAGATG	0.483000													8	126					0	0	0.003080	0	0	
GMPS	8833	broad.mit.edu	37	3	155633942	155633942	+	Silent	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:155633942T>C	uc003faq.2	+	9	1508	c.1173T>C	c.(1171-1173)CAT>CAC	p.H391H	GMPS_uc011bom.1_Silent_p.H292H	NM_003875	NP_003866	P49915	GUAA_HUMAN	guanine monophosphate synthetase	391					glutamine metabolic process|purine base biosynthetic process	cytosol	ATP binding|GMP synthase (glutamine-hydrolyzing) activity|GMP synthase activity			ovary(2)|lung(1)	3			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)		L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	TCAAAACCCATCACAATGACA	0.408000			T	MLL	AML								17	81					0	0	0.003954	0	0	
MLF1	4291	broad.mit.edu	37	3	158315874	158315874	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:158315874A>C	uc003fcb.2	+	4	422	c.285A>C	c.(283-285)CAA>CAC	p.Q95H	MLF1_uc003fbz.2_Missense_Mutation_p.Q70H|MLF1_uc003fca.2_Missense_Mutation_p.Q70H|MLF1_uc003fbx.2_Missense_Mutation_p.Q85H|MLF1_uc003fcc.2_Missense_Mutation_p.Q126H|MLF1_uc003fby.2_Missense_Mutation_p.Q21H|MLF1_uc010hvx.2_Intron	NM_022443	NP_071888	P58340	MLF1_HUMAN	myeloid leukemia factor 1 isoform 1	95	Interaction with COPS3.				cell cycle arrest|myeloid progenitor cell differentiation|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein domain specific binding				0		Melanoma(1037;0.000458)|Prostate(884;0.0235)|all_neural(597;0.0299)	Lung(72;0.00199)|LUSC - Lung squamous cell carcinoma(72;0.00256)			TGTAGGGTCAACTTTCAGTGG	0.358000			T	NPM1	AML								16	54					0	0	0.006122	0	0	
WDR49	151790	broad.mit.edu	37	3	167277851	167277851	+	Splice_Site	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:167277851C>T	uc003fev.1	-	5	957	c.651_splice	c.e5+1	p.K217_splice	WDR49_uc003feu.1_Splice_Site_p.K42_splice|WDR49_uc011bpd.1_Splice_Site_p.K270_splice|WDR49_uc003few.1_Intron	NM_178824	NP_849146	Q8IV35	WDR49_HUMAN	WD repeat domain 49											large_intestine(1)|ovary(1)|skin(1)	3						TGTGTTCGCACCTTTACAGTC	0.428000													14	151					0	0	0.004007	0	0	
SAMD7	344658	broad.mit.edu	37	3	169642884	169642884	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:169642884G>A	uc003fgd.2	+	5	517	c.250G>A	c.(250-252)GCC>ACC	p.A84T	SAMD7_uc003fge.2_Missense_Mutation_p.A84T|SAMD7_uc011bpo.1_5'UTR	NM_182610	NP_872416	Q7Z3H4	SAMD7_HUMAN	sterile alpha motif domain containing 7	84										skin(1)	1	all_cancers(22;1.55e-22)|all_epithelial(15;2.41e-27)|all_lung(20;3.52e-17)|Lung NSC(18;1.44e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.0106)			AAAGGCAGTGGCCAGAAGGAA	0.353000													9	28					0	0	0.006214	0	0	
SLC7A14	57709	broad.mit.edu	37	3	170204121	170204121	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:170204121T>C	uc003fgz.2	-	5	1112	c.796A>G	c.(796-798)ATT>GTT	p.I266V	CLDN11_uc011bpt.1_Intron|uc003fha.1_Intron	NM_020949	NP_066000	Q8TBB6	S7A14_HUMAN	solute carrier family 7 (cationic amino acid	266	Helical; (Potential).					integral to membrane	amino acid transmembrane transporter activity			ovary(2)|upper_aerodigestive_tract(1)|liver(1)|central_nervous_system(1)	5	all_cancers(22;2.41e-22)|all_epithelial(15;4.2e-27)|all_lung(20;1.17e-16)|Lung NSC(18;4.91e-16)|Ovarian(172;0.000902)|Breast(254;0.137)		Lung(28;6.23e-13)|LUSC - Lung squamous cell carcinoma(14;1.48e-12)			TCAAAGCCAATGAAAGCGTAG	0.527000													4	95					0	0	0.009096	0	0	
EIF4G1	1981	broad.mit.edu	37	3	184043127	184043127	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:184043127G>A	uc003fnp.2	+	19	3125	c.2927G>A	c.(2926-2928)CGC>CAC	p.R976H	EIF4G1_uc003fno.1_Missense_Mutation_p.R917H|EIF4G1_uc010hxw.1_Missense_Mutation_p.R812H|EIF4G1_uc003fnt.2_Missense_Mutation_p.R687H|EIF4G1_uc003fnq.2_Missense_Mutation_p.R889H|EIF4G1_uc003fnr.2_Missense_Mutation_p.R812H|EIF4G1_uc010hxx.2_Missense_Mutation_p.R983H|EIF4G1_uc003fns.2_Missense_Mutation_p.R936H|EIF4G1_uc010hxy.2_Missense_Mutation_p.R983H|EIF4G1_uc003fnv.3_Missense_Mutation_p.R977H|EIF4G1_uc003fnu.3_Missense_Mutation_p.R976H|EIF4G1_uc003fnw.2_Missense_Mutation_p.R983H|EIF4G1_uc003fnx.2_Missense_Mutation_p.R781H|EIF4G1_uc003fny.3_Missense_Mutation_p.R780H|SNORD66_uc003fnz.2_5'Flank	NM_198241	NP_937884	Q04637	IF4G1_HUMAN	eukaryotic translation initiation factor 4	976	eIF3/EIF4A-binding.				insulin receptor signaling pathway|interspecies interaction between organisms|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			lung(2)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			TCCCGCATCCGCTTTATGCTG	0.527000													32	92					0	0	0.012213	0	0	
CLCN2	1181	broad.mit.edu	37	3	184075996	184075996	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:184075996G>A	uc003foi.2	-	4	579	c.455C>T	c.(454-456)ACA>ATA	p.T152I	CLCN2_uc003foh.2_5'Flank|CLCN2_uc010hya.1_Missense_Mutation_p.T152I|CLCN2_uc011brl.1_Missense_Mutation_p.T152I|CLCN2_uc011brm.1_Missense_Mutation_p.T108I|CLCN2_uc011brn.1_Missense_Mutation_p.T152I	NM_004366	NP_004357	P51788	CLCN2_HUMAN	chloride channel 2	152	Helical; (By similarity).					chloride channel complex	voltage-gated chloride channel activity				0	all_cancers(143;6.66e-11)|Ovarian(172;0.0339)		Epithelial(37;2.22e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)		Lubiprostone(DB01046)	CAGGATCTGTGTGAATCCGGC	0.582000													6	116					0	0	0.001984	0	0	
MAP3K13	9175	broad.mit.edu	37	3	185167821	185167821	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:185167821T>C	uc010hyf.2	+	7	1410	c.1144T>C	c.(1144-1146)TTC>CTC	p.F382L	MAP3K13_uc011brt.1_Missense_Mutation_p.F175L|MAP3K13_uc003fph.3_Missense_Mutation_p.F150L|MAP3K13_uc011bru.1_Missense_Mutation_p.F238L|MAP3K13_uc003fpi.2_Missense_Mutation_p.F382L|MAP3K13_uc010hyg.2_Missense_Mutation_p.F72L	NM_004721	NP_004712	O43283	M3K13_HUMAN	mitogen-activated protein kinase kinase kinase	382	Protein kinase.				activation of MAPKK activity|JNK cascade|positive regulation of NF-kappaB transcription factor activity|protein autophosphorylation	cytoplasm|membrane|membrane fraction	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein kinase binding			ovary(2)|skin(1)	3	all_cancers(143;7.21e-11)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;1.93e-20)			CCCTGATGGATTCAAAATCCT	0.388000													4	98					0	0	0.009096	0	0	
LSG1	55341	broad.mit.edu	37	3	194373625	194373625	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:194373625A>G	uc003fui.2	-	8	1321	c.1006T>C	c.(1006-1008)TGG>CGG	p.W336R		NM_018385	NP_060855	Q9H089	LSG1_HUMAN	large subunit GTPase 1	336					nuclear export|protein transport	Cajal body|endoplasmic reticulum	GTP binding|hydrolase activity				0	all_cancers(143;1.68e-08)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;4.34e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;7.55e-06)		CTTTCCTTCCAGTCCTGGCTG	0.522000													57	172					0	0	0.014410	0	0	
MUC4	4585	broad.mit.edu	37	3	195492283	195492283	+	Silent	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:195492283T>C	uc011bto.1	-	10	13732	c.13272A>G	c.(13270-13272)GAA>GAG	p.E4424E	MUC4_uc003fuz.2_Silent_p.E150E|MUC4_uc003fva.2_Silent_p.E32E|MUC4_uc003fvb.2_Silent_p.E68E|MUC4_uc003fvc.2_RNA|MUC4_uc003fvd.2_RNA|MUC4_uc003fve.2_Silent_p.E68E|MUC4_uc010hzr.2_RNA|MUC4_uc011btf.1_Silent_p.E32E|MUC4_uc011btg.1_RNA|MUC4_uc011bth.1_Silent_p.E116E|MUC4_uc011bti.1_Silent_p.E116E|MUC4_uc011btj.1_Silent_p.E293E|MUC4_uc011btk.1_Silent_p.E32E|MUC4_uc011btl.1_Silent_p.E61E|MUC4_uc011btm.1_Silent_p.E241E|MUC4_uc011btn.1_Silent_p.E32E|MUC4_uc003fvo.2_Silent_p.E316E|MUC4_uc003fvp.2_Silent_p.E265E|MUC4_uc010hzu.1_Silent_p.E1164E	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	1309	NIDO.				cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		TGGGCCTTTCTTCCCGGTGTA	0.652000													13	38					0	0	0.002450	0	0	
FBXO45	200933	broad.mit.edu	37	3	196304666	196304666	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:196304666G>A	uc010iai.2	+	2	792	c.661G>A	c.(661-663)GCA>ACA	p.A221T		NM_001105573	NP_001099043	P0C2W1	FBSP1_HUMAN	F-box protein 45	221	B30.2/SPRY.				nervous system development|proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to DNA damage stimulus	cell junction|postsynaptic membrane|presynaptic membrane	protein binding			skin(1)	1	all_cancers(143;8.88e-09)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;2.75e-23)|all cancers(36;2.47e-21)|OV - Ovarian serous cystadenocarcinoma(49;2.32e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00314)		GTGCAACAACGCACCAAAATA	0.403000													11	22					0	0	0.013537	0	0	
DLG1	1739	broad.mit.edu	37	3	196792610	196792610	+	Silent	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr3:196792610T>C	uc003fxo.3	-	22	2392	c.2202A>G	c.(2200-2202)GAA>GAG	p.E734E	DLG1_uc011bub.1_Silent_p.E630E|DLG1_uc011buc.1_Silent_p.E618E|DLG1_uc011bud.1_Silent_p.E417E|DLG1_uc003fxn.3_Silent_p.E756E|DLG1_uc011bue.1_Silent_p.E722E|DLG1_uc010ial.2_Silent_p.E734E	NM_001098424	NP_001091894	Q12959	DLG1_HUMAN	discs, large homolog 1 isoform 1	734	Guanylate kinase-like.				actin filament organization|axon guidance|cell-cell adhesion|cortical actin cytoskeleton organization|endothelial cell proliferation|establishment or maintenance of cell polarity|interspecies interaction between organisms|mitotic cell cycle G1/S transition checkpoint|negative regulation of mitotic cell cycle|protein localization in plasma membrane|synaptic transmission|tight junction assembly	basolateral plasma membrane|cytosol|endoplasmic reticulum membrane|immunological synapse|MPP7-DLG1-LIN7 complex|nucleus|postsynaptic density|postsynaptic membrane|sarcolemma|tight junction	cytoskeletal protein binding|guanylate kinase activity|L27 domain binding|phosphatase binding|phosphoprotein phosphatase activity|potassium channel regulator activity|protein binding|protein C-terminus binding|protein kinase binding			ovary(3)	3	all_cancers(143;6.22e-10)|Ovarian(172;0.0418)|Breast(254;0.0589)	Lung NSC(153;0.133)	Epithelial(36;3.23e-24)|all cancers(36;2.15e-22)|OV - Ovarian serous cystadenocarcinoma(49;3.88e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.0148)		TGTCAGGAAATTCTGAGATCA	0.333000													4	68					0	0	0.000602	0	0	
MAEA	10296	broad.mit.edu	37	4	1332301	1332301	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:1332301G>A	uc003gda.2	+	8	1021	c.991G>A	c.(991-993)GCC>ACC	p.A331T	MAEA_uc003gdb.2_Missense_Mutation_p.A290T|MAEA_uc011bvb.1_Missense_Mutation_p.A263T|MAEA_uc003gdc.2_Missense_Mutation_p.A263T|MAEA_uc003gdd.2_RNA|MAEA_uc011bvc.1_Missense_Mutation_p.A330T|MAEA_uc011bvd.1_Missense_Mutation_p.A283T|MAEA_uc010ibt.2_Missense_Mutation_p.A104T|MAEA_uc010ibu.2_RNA	NM_001017405	NP_001017405	Q7L5Y9	MAEA_HUMAN	macrophage erythroblast attacher isoform 1	331					cell adhesion|cell cycle|cell division|erythrocyte maturation|negative regulation of myeloid cell apoptosis|regulation of mitotic cell cycle	actomyosin contractile ring|integral to plasma membrane|membrane fraction|nuclear matrix|spindle	actin binding			ovary(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(23;0.0201)			CCTGCCCATGGCCCACTGTGC	0.612000													4	46					0	0	0.001168	0	0	
EVC2	132884	broad.mit.edu	37	4	5664972	5664972	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:5664972A>C	uc003gij.2	-	9	1061	c.1007T>G	c.(1006-1008)GTT>GGT	p.V336G	EVC2_uc011bwb.1_5'UTR|EVC2_uc003gik.2_Missense_Mutation_p.V256G	NM_147127	NP_667338	Q86UK5	LBN_HUMAN	limbin	336						integral to membrane				large_intestine(3)|ovary(2)	5						ATACTGCCAAACCTTCAGGAG	0.498000													19	82					0	0	0.010504	0	0	
TBC1D14	57533	broad.mit.edu	37	4	6925517	6925517	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:6925517G>A	uc011bwg.1	+	2	480	c.401G>A	c.(400-402)GGC>GAC	p.G134D	TBC1D14_uc003gjs.3_Missense_Mutation_p.G134D	NM_001113361	NP_001106832	Q9P2M4	TBC14_HUMAN	TBC1 domain family, member 14 isoform a	134						intracellular	Rab GTPase activator activity			ovary(1)|pancreas(1)	2						CCCAGGACAGGCTATGACTCG	0.617000													52	143					0	0	0.014410	0	0	
DRD5	1816	broad.mit.edu	37	4	9784677	9784677	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:9784677G>A	uc003gmb.3	+	1	1420	c.1024G>A	c.(1024-1026)GAC>AAC	p.D342N		NM_000798	NP_000789	P21918	DRD5_HUMAN	dopamine receptor D5	342	Helical; Name=7; (Potential).				activation of adenylate cyclase activity by dopamine receptor signaling pathway|activation of phospholipase C activity by dopamine receptor signaling pathway|cellular calcium ion homeostasis|negative regulation of NAD(P)H oxidase activity|reactive oxygen species metabolic process|synaptic transmission, dopaminergic	integral to plasma membrane				skin(1)	1					Apomorphine(DB00714)|Carphenazine(DB01038)|Fenoldopam(DB00800)|Zuclopenthixol(DB01624)	GACCACCTTCGACGTCTTCGT	0.597000													31	105					0	0	0.010818	0	0	
HS3ST1	9957	broad.mit.edu	37	4	11401356	11401356	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:11401356A>G	uc003gmq.2	-	2	597	c.274T>C	c.(274-276)TGG>CGG	p.W92R		NM_005114	NP_005105	O14792	HS3S1_HUMAN	heparan sulfate D-glucosaminyl	92						Golgi lumen|integral to membrane	[heparan sulfate]-glucosamine 3-sulfotransferase 1 activity			skin(1)	1						TGCTCCTCCCAGTCGAAGAAG	0.647000													6	106					0	0	0.001168	0	0	
C1QTNF7	114905	broad.mit.edu	37	4	15437604	15437604	+	Silent	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:15437604A>G	uc011bxb.1	+	2	464	c.237A>G	c.(235-237)GCA>GCG	p.A79A	C1QTNF7_uc003gno.2_Silent_p.A86A|C1QTNF7_uc003gnp.2_Silent_p.A79A	NM_001135171	NP_001128643	Q9BXJ2	C1QT7_HUMAN	C1q and tumor necrosis factor related protein 7	79	Collagen-like.					collagen					0						AGGGAACTGCAGGTAATGAAT	0.478000													9	39					0	0	0.006214	0	0	
SLIT2	9353	broad.mit.edu	37	4	20599972	20599972	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:20599972C>T	uc003gpr.1	+	33	3850	c.3646C>T	c.(3646-3648)CGT>TGT	p.R1216C	SLIT2_uc003gps.1_Missense_Mutation_p.R1208C	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	1216	Laminin G-like.				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						GGGGCGTGTTCGTGCCAGCTA	0.463000													20	132					0	0	0.010504	0	0	
PACRGL	133015	broad.mit.edu	37	4	20714531	20714531	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:20714531C>A	uc010iek.2	+	6	878	c.487C>A	c.(487-489)CTA>ATA	p.L163I	PACRGL_uc003gpu.2_RNA|PACRGL_uc010iei.1_Missense_Mutation_p.L211I|PACRGL_uc003gpz.2_Missense_Mutation_p.L163I|PACRGL_uc011bxm.1_Missense_Mutation_p.L110I|PACRGL_uc003gqa.2_Intron|PACRGL_uc003gpx.3_RNA|PACRGL_uc003gpv.2_Missense_Mutation_p.L163I|PACRGL_uc003gpw.2_RNA|PACRGL_uc010iej.1_RNA|PACRGL_uc011bxn.1_Intron|PACRGL_uc003gpy.2_Missense_Mutation_p.L110I	NM_145048	NP_659485	Q8N7B6	PACRL_HUMAN	PARK2 co-regulated-like isoform 1	163							binding				0						GATTCCTGTGCTAAAGGCAGC	0.333000													4	170					2.56e-06	2.76471e-06	0.009096	1	0	
TBC1D1	23216	broad.mit.edu	37	4	38016279	38016279	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:38016279G>A	uc003gtb.2	+	3	910	c.567G>A	c.(565-567)CCG>CCA	p.P189P	TBC1D1_uc011byd.1_Silent_p.P189P|TBC1D1_uc010ifd.2_Intron|TBC1D1_uc011byf.1_Silent_p.P60P	NM_015173	NP_055988	Q86TI0	TBCD1_HUMAN	TBC1 (tre-2/USP6, BUB2, cdc16) domain family,	189						nucleus	Rab GTPase activator activity			ovary(1)	1						AGAAGGCTCCGCCGGCCCTGA	0.667000													36	134					0	0	0.007835	0	0	
KLF3	51274	broad.mit.edu	37	4	38698768	38698768	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:38698768A>G	uc003gth.3	+	6	1254	c.922A>G	c.(922-924)ACA>GCA	p.T308A		NM_016531	NP_057615	P57682	KLF3_HUMAN	Kruppel-like factor 3 (basic)	308	C2H2-type 2.				multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|lung(1)	2						TGATGAACTAACAAGACATTT	0.443000													8	137					0	0	0.004482	0	0	
LIAS	11019	broad.mit.edu	37	4	39462409	39462409	+	Splice_Site	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:39462409G>T	uc003guf.2	+	2	119	c.46_splice	c.e2-1	p.V16_splice	RPL9_uc003gub.2_5'Flank|RPL9_uc003guc.2_5'Flank|RPL9_uc011byk.1_5'Flank|RPL9_uc011byl.1_5'Flank|RPL9_uc003gud.1_5'Flank|LIAS_uc003gue.3_Splice_Site_p.V16_splice|LIAS_uc011bym.1_Splice_Site_p.V16_splice|LIAS_uc003gug.2_Splice_Site_p.V16_splice|LIAS_uc003guh.2_Splice_Site_p.V16_splice	NM_006859	NP_006850	O43766	LIAS_HUMAN	lipoic acid synthetase isoform 1 precursor						inflammatory response|response to lipopolysaccharide|response to oxidative stress	mitochondrion	4 iron, 4 sulfur cluster binding|lipoate synthase activity|metal ion binding				0					Lipoic Acid(DB00166)	TCTTTCTTTAGGTATTTGGGA	0.373000													5	186					0.000602214	0.000629355	0.000602	1	0	
GRXCR1	389207	broad.mit.edu	37	4	43032469	43032469	+	Missense_Mutation	SNP	G	A	A	rs146696590	by1000genomes	TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:43032469G>A	uc003gwt.2	+	4	785	c.785G>A	c.(784-786)CGA>CAA	p.R262Q		NM_001080476	NP_001073945	A8MXD5	GRCR1_HUMAN	glutaredoxin, cysteine rich 1	262					cell redox homeostasis|inner ear receptor stereocilium organization|sensory perception of sound|vestibular receptor cell development	kinocilium|stereocilium	electron carrier activity|protein disulfide oxidoreductase activity			ovary(1)	1						TCCATGTTTCGAAACTGCTTC	0.468000													36	111					0	0	0.005524	0	0	
CNGA1	1259	broad.mit.edu	37	4	47939078	47939078	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:47939078C>T	uc003gxt.3	-	11	1699	c.1433G>A	c.(1432-1434)CGC>CAC	p.R478H	uc003gxr.1_Intron|CNGA1_uc003gxu.2_Missense_Mutation_p.R547H	NM_000087	NP_000078	P29973	CNGA1_HUMAN	cyclic nucleotide gated channel alpha 1 isoform	478	Extracellular (Potential).				response to stimulus|visual perception	integral to plasma membrane	cGMP binding|ion channel activity			ovary(2)	2						AGCAAAAATGCGTACCTTTTT	0.378000													8	179					0	0	0.003080	0	0	
PDGFRA	5156	broad.mit.edu	37	4	54248502	54248502	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:54248502G>A	uc003haa.2	+	4	414	c.228G>A	c.(226-228)CCG>CCA	p.P76P	FIP1L1_uc003gzx.3_Silent_p.P61P|FIP1L1_uc011bzt.1_Silent_p.P76P|FIP1L1_uc003gzy.2_Silent_p.P76P|FIP1L1_uc011bzu.1_Silent_p.P61P|FIP1L1_uc003gzz.2_Silent_p.P61P|FIP1L1_uc003hab.2_Silent_p.P64P|FIP1L1_uc003hac.2_5'UTR	NM_006206	NP_006197	P16234	PGFRA_HUMAN	platelet-derived growth factor receptor alpha	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cardiac myofibril assembly|cell activation|luteinization|metanephric glomerular capillary formation|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of DNA replication|positive regulation of fibroblast proliferation|protein autophosphorylation|retina vasculature development in camera-type eye	cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet-derived growth factor alpha-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein homodimerization activity|vascular endothelial growth factor receptor activity			soft_tissue(572)|small_intestine(40)|stomach(16)|lung(16)|central_nervous_system(13)|haematopoietic_and_lymphoid_tissue(7)|skin(3)|ovary(3)|gastrointestinal_tract_(site_indeterminate)(1)|autonomic_ganglia(1)|prostate(1)|bone(1)	674	all_cancers(7;0.000425)|all_lung(4;0.000343)|Lung NSC(11;0.000467)|all_epithelial(27;0.0131)|all_neural(26;0.0209)|Glioma(25;0.08)		GBM - Glioblastoma multiforme(1;4.18e-71)|all cancers(1;4.76e-45)|LUSC - Lung squamous cell carcinoma(32;0.00256)		Becaplermin(DB00102)|Imatinib(DB00619)|Sunitinib(DB01268)	TACCAAAACCGGTAACATAAG	0.348000			Mis|O|T	FIP1L1	GIST|idiopathic hypereosinophilic syndrome				Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Intestinal_Neurofibromatosis	TSP Lung(21;0.16)			6	37					0	0	0.001168	0	0	
STAP1	26228	broad.mit.edu	37	4	68459005	68459005	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:68459005A>G	uc003hde.3	+	8	839	c.757A>G	c.(757-759)ATT>GTT	p.I253V	STAP1_uc003hdf.2_Missense_Mutation_p.I253V	NM_012108	NP_036240	Q9ULZ2	STAP1_HUMAN	signal transducing adaptor family member 1	253	SH2.				cellular membrane fusion|intracellular protein transport	cytoplasm					0						TTTCAGTGTCATTGATTATTT	0.363000													4	113					0	0	0.000602	0	0	
TMPRSS11D	9407	broad.mit.edu	37	4	68691524	68691524	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:68691524G>A	uc003hdq.2	-	9	1086	c.1021C>T	c.(1021-1023)CAT>TAT	p.H341Y	LOC550112_uc003hdl.3_Intron|TMPRSS11D_uc003hdp.2_Missense_Mutation_p.H122Y|TMPRSS11D_uc011caj.1_Missense_Mutation_p.H224Y	NM_004262	NP_004253	O60235	TM11D_HUMAN	transmembrane protease, serine 11D	341	Peptidase S1.|Extracellular (Potential).				proteolysis|respiratory gaseous exchange	extracellular region|integral to plasma membrane	serine-type endopeptidase activity			ovary(1)	1						TTATAACTATGTGGTGCATTA	0.433000													15	50					0	0	0.004007	0	0	
CCDC158	339965	broad.mit.edu	37	4	77283362	77283362	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:77283362C>T	uc003hkb.3	-	12	2090	c.1937G>A	c.(1936-1938)CGT>CAT	p.R646H		NM_001042784	NP_001036249	Q5M9N0	CD158_HUMAN	coiled-coil domain containing 158	646	Potential.									skin(3)|ovary(2)|pancreas(1)	6						CTTCACTGCACGGAGCCGCTC	0.438000													29	94					0	0	0.007291	0	0	
PRKG2	5593	broad.mit.edu	37	4	82063969	82063969	+	Silent	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:82063969A>G	uc003hmh.2	-	10	1400	c.1386T>C	c.(1384-1386)GGT>GGC	p.G462G	PRKG2_uc011ccf.1_Silent_p.G42G|PRKG2_uc011ccg.1_Silent_p.G42G|PRKG2_uc011cch.1_Intron	NM_006259	NP_006250	Q13237	KGP2_HUMAN	protein kinase, cGMP-dependent, type II	462	Protein kinase.|ATP (By similarity).				platelet activation|signal transduction	cytosol	ATP binding|cGMP binding|cGMP-dependent protein kinase activity			breast(3)|central_nervous_system(2)|ovary(1)|large_intestine(1)	7						TTCCGAACCCACCAACGCCCA	0.438000													56	210					0	0	0.014410	0	0	
CDS1	1040	broad.mit.edu	37	4	85525440	85525440	+	Silent	SNP	A	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:85525440A>C	uc011ccv.1	+	2	660	c.162A>C	c.(160-162)ACA>ACC	p.T54T		NM_001263	NP_001254	Q92903	CDS1_HUMAN	CDP-diacylglycerol synthase 1	54					signal transduction|visual perception	endoplasmic reticulum membrane|integral to membrane	diacylglycerol cholinephosphotransferase activity|phosphatidate cytidylyltransferase activity			large_intestine(2)|ovary(1)|breast(1)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.00101)		ATTCCAGAACAGATTCTGATA	0.353000													12	54					0	0	0.013537	0	0	
WDFY3	23001	broad.mit.edu	37	4	85605111	85605111	+	Silent	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:85605111T>C	uc003hpd.2	-	63	10119	c.9711A>G	c.(9709-9711)TCA>TCG	p.S3237S	WDFY3_uc003hpc.2_5'Flank	NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	3237	WD 4.					cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		CCACTCCATCTGAGTGTCCTG	0.453000													4	106					0	0	0.001168	0	0	
WDFY3	23001	broad.mit.edu	37	4	85636503	85636503	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:85636503G>A	uc003hpd.2	-	50	8317	c.7909C>T	c.(7909-7911)CGG>TGG	p.R2637W	WDFY3_uc003hpe.1_Missense_Mutation_p.R248W	NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	2637						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		AGGTAATTCCGTCCATCTCCA	0.333000													24	73					0	0	0.003954	0	0	
AFF1	4299	broad.mit.edu	37	4	88053502	88053502	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:88053502A>G	uc003hqj.3	+	18	3639	c.3232A>G	c.(3232-3234)AAT>GAT	p.N1078D	AFF1_uc011ccz.1_Missense_Mutation_p.N1085D|AFF1_uc003hqk.3_Missense_Mutation_p.N1078D|AFF1_uc011cda.1_Missense_Mutation_p.N716D	NM_005935	NP_005926	P51825	AFF1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	1078						nucleus	sequence-specific DNA binding transcription factor activity			breast(1)	1		Acute lymphoblastic leukemia(40;0.0935)|all_hematologic(202;0.111)|Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000233)		TCGTACTCTTAATAAACACTT	0.383000													12	51					0	0	0.013537	0	0	
SNCA	6622	broad.mit.edu	37	4	90743423	90743423	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:90743423A>C	uc003hsq.2	-	4	539	c.280T>G	c.(280-282)TTT>GTT	p.F94V	SNCA_uc010ikt.2_Missense_Mutation_p.F80V|SNCA_uc003hso.2_Missense_Mutation_p.F94V|SNCA_uc003hsp.2_Missense_Mutation_p.F94V|SNCA_uc003hsr.2_Missense_Mutation_p.F94V	NM_001146054	NP_001139526	P37840	SYUA_HUMAN	alpha-synuclein isoform NACP140	94				Missing: Reduces polymerization into amyloid fibrils.	activation of caspase activity|anti-apoptosis|negative regulation of dopamine uptake|negative regulation of exocytosis|negative regulation of histone acetylation|negative regulation of microtubule polymerization|negative regulation of monooxygenase activity|negative regulation of norepinephrine uptake|negative regulation of platelet-derived growth factor receptor signaling pathway|negative regulation of serotonin uptake|negative regulation of thrombin receptor signaling pathway|negative regulation of transporter activity|positive regulation of endocytosis|positive regulation of inositol phosphate biosynthetic process|positive regulation of peptidyl-serine phosphorylation|positive regulation of protein serine/threonine kinase activity|positive regulation of receptor recycling|positive regulation of release of sequestered calcium ion into cytosol|receptor internalization|regulation of phospholipase activity|response to interferon-gamma|response to interleukin-1|response to iron(II) ion|response to lipopolysaccharide|response to magnesium ion|synaptic vesicle endocytosis	actin cytoskeleton|axon|cell cortex|cell junction|cytosol|fibril|growth cone|nucleus|synapse	alpha-tubulin binding|calcium ion binding|caspase inhibitor activity|dynein binding|ferrous iron binding|histone binding|Hsp70 protein binding|kinesin binding|magnesium ion binding|phosphoprotein binding|tau protein binding|zinc ion binding				0		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;7.42e-05)	Melatonin(DB01065)	TTTTTGACAAAGCCAGTGGCT	0.502000													5	80					0	0	0.001168	0	0	
UNC5C	8633	broad.mit.edu	37	4	96140152	96140152	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:96140152G>A	uc003htp.1	-	9	1767	c.1613C>T	c.(1612-1614)TCG>TTG	p.S538L	UNC5C_uc010ilc.1_Missense_Mutation_p.S557L|UNC5C_uc003htq.2_Missense_Mutation_p.S557L	NM_003728	NP_003719	O95185	UNC5C_HUMAN	unc5C precursor	538	Cytoplasmic (Potential).|ZU5.				apoptosis|axon guidance|brain development	integral to membrane	netrin receptor activity			ovary(3)|pancreas(1)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;8.72e-10)		ACCTCCCAGCGAGTTGAAGCT	0.443000													18	70					0	0	0.008871	0	0	
MANBA	4126	broad.mit.edu	37	4	103557139	103557139	+	Silent	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:103557139A>G	uc003hwg.2	-	15	2140	c.2040T>C	c.(2038-2040)CTT>CTC	p.L680L	MANBA_uc011ces.1_Silent_p.L623L	NM_005908	NP_005899	O00462	MANBA_HUMAN	mannosidase, beta A, lysosomal precursor	680					carbohydrate metabolic process|protein modification process	lysosome	beta-mannosidase activity|cation binding			ovary(1)	1		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;4.44e-08)		CAAAGTAATGAAGCATTTTCC	0.438000													9	42					0	0	0.006214	0	0	
COL25A1	84570	broad.mit.edu	37	4	109740459	109740459	+	Silent	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:109740459T>C	uc003hze.1	-	35	2403	c.1872A>G	c.(1870-1872)AAA>AAG	p.K624K	COL25A1_uc003hzd.2_Intron	NM_198721	NP_942014	Q9BXS0	COPA1_HUMAN	collagen, type XXV, alpha 1 isoform 1	624	Extracellular (Potential).|Collagen-like 7.					collagen|extracellular space	beta-amyloid binding|heparin binding			ovary(2)	2		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000173)		CTGGCTCCCCTTTTTCCCCCT	0.453000													11	79					0	0	0.013537	0	0	
AP1AR	55435	broad.mit.edu	37	4	113189433	113189433	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:113189433G>A	uc003iaj.3	+	10	1130	c.777G>A	c.(775-777)GAG>GAA	p.E259E	AP1AR_uc003iak.3_Silent_p.E226E	NM_018569	NP_061039	Q63HQ0	AP1AR_HUMAN	adaptor-related protein complex 1 associated	259					protein transport	early endosome|Golgi apparatus|late endosome|transport vesicle					0						ATGGGCTGGAGTGGGAAAATG	0.403000													8	51					0	0	0.003080	0	0	
ANK2	287	broad.mit.edu	37	4	114277090	114277090	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:114277090C>T	uc003ibe.3	+	38	7416	c.7316C>T	c.(7315-7317)GCC>GTC	p.A2439V	ANK2_uc003ibd.3_Intron|ANK2_uc003ibf.3_Intron|ANK2_uc011cgc.1_Intron|ANK2_uc003ibg.3_Intron|ANK2_uc003ibh.3_Intron|ANK2_uc011cgd.1_Intron|ANK2_uc011cgb.1_Missense_Mutation_p.A2454V	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	2406					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		TCTCTGGAAGCCAGCCCTGTG	0.527000													17	73					0	0	0.004990	0	0	
PRSS12	8492	broad.mit.edu	37	4	119204068	119204068	+	Silent	SNP	A	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:119204068A>C	uc003ica.1	-	12	2285	c.2238T>G	c.(2236-2238)GTT>GTG	p.V746V		NM_003619	NP_003610	P56730	NETR_HUMAN	neurotrypsin precursor	746	Peptidase S1.					membrane	scavenger receptor activity			skin(1)	1						AGGCTGGCAAAACATGGCTGC	0.473000													5	316					0	0	0.000602	0	0	
KIAA1109	84162	broad.mit.edu	37	4	123120577	123120577	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:123120577G>A	uc003ieh.2	+	12	1397	c.1352G>A	c.(1351-1353)CGG>CAG	p.R451Q	KIAA1109_uc003iei.1_Missense_Mutation_p.R205Q|KIAA1109_uc010ins.1_5'UTR	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	451					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						ATGCAATATCGGACCCTTTTA	0.318000													4	65					0	0	0.000602	0	0	
KIAA1109	84162	broad.mit.edu	37	4	123159371	123159371	+	Silent	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:123159371A>G	uc003ieh.2	+	26	3744	c.3699A>G	c.(3697-3699)TCA>TCG	p.S1233S	KIAA1109_uc003iei.1_Silent_p.S986S|KIAA1109_uc010ins.1_Silent_p.S576S|KIAA1109_uc003iek.2_5'Flank	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	1233	Poly-Ser.				regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						CCTCTTCCTCAGAAGAGAACA	0.408000													6	83					0	0	0.001168	0	0	
FAT4	79633	broad.mit.edu	37	4	126238469	126238469	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:126238469G>T	uc003ifj.3	+	1	903	c.903G>T	c.(901-903)GAG>GAT	p.E301D		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	301	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						TGGACCCTGAGACGGGACTTA	0.667000											OREG0016317	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	46					5.16669e-11	5.80426e-11	0.010729	1	0	
FAT4	79633	broad.mit.edu	37	4	126320048	126320048	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:126320048T>C	uc003ifj.3	+	2	5285	c.5285T>C	c.(5284-5286)CTG>CCG	p.L1762P	FAT4_uc011cgp.1_Missense_Mutation_p.L60P	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	1762	Cadherin 17.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						ATTATGCAGCTGACAGCCATG	0.423000													25	103					0	0	0.007291	0	0	
FAT4	79633	broad.mit.edu	37	4	126329902	126329902	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:126329902C>A	uc003ifj.3	+	4	5873	c.5873C>A	c.(5872-5874)CCT>CAT	p.P1958H	FAT4_uc011cgp.1_Missense_Mutation_p.P256H	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	1958	Cadherin 19.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						GAGAATCTACCTGTGGGATCT	0.289000													15	100					5.03518e-11	5.66689e-11	0.007413	1	0	
FAT4	79633	broad.mit.edu	37	4	126371861	126371861	+	Silent	SNP	G	A	A	rs142877205	by1000genomes	TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:126371861G>A	uc003ifj.3	+	9	9690	c.9690G>A	c.(9688-9690)GCG>GCA	p.A3230A	FAT4_uc011cgp.1_Silent_p.A1528A|FAT4_uc003ifi.1_Silent_p.A708A	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	3230	Cadherin 31.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						CTGTGATTGCGTATACTGTAC	0.428000													11	50					0	0	0.001855	0	0	
HSPA4L	22824	broad.mit.edu	37	4	128748490	128748490	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:128748490A>G	uc003ifm.2	+	17	2330	c.2077A>G	c.(2077-2079)ATG>GTG	p.M693V	HSPA4L_uc011cgr.1_Missense_Mutation_p.M660V	NM_014278	NP_055093	O95757	HS74L_HUMAN	heat shock 70kDa protein 4-like	693					protein folding|response to unfolded protein	cytoplasm|nucleus	ATP binding|protein binding			ovary(2)|central_nervous_system(1)|skin(1)	4						AATGAAGTACATGGAGCATGA	0.323000													5	71					0	0	0.003080	0	0	
PHF17	79960	broad.mit.edu	37	4	129783281	129783281	+	Silent	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:129783281C>A	uc003igk.2	+	9	1684	c.1404C>A	c.(1402-1404)ACC>ACA	p.T468T	PHF17_uc003igj.2_Silent_p.T468T|PHF17_uc003igl.2_Silent_p.T456T|PHF17_uc011cgy.1_Silent_p.T468T|PHF17_uc003igm.2_Silent_p.T468T	NM_199320	NP_955352	Q6IE81	JADE1_HUMAN	PHD finger protein 17 long isoform	468					apoptosis|histone H3 acetylation|histone H4-K12 acetylation|histone H4-K5 acetylation|histone H4-K8 acetylation|negative regulation of cell growth|regulation of transcription, DNA-dependent|response to stress|transcription, DNA-dependent	histone acetyltransferase complex|mitochondrion	protein binding|zinc ion binding				0						CCCTGATCACCCCAAAGAAAG	0.537000													4	112					1.23904e-05	1.32531e-05	0.000602	1	0	
CCRN4L	25819	broad.mit.edu	37	4	139966465	139966465	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:139966465A>G	uc003ihl.2	+	3	1326	c.1133A>G	c.(1132-1134)TAC>TGC	p.Y378C		NM_012118	NP_036250	Q9UK39	NOCT_HUMAN	CCR4 carbon catabolite repression 4-like	378					rhythmic process|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)	1	all_hematologic(180;0.162)					ACCCTGGATTACATCTGGTAT	0.498000													3	87					0	0	0.004672	0	0	
HHIP	64399	broad.mit.edu	37	4	145629358	145629358	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:145629358C>G	uc003ijs.1	+	7	1851	c.1196C>G	c.(1195-1197)ACA>AGA	p.T399R		NM_022475	NP_071920	Q96QV1	HHIP_HUMAN	hedgehog-interacting protein precursor	399						cytoplasm|extracellular region	catalytic activity|protein binding|zinc ion binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.0185)		GATGTGGACACAGACATGTGC	0.463000													12	57					0	0	0.001855	0	0	
NR3C2	4306	broad.mit.edu	37	4	149035413	149035413	+	Splice_Site	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:149035413C>A	uc003ilj.3	-	8	2976	c.2642_splice	c.e8-1	p.I881_splice	NR3C2_uc003ilk.3_Splice_Site_p.I764_splice|NR3C2_uc010iph.2_Splice_Site	NM_000901	NP_000892	P08235	MCR_HUMAN	nuclear receptor subfamily 3, group C, member 2						regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	endoplasmic reticulum membrane|nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			large_intestine(1)	1	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.0614)	Desoxycorticosterone Pivalate(DB01134)|Eplerenone(DB00700)|Fludrocortisone(DB00687)|Spironolactone(DB00421)	TCCTTTGGAACTGTGTTAAGG	0.373000													3	28					0.00024832	0.000262187	0.009096	1	0	
TKTL2	84076	broad.mit.edu	37	4	164394017	164394017	+	Silent	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:164394017T>C	uc003iqp.3	-	1	1031	c.870A>G	c.(868-870)CCA>CCG	p.P290P		NM_032136	NP_115512	Q9H0I9	TKTL2_HUMAN	transketolase-like 2	290						cytoplasm	metal ion binding|transketolase activity			ovary(2)|skin(2)|pancreas(1)	5	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)				CAGGCGATTTTGGTATGAGAT	0.284000													42	152					0	0	0.010771	0	0	
ADAM29	11086	broad.mit.edu	37	4	175898280	175898280	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:175898280G>A	uc003iuc.2	+	5	2274	c.1604G>A	c.(1603-1605)GGT>GAT	p.G535D	ADAM29_uc003iud.2_Missense_Mutation_p.G535D|ADAM29_uc010irr.2_Missense_Mutation_p.G535D|ADAM29_uc011cki.1_Missense_Mutation_p.G535D	NM_014269	NP_055084	Q9UKF5	ADA29_HUMAN	ADAM metallopeptidase domain 29 preproprotein	535	Cys-rich.|Extracellular (Potential).				proteolysis|spermatogenesis	integral to plasma membrane	metalloendopeptidase activity|zinc ion binding			skin(5)|central_nervous_system(3)|ovary(3)|large_intestine(2)|lung(2)|pancreas(1)	16		Breast(14;0.00908)|Melanoma(52;0.00951)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;3.08e-19)|Epithelial(43;6.24e-18)|OV - Ovarian serous cystadenocarcinoma(60;1.78e-09)|STAD - Stomach adenocarcinoma(60;0.00303)|GBM - Glioblastoma multiforme(59;0.0106)|LUSC - Lung squamous cell carcinoma(193;0.0286)		GGTCACTGTGGTATCAAAAAT	0.393000													16	71					0	0	0.004007	0	0	
ODZ3	55714	broad.mit.edu	37	4	183658156	183658156	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:183658156T>G	uc003ivd.1	+	16	3200	c.3163T>G	c.(3163-3165)TTG>GTG	p.L1055V	ODZ3_uc003ive.1_Missense_Mutation_p.L461V	NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	1055	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)		CTCACCAAACTTGGCCTATAC	0.373000													38	130					0	0	0.004878	0	0	
MTNR1A	4543	broad.mit.edu	37	4	187455686	187455686	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:187455686C>T	uc003izd.1	-	2	228	c.210G>A	c.(208-210)GCG>GCA	p.A70A		NM_005958	NP_005949	P48039	MTR1A_HUMAN	melatonin receptor 1A	70	Helical; Name=2; (Potential).				circadian rhythm|G-protein signaling, coupled to cyclic nucleotide second messenger|mating behavior	integral to plasma membrane	melatonin receptor activity			ovary(1)|skin(1)|breast(1)|central_nervous_system(1)|pancreas(1)	5		all_cancers(14;6.39e-56)|all_epithelial(14;1.48e-41)|all_lung(41;2.45e-15)|Lung NSC(41;7.26e-15)|Melanoma(20;1.91e-06)|Hepatocellular(41;0.00335)|Prostate(90;0.00996)|all_hematologic(60;0.014)|Colorectal(36;0.0161)|Renal(120;0.0183)|all_neural(102;0.202)		OV - Ovarian serous cystadenocarcinoma(60;7.63e-12)|BRCA - Breast invasive adenocarcinoma(30;6.68e-07)|GBM - Glioblastoma multiforme(59;3.44e-05)|LUSC - Lung squamous cell carcinoma(40;0.000106)|STAD - Stomach adenocarcinoma(60;0.000279)|READ - Rectum adenocarcinoma(43;0.159)	Melatonin(DB01065)|Ramelteon(DB00980)	GGTCTGCCACCGCTAAGCTCA	0.458000													8	61					0	0	0.003080	0	0	
SLC12A7	10723	broad.mit.edu	37	5	1052501	1052501	+	Missense_Mutation	SNP	G	A	A	rs145103734		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:1052501G>A	uc003jbu.2	-	24	3292	c.3226C>T	c.(3226-3228)CGG>TGG	p.R1076W		NM_006598	NP_006589	Q9Y666	S12A7_HUMAN	solute carrier family 12 (potassium/chloride	1076	Cytoplasmic (Potential).				potassium ion transport|sodium ion transport	integral to plasma membrane	potassium:chloride symporter activity			skin(2)|large_intestine(1)|ovary(1)	4	Lung NSC(6;2.47e-13)|all_lung(6;1.67e-12)|all_epithelial(6;5.44e-09)		Epithelial(17;0.000497)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|all cancers(22;0.00241)|Lung(60;0.165)		Potassium Chloride(DB00761)	ATCACCTCCCGGCCGCCACCC	0.607000													30	118					0	0	0.009535	0	0	
SLC12A7	10723	broad.mit.edu	37	5	1081737	1081737	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:1081737C>T	uc003jbu.2	-	9	1318	c.1252G>A	c.(1252-1254)GCC>ACC	p.A418T		NM_006598	NP_006589	Q9Y666	S12A7_HUMAN	solute carrier family 12 (potassium/chloride	418	Helical; (Potential).				potassium ion transport|sodium ion transport	integral to plasma membrane	potassium:chloride symporter activity			skin(2)|large_intestine(1)|ovary(1)	4	Lung NSC(6;2.47e-13)|all_lung(6;1.67e-12)|all_epithelial(6;5.44e-09)		Epithelial(17;0.000497)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|all cancers(22;0.00241)|Lung(60;0.165)		Potassium Chloride(DB00761)	GTGAAGGAGGCCGCGATGTCG	0.552000													13	78					0	0	0.004990	0	0	
SLC6A19	340024	broad.mit.edu	37	5	1212545	1212545	+	Silent	SNP	C	T	T	rs149582176		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:1212545C>T	uc003jbw.3	+	4	665	c.609C>T	c.(607-609)TGC>TGT	p.C203C		NM_001003841	NP_001003841	Q695T7	S6A19_HUMAN	solute carrier family 6, member 19	203	Helical; Name=4; (Potential).				cellular nitrogen compound metabolic process	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity				0	all_cancers(3;3.55e-15)|Lung NSC(6;2.89e-14)|all_lung(6;2.2e-13)|all_epithelial(6;3.75e-10)		Epithelial(17;0.000356)|all cancers(22;0.00137)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|Lung(60;0.185)			GCCTGGCCTGCGCATGGAGCG	0.642000													21	119					0	0	0.002780	0	0	
FASTKD3	79072	broad.mit.edu	37	5	7861317	7861317	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:7861317C>T	uc003jeb.2	-	6	1966	c.1829G>A	c.(1828-1830)GGG>GAG	p.G610E	FASTKD3_uc011cmp.1_Missense_Mutation_p.G312E|FASTKD3_uc003jec.2_RNA	NM_024091	NP_076996	Q14CZ7	FAKD3_HUMAN	FAST kinase domains 3	610	RAP.				apoptosis|cellular respiration	mitochondrion	ATP binding|protein kinase activity			ovary(2)|breast(1)|pancreas(1)	4						AGCTTCTTTCCCCAGTAAGTG	0.323000													6	69					0	0	0.001168	0	0	
FASTKD3	79072	broad.mit.edu	37	5	7868079	7868079	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:7868079G>A	uc003jeb.2	-	2	255	c.118C>T	c.(118-120)CGT>TGT	p.R40C	FASTKD3_uc011cmp.1_5'UTR|FASTKD3_uc003jec.2_Intron|MTRR_uc010itn.1_5'Flank|MTRR_uc003jee.3_5'Flank|MTRR_uc003jed.2_5'Flank|MTRR_uc003jef.3_5'Flank|MTRR_uc003jeg.3_5'Flank|MTRR_uc010ito.2_5'Flank	NM_024091	NP_076996	Q14CZ7	FAKD3_HUMAN	FAST kinase domains 3	40					apoptosis|cellular respiration	mitochondrion	ATP binding|protein kinase activity			ovary(2)|breast(1)|pancreas(1)	4						GGGCACAGACGCTCCTTGACT	0.408000													24	97					0	0	0.004656	0	0	
SEMA5A	9037	broad.mit.edu	37	5	9054362	9054362	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:9054362G>A	uc003jek.2	-	19	3238	c.2526C>T	c.(2524-2526)GGC>GGT	p.G842G		NM_003966	NP_003957	Q13591	SEM5A_HUMAN	semaphorin 5A precursor	842	TSP type-1 6.|Extracellular (Potential).				cell adhesion|cell-cell signaling	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)	2						AAGACCACACGCCATCCACTG	0.493000													6	36					0	0	0.003080	0	0	
DNAH5	1767	broad.mit.edu	37	5	13700841	13700841	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:13700841C>T	uc003jfd.2	-	78	13673	c.13631G>A	c.(13630-13632)GGC>GAC	p.G4544D	DNAH5_uc003jfc.2_Missense_Mutation_p.G712D	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	4544					microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					CTTGTCCCAGCCAGCACCTTC	0.428000									Kartagener_syndrome				36	143					0	0	0.004878	0	0	
PTGER4	5734	broad.mit.edu	37	5	40692308	40692308	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:40692308G>A	uc003jlz.2	+	3	1887	c.1295G>A	c.(1294-1296)AGG>AAG	p.R432K		NM_000958	NP_000949	P35408	PE2R4_HUMAN	prostaglandin E receptor 4, subtype EP4	432	Cytoplasmic (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger|immune response	integral to membrane|plasma membrane	prostaglandin E receptor activity			lung(2)	2						ACCTCACTGAGGACTTTGCGA	0.577000													3	53					0	0	0.004672	0	0	
MIER3	166968	broad.mit.edu	37	5	56219756	56219756	+	Silent	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:56219756A>G	uc003jrd.1	-	11	1063	c.1038T>C	c.(1036-1038)CAT>CAC	p.H346H	MIER3_uc003jqz.1_Silent_p.H283H|MIER3_uc003jra.1_Silent_p.H345H|MIER3_uc003jrb.1_Silent_p.H170H|MIER3_uc003jrc.1_Silent_p.H351H	NM_152622	NP_689835	Q7Z3K6	MIER3_HUMAN	mesoderm induction early response 1, family	346					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0		Lung NSC(810;4.65e-05)|Prostate(74;0.0253)|Breast(144;0.0503)|Ovarian(174;0.223)		OV - Ovarian serous cystadenocarcinoma(10;1.24e-37)		CTCCAGGGTGATGGTTATATC	0.368000													18	75					0	0	0.007413	0	0	
CD180	4064	broad.mit.edu	37	5	66478959	66478959	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:66478959G>A	uc003juy.2	-	3	1860	c.1712C>T	c.(1711-1713)ACC>ATC	p.T571I		NM_005582	NP_005573	Q99467	CD180_HUMAN	CD180 molecule precursor	571	Extracellular (Potential).				inflammatory response|innate immune response	integral to membrane|plasma membrane	receptor activity			ovary(1)	1		Lung NSC(167;4.94e-05)|Prostate(74;0.00601)|Ovarian(174;0.0654)|Breast(144;0.198)|Colorectal(97;0.234)		Lung(70;0.0046)		TAAATTAATGGTGCTCTGCTG	0.453000													7	52					0	0	0.003080	0	0	
CD180	4064	broad.mit.edu	37	5	66480342	66480342	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:66480342C>T	uc003juy.2	-	3	477	c.329G>A	c.(328-330)GGA>GAA	p.G110E		NM_005582	NP_005573	Q99467	CD180_HUMAN	CD180 molecule precursor	110	LRR 3.|Extracellular (Potential).				inflammatory response|innate immune response	integral to membrane|plasma membrane	receptor activity			ovary(1)	1		Lung NSC(167;4.94e-05)|Prostate(74;0.00601)|Ovarian(174;0.0654)|Breast(144;0.198)|Colorectal(97;0.234)		Lung(70;0.0046)		CAGGGGATTTCCAGTTAACAC	0.368000													5	102					0	0	0.000602	0	0	
RASA1	5921	broad.mit.edu	37	5	86672770	86672770	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:86672770G>A	uc003kiw.2	+	17	2375	c.2257G>A	c.(2257-2259)GCC>ACC	p.A753T	RASA1_uc010jav.2_RNA|RASA1_uc003kix.2_Missense_Mutation_p.A576T|RASA1_uc011ctv.1_Missense_Mutation_p.A586T|RASA1_uc011ctw.1_Missense_Mutation_p.A587T|RASA1_uc010jaw.2_Missense_Mutation_p.A575T	NM_002890	NP_002881	P20936	RASA1_HUMAN	RAS p21 protein activator 1 isoform 1	753	Ras-GAP.				cytokinesis|embryo development|intracellular signal transduction|negative regulation of cell-matrix adhesion|negative regulation of neuron apoptosis|negative regulation of Ras protein signal transduction|positive regulation of anti-apoptosis|regulation of actin filament polymerization|regulation of cell shape|regulation of RNA metabolic process|vasculogenesis	cytosol|intrinsic to internal side of plasma membrane	glycoprotein binding|GTPase binding|potassium channel inhibitor activity|Ras GTPase activator activity|receptor binding			upper_aerodigestive_tract(3)|ovary(1)|lung(1)	5		all_cancers(142;8.25e-07)|Lung NSC(167;0.000185)|all_lung(232;0.000222)|Colorectal(57;0.00542)|Ovarian(174;0.0423)		OV - Ovarian serous cystadenocarcinoma(54;4.72e-41)|Epithelial(54;1.51e-36)|all cancers(79;3.76e-31)		AACACTACTGGCCAGCATCCT	0.373000													5	71					0	0	0.001168	0	0	
APC	324	broad.mit.edu	37	5	112178333	112178333	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:112178333A>G	uc010jby.2	+	16	7422	c.7042A>G	c.(7042-7044)ACA>GCA	p.T2348A	APC_uc011cvt.1_Missense_Mutation_p.T2330A|APC_uc003kpz.3_Missense_Mutation_p.T2348A|APC_uc003kpy.3_Missense_Mutation_p.T2348A|APC_uc010jbz.2_Missense_Mutation_p.T2065A|APC_uc010jca.2_Missense_Mutation_p.T1648A	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	2348	Ser-rich.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.?(1)		large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		ACTTCCAAGGACATCATCCCC	0.423000		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			3	88					0	0	0.004672	0	0	
SRP19	6728	broad.mit.edu	37	5	112227455	112227455	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:112227455T>G	uc011cvv.1	+	4	449	c.194T>G	c.(193-195)CTT>CGT	p.L65R	SRP19_uc011cvu.1_Missense_Mutation_p.L50R|REEP5_uc011cvw.1_Intron|REEP5_uc003kqe.1_Intron|REEP5_uc011cvx.1_Intron|REEP5_uc011cvy.1_Intron|REEP5_uc011cvz.1_Intron			P09132	SRP19_HUMAN	SubName: Full=Zinc finger (CCCH type), RNA-binding motif and serine/arginine rich 2;	Error:Variant_position_missing_in_P09132_after_alignment					response to drug|SRP-dependent cotranslational protein targeting to membrane	cytosol|mitochondrion|nucleolus|signal recognition particle, endoplasmic reticulum targeting	7S RNA binding				0		all_cancers(142;0.00328)|all_epithelial(76;6.39e-05)|Prostate(80;0.00174)|Colorectal(10;0.00372)|Ovarian(225;0.156)		Epithelial(69;1.7e-09)|OV - Ovarian serous cystadenocarcinoma(64;1.17e-08)|all cancers(49;3.96e-07)|Colorectal(14;0.0056)|COAD - Colon adenocarcinoma(37;0.0104)		CGGCAGGAACTTGCTCGACTG	0.463000													19	53					0	0	0.008871	0	0	
CDKL3	51265	broad.mit.edu	37	5	133644013	133644013	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:133644013T>C	uc003kzf.3	-	9	1299	c.1180A>G	c.(1180-1182)ATG>GTG	p.M394V	CDKL3_uc011cxm.1_Missense_Mutation_p.M201V|CDKL3_uc011cxn.1_RNA|CDKL3_uc010jdw.2_Missense_Mutation_p.M1V|CDKL3_uc011cxo.1_Missense_Mutation_p.M99V|CDKL3_uc011cxp.1_Missense_Mutation_p.M99V|CDKL3_uc011cxq.1_Missense_Mutation_p.M201V|CDKL3_uc003kzg.3_Missense_Mutation_p.M394V	NM_001113575	NP_001107047	Q8IVW4	CDKL3_HUMAN	cyclin-dependent kinase-like 3 isoform 1	394						cytoplasm	ATP binding|cyclin-dependent protein kinase activity			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			TCTGGAGACATAGGATGAACA	0.393000													4	73					0	0	0.000602	0	0	
PCDHA6	56142	broad.mit.edu	37	5	140209182	140209182	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:140209182C>T	uc003lho.2	+	1	1533	c.1506C>T	c.(1504-1506)CGC>CGT	p.R502R	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Silent_p.R502R|PCDHA6_uc011dab.1_Silent_p.R502R	NM_018909	NP_061732	Q9UN73	PCDA6_HUMAN	protocadherin alpha 6 isoform 1 precursor	502	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			haematopoietic_and_lymphoid_tissue(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGGGCGAGCGCGCGTTGTCGA	0.672000													4	107					0	0	0.009096	0	0	
PCDHA7	56141	broad.mit.edu	37	5	140214268	140214268	+	Silent	SNP	G	A	A	rs151308899		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:140214268G>A	uc003lhq.2	+	1	300	c.300G>A	c.(298-300)GCG>GCA	p.A100A	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc011dac.1_Silent_p.A100A	NM_018910	NP_061733	Q9UN72	PCDA7_HUMAN	protocadherin alpha 7 isoform 1 precursor	100	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGCGGAGCGCGGAGTGCAGCA	0.557000													12	396					0	0	0.004990	0	0	
PCDHA8	56140	broad.mit.edu	37	5	140223021	140223021	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:140223021C>T	uc003lhs.2	+	1	2115	c.2115C>T	c.(2113-2115)TGC>TGT	p.C705C	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhr.1_Silent_p.C705C	NM_018911	NP_061734	Q9Y5H6	PCDA8_HUMAN	protocadherin alpha 8 isoform 1 precursor	705	Helical; (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCGCCATCTGCGCGGTATCCA	0.662000													43	31					0	0	0.009718	0	0	
PCDHA11	56138	broad.mit.edu	37	5	140250465	140250465	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:140250465G>A	uc003lia.2	+	1	2635	c.1777G>A	c.(1777-1779)GTG>ATG	p.V593M	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc011dae.1_Missense_Mutation_p.V593M	NM_018902	NP_061725	Q9Y5I1	PCDAB_HUMAN	protocadherin alpha 11 isoform 1 precursor	593	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGTGGCGAAGGTGCGCGCAGT	0.682000													39	139					0	0	0.007835	0	0	
PCDHB13	56123	broad.mit.edu	37	5	140595915	140595915	+	Silent	SNP	C	T	T	rs141051000		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:140595915C>T	uc003lja.1	+	1	2407	c.2220C>T	c.(2218-2220)AGC>AGT	p.S740S		NM_018933	NP_061756	Q9Y5F0	PCDBD_HUMAN	protocadherin beta 13 precursor	740	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TGGACATGAGCGGCACCAGGA	0.617000													8	188					0	0	0.003080	0	0	
PCDHGA5	56110	broad.mit.edu	37	5	140746310	140746310	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:140746310C>T	uc003lju.1	+	1	2413	c.2413C>T	c.(2413-2415)CGA>TGA	p.R805*	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc011das.1_Nonsense_Mutation_p.R805*	NM_018918	NP_061741	Q9Y5G8	PCDG5_HUMAN	protocadherin gamma subfamily A, 5 isoform 1	805	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding	p.R805*(1)		ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGAAGAACGGCGAGTTCAGGT	0.418000													5	169					0	0	0.000602	0	0	
PCDHGB3	56102	broad.mit.edu	37	5	140750133	140750133	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:140750133G>A	uc003ljw.1	+	1	172	c.172G>A	c.(172-174)GTG>ATG	p.V58M	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc011dat.1_Missense_Mutation_p.V58M	NM_018924	NP_061747	Q9Y5G1	PCDGF_HUMAN	protocadherin gamma subfamily B, 3 isoform 1	58	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGGGTTTGGCGTGGGGGATTT	0.547000													10	169					0	0	0.006214	0	0	
PCDHGB6	56100	broad.mit.edu	37	5	140789324	140789324	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:140789324G>A	uc003lkj.1	+	1	1555	c.1555G>A	c.(1555-1557)GCC>ACC	p.A519T	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lki.1_Missense_Mutation_p.A519T	NM_018926	NP_061749	Q9Y5F9	PCDGI_HUMAN	protocadherin gamma subfamily B, 6 isoform 1	519	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGCGCAGCGCGCCTTTGATCA	0.667000													6	42					0	0	0.004482	0	0	
PCDHGB6	56100	broad.mit.edu	37	5	140789386	140789386	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:140789386G>A	uc003lkj.1	+	1	1617	c.1617G>A	c.(1615-1617)TCG>TCA	p.S539S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lki.1_Silent_p.S539S	NM_018926	NP_061749	Q9Y5F9	PCDGI_HUMAN	protocadherin gamma subfamily B, 6 isoform 1	539	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACCACGGCTCGCCCACGCTCA	0.701000													6	22					0	0	0.001168	0	0	
PCDHGA10	56106	broad.mit.edu	37	5	140793850	140793850	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:140793850G>A	uc003lkl.1	+	1	1108	c.1108G>A	c.(1108-1110)GTA>ATA	p.V370I	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc011day.1_Missense_Mutation_p.V370I	NM_018913	NP_061736	Q9Y5H3	PCDGA_HUMAN	protocadherin gamma subfamily A, 10 isoform 1	370	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGGAACAGTCGTAGCCCTTTT	0.403000													10	30					0	0	0.008291	0	0	
PCDHGC3	5098	broad.mit.edu	37	5	140856242	140856242	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:140856242C>T	uc003lkv.1	+	1	674	c.559C>T	c.(559-561)CGG>TGG	p.R187W	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc003lkt.1_Intron|PCDHGC3_uc003lku.1_Missense_Mutation_p.R187W|PCDHGC3_uc003lkw.1_Intron	NM_002588	NP_002579	Q9UN70	PCDGK_HUMAN	protocadherin gamma subfamily C, 3 isoform 1	187	Cadherin 2.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGTGCAGACGCGGGAGGACAG	0.597000													19	50					0	0	0.007413	0	0	
DIAPH1	1729	broad.mit.edu	37	5	140908744	140908744	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:140908744C>T	uc003llb.3	-	22	2914	c.2773G>A	c.(2773-2775)GTG>ATG	p.V925M	DIAPH1_uc011dbd.1_5'Flank|DIAPH1_uc003llc.3_Missense_Mutation_p.V916M|DIAPH1_uc010jgc.1_Missense_Mutation_p.V361M	NM_005219	NP_005210	O60610	DIAP1_HUMAN	diaphanous 1 isoform 1	925	FH2.				regulation of microtubule-based process|sensory perception of sound	cytoplasm|cytoskeleton|ruffle membrane	actin binding|receptor binding|Rho GTPase binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTCACCACCACGCCAAACTGC	0.512000													4	100					0	0	0.000602	0	0	
LARS	51520	broad.mit.edu	37	5	145552290	145552290	+	Missense_Mutation	SNP	C	T	T	rs148510496	byFrequency	TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:145552290C>T	uc003lnx.1	-	3	411	c.173G>A	c.(172-174)CGC>CAC	p.R58H	LARS_uc011dbq.1_Missense_Mutation_p.R58H|LARS_uc011dbr.1_Missense_Mutation_p.R4H|LARS_uc011dbs.1_Missense_Mutation_p.R58H	NM_020117	NP_064502	Q9P2J5	SYLC_HUMAN	leucyl-tRNA synthetase	58	HIGH region.				leucyl-tRNA aminoacylation	cytosol	ATP binding|leucine-tRNA ligase activity|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		L-Leucine(DB00149)	CAAATGAAGGCGTCCATTCAT	0.348000													4	17					0	0	0.000602	0	0	
ADRB2	154	broad.mit.edu	37	5	148206748	148206748	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:148206748G>A	uc003lpr.1	+	1	593	c.354G>A	c.(352-354)ACG>ACA	p.T118T	SH3TC2_uc003lpp.1_Intron	NM_000024	NP_000015	P07550	ADRB2_HUMAN	adrenergic, beta-2-, receptor, surface	118	Helical; Name=3.	Agonist or antagonist.			activation of transmembrane receptor protein tyrosine kinase activity|desensitization of G-protein coupled receptor protein signaling pathway by arrestin|endosome to lysosome transport|positive regulation of MAPKKK cascade|receptor-mediated endocytosis	endosome|integral to plasma membrane|lysosome|receptor complex	beta2-adrenergic receptor activity|norepinephrine binding|potassium channel regulator activity|protein homodimerization activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		Alprenolol(DB00866)|Arformoterol(DB01274)|Bambuterol(DB01408)|Bisoprolol(DB00612)|Bitolterol(DB00901)|Bretylium(DB01158)|Carteolol(DB00521)|Carvedilol(DB01136)|Clenbuterol(DB01407)|Desipramine(DB01151)|Epinephrine(DB00668)|Fenoterol(DB01288)|Formoterol(DB00983)|Isoproterenol(DB01064)|Labetalol(DB00598)|Levobunolol(DB01210)|Metipranolol(DB01214)|Nadolol(DB01203)|Norepinephrine(DB00368)|Orciprenaline(DB00816)|Oxprenolol(DB01580)|Penbutolol(DB01359)|Pindolol(DB00960)|Pirbuterol(DB01291)|Procaterol(DB01366)|Propranolol(DB00571)|Pseudoephedrine(DB00852)|Ritodrine(DB00867)|Salbutamol(DB01001)|Salmeterol(DB00938)|Terbutaline(DB00871)|Timolol(DB00373)	TGTGCGTCACGGCCAGCATTG	0.522000													36	90					0	0	0.005524	0	0	
FAT2	2196	broad.mit.edu	37	5	150934154	150934154	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:150934154A>T	uc003lue.3	-	4	3727	c.3714T>A	c.(3712-3714)AAT>AAA	p.N1238K	GM2A_uc011dcs.1_Intron	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	1238	Extracellular (Potential).|Cadherin 10.				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)			ATATAGGTGGATTGTCATTGA	0.562000													24	123					0	0	0.005443	0	0	
CCNJL	79616	broad.mit.edu	37	5	159680577	159680577	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:159680577C>T	uc003lyb.1	-	7	1368	c.1116G>A	c.(1114-1116)GGG>GGA	p.G372G	CCNJL_uc011dee.1_Silent_p.G324G|CCNJL_uc003lyc.1_RNA	NM_024565	NP_078841	Q8IV13	CCNJL_HUMAN	cyclin J-like	372						nucleus					0	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.116)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			AGCCTGTACTCCCCGAGAGCA	0.627000													5	75					0	0	0.000602	0	0	
ODZ2	57451	broad.mit.edu	37	5	167489118	167489118	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:167489118C>T	uc010jjd.2	+	7	1363	c.1363C>T	c.(1363-1365)CGG>TGG	p.R455W	ODZ2_uc003lzq.2_Missense_Mutation_p.R334W|ODZ2_uc003lzr.3_Missense_Mutation_p.R223W	NM_001122679	NP_001116151			odz, odd Oz/ten-m homolog 2											ovary(6)|central_nervous_system(4)	10	Renal(175;0.00124)|Lung NSC(126;0.136)|all_lung(126;0.242)	Medulloblastoma(196;0.0241)|all_neural(177;0.026)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0444)|OV - Ovarian serous cystadenocarcinoma(192;0.0694)|Epithelial(171;0.124)		AGAAGTTGGTCGGCGGGTAAC	0.458000													6	48					0	0	0.001168	0	0	
C5orf41	153222	broad.mit.edu	37	5	172513527	172513527	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:172513527G>A	uc003mch.2	+	3	337	c.33G>A	c.(31-33)CCG>CCA	p.P11P	C5orf41_uc003mcg.2_Silent_p.P11P|C5orf41_uc003mcf.2_Silent_p.P11P|C5orf41_uc011dfd.1_Silent_p.P11P	NM_153607	NP_705835	Q8IUR6	CE041_HUMAN	luman-recruiting factor	11							protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Renal(175;0.000159)|Lung NSC(126;0.00223)|all_lung(126;0.00391)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			GAATGGATCCGCCTTTCGGGG	0.428000													22	79					0	0	0.012319	0	0	
CDHR2	54825	broad.mit.edu	37	5	176018287	176018287	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:176018287C>A	uc003mem.1	+	29	3682	c.3616C>A	c.(3616-3618)CCT>ACT	p.P1206T	CDHR2_uc003men.1_Missense_Mutation_p.P1206T	NM_017675	NP_060145	Q9BYE9	CDHR2_HUMAN	protocadherin LKC precursor	1206	Cytoplasmic (Potential).				homophilic cell adhesion|negative regulation of cell growth	apical plasma membrane|cell junction|integral to membrane	calcium ion binding|protein binding			ovary(2)	2						GCCCTCAGCCCCTGCCATCCC	0.602000													15	51					1.99824e-07	2.19271e-07	0.004990	1	0	
NSD1	64324	broad.mit.edu	37	5	176687028	176687028	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:176687028C>T	uc003mfr.3	+	14	5143	c.5005C>T	c.(5005-5007)CAC>TAC	p.H1669Y	NSD1_uc003mft.3_Missense_Mutation_p.H1400Y|NSD1_uc003mfs.1_Missense_Mutation_p.H1566Y|NSD1_uc011dfx.1_Missense_Mutation_p.H1317Y	NM_022455	NP_071900	Q96L73	NSD1_HUMAN	nuclear receptor binding SET domain protein 1	1669					negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	androgen receptor binding|chromatin binding|estrogen receptor binding|histone methyltransferase activity (H3-K36 specific)|histone methyltransferase activity (H4-K20 specific)|ligand-dependent nuclear receptor binding|retinoid X receptor binding|thyroid hormone receptor binding|transcription corepressor activity|zinc ion binding			ovary(2)|kidney(1)	3	all_cancers(89;1.57e-05)|Renal(175;0.000269)|Lung NSC(126;0.00111)|all_lung(126;0.002)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.198)	Kidney(146;0.235)		TGTGGCATACCACGCCAATGA	0.448000			T	NUP98	AML		Sotos Syndrome		Beckwith-Wiedemann_syndrome|Sotos_syndrome|Weaver_syndrome	HNSCC(47;0.14)			6	114					0	0	0.003080	0	0	
DBN1	1627	broad.mit.edu	37	5	176885640	176885640	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:176885640C>T	uc003mgy.2	-	12	1367	c.1195G>A	c.(1195-1197)GGC>AGC	p.G399S	DBN1_uc011dga.1_Missense_Mutation_p.G131S|DBN1_uc003mgx.2_Missense_Mutation_p.G401S|DBN1_uc010jkn.1_Missense_Mutation_p.G349S|DBN1_uc003mgz.1_Missense_Mutation_p.G382S	NM_004395	NP_004386	Q16643	DREB_HUMAN	drebrin 1 isoform a	399					actin filament organization|regulation of dendrite development|regulation of neuronal synaptic plasticity	actomyosin|cytoplasm|dendrite	actin binding|profilin binding			breast(3)|ovary(1)|lung(1)|skin(1)	6	all_cancers(89;2.17e-05)|Renal(175;0.000269)|Lung NSC(126;0.0014)|all_lung(126;0.0025)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TCCATGGGGCCGGCCCAGGCC	0.652000													3	27					0	0	0.009096	0	0	
ZNF354A	6940	broad.mit.edu	37	5	178139186	178139186	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:178139186G>A	uc003mjj.2	-	5	1891	c.1693C>T	c.(1693-1695)CGT>TGT	p.R565C		NM_005649	NP_005640	O60765	Z354A_HUMAN	zinc finger protein 354A	565	C2H2-type 12.				regulation of transcription from RNA polymerase II promoter|sensory perception of sound|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|skin(1)	3	all_cancers(89;0.000536)|Renal(175;0.000159)|all_epithelial(37;0.000221)|Lung NSC(126;0.00308)|all_lung(126;0.00536)	all_cancers(40;0.0452)|all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.185)		TGTGCAATACGTGATGAGCTT	0.358000													21	74					0	0	0.014323	0	0	
ADAMTS2	9509	broad.mit.edu	37	5	178540988	178540988	+	Silent	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:178540988A>G	uc003mjw.2	-	22	3516	c.3516T>C	c.(3514-3516)GAT>GAC	p.D1172D	uc003mjv.3_5'Flank	NM_014244	NP_055059	O95450	ATS2_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1172					collagen catabolic process	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4	all_cancers(89;0.000456)|all_epithelial(37;0.000138)|Renal(175;0.000159)|Lung NSC(126;0.00184)|all_lung(126;0.00326)	all_cancers(40;0.00604)|all_neural(177;0.00411)|Medulloblastoma(196;0.00508)|Lung NSC(249;0.0569)|all_lung(500;0.129)|all_hematologic(541;0.211)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	GBM - Glioblastoma multiforme(465;0.0473)		GCTGGACTTCATCTTCCAGGC	0.517000													41	144					0	0	0.007835	0	0	
FLT4	2324	broad.mit.edu	37	5	180055888	180055888	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr5:180055888A>G	uc003mma.3	-	8	1176	c.1097T>C	c.(1096-1098)TTC>TCC	p.F366S	FLT4_uc003mlz.3_Missense_Mutation_p.F366S|FLT4_uc003mmb.1_5'UTR|FLT4_uc011dgy.1_Missense_Mutation_p.F366S|FLT4_uc011dgz.1_3'UTR	NM_002020	NP_002011	P35916	VGFR3_HUMAN	fms-related tyrosine kinase 4 isoform 2	366	Ig-like C2-type 4.|Extracellular (Potential).				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|protein phosphatase binding|vascular endothelial growth factor receptor activity			lung(7)|skin(2)|ovary(2)|stomach(1)|central_nervous_system(1)|breast(1)|kidney(1)	15	all_cancers(89;2.21e-05)|all_epithelial(37;5.29e-06)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00245)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.134)	Sorafenib(DB00398)|Sunitinib(DB01268)	TTACCACTGGAACTCGGGCGG	0.652000									Congenital_Hereditary_Lymphedema				11	40					0	0	0.010729	0	0	
FAM50B	26240	broad.mit.edu	37	6	3850409	3850409	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:3850409T>G	uc003mvu.2	+	2	476	c.364T>G	c.(364-366)TTT>GTT	p.F122V		NM_012135	NP_036267	Q9Y247	FA50B_HUMAN	family with sequence similarity 50, member B	122						nucleus				pancreas(1)	1	Ovarian(93;0.0925)	all_hematologic(90;0.108)				CTGCCTGTCCTTTGCACTAGA	0.517000													19	55					0	0	0.008871	0	0	
NEDD9	4739	broad.mit.edu	37	6	11185718	11185718	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:11185718C>T	uc003mzv.2	-	7	2349	c.2182G>A	c.(2182-2184)GCA>ACA	p.A728T	NEDD9_uc010joz.2_Missense_Mutation_p.A728T|NEDD9_uc003mzw.3_Missense_Mutation_p.A582T	NM_006403	NP_006394	Q14511	CASL_HUMAN	neural precursor cell expressed, developmentally	728	Divergent helix-loop-helix motif.				actin filament bundle assembly|cell adhesion|cell division|integrin-mediated signaling pathway|mitosis|regulation of growth	cell cortex|focal adhesion|Golgi apparatus|lamellipodium|nucleus	protein binding				0	Breast(50;0.0768)|Ovarian(93;0.152)	all_hematologic(90;0.135)	Epithelial(50;0.0647)|all cancers(50;0.179)			CTGAAGAGTGCGTCAATGGCG	0.517000													22	99					0	0	0.014323	0	0	
LRRC16A	55604	broad.mit.edu	37	6	25492198	25492198	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:25492198G>A	uc011djw.1	+	15	1542	c.1166G>A	c.(1165-1167)GGA>GAA	p.G389E	LRRC16A_uc010jpx.2_Missense_Mutation_p.G389E|LRRC16A_uc010jpy.2_Missense_Mutation_p.G389E	NM_017640	NP_060110	Q5VZK9	LR16A_HUMAN	leucine rich repeat containing 16A	389					actin filament organization|blood coagulation|cell migration|lamellipodium assembly|ruffle organization|urate metabolic process	cytosol|lamellipodium|nucleus				ovary(1)|breast(1)|central_nervous_system(1)|pancreas(1)	4						CTTCTCCGTGGATGCCTTCAA	0.418000													4	50					0	0	0.000602	0	0	
SLC17A2	10246	broad.mit.edu	37	6	25924033	25924033	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:25924033C>T	uc011dkb.1	-	2	213	c.130G>A	c.(130-132)GCC>ACC	p.A44T	SLC17A2_uc011dkc.1_Missense_Mutation_p.A44T|SLC17A2_uc003nfl.2_Missense_Mutation_p.A44T			O00624	NPT3_HUMAN	SubName: Full=Solute carrier family 17 (Sodium phosphate), member 2, isoform CRA_b; SubName: Full=Putative uncharacterized protein SLC17A2;	44					phosphate metabolic process	integral to plasma membrane|membrane fraction	sodium:phosphate symporter activity			ovary(1)	1						TTCACCATGGCGATGATCGCA	0.478000													7	126					0	0	0.001984	0	0	
HIST1H3E	8353	broad.mit.edu	37	6	26225388	26225388	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:26225388G>A	uc003nhb.2	+	2	366	c.6G>A	c.(4-6)GCG>GCA	p.A2A	HIST1H3E_uc003nhc.3_Silent_p.A2A	NM_021018	NP_066298	P68431	H31_HUMAN	histone cluster 1, H3f	2					blood coagulation|nucleosome assembly|regulation of gene silencing|S phase	nucleoplasm|nucleosome	DNA binding|protein binding				0		all_hematologic(11;0.0223)|Acute lymphoblastic leukemia(11;0.0351)				GAACTATGGCGCGTACTAAGC	0.532000													15	118					0	0	0.002450	0	0	
BTN3A1	11119	broad.mit.edu	37	6	26413715	26413715	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:26413715A>C	uc003nhv.2	+	10	1705	c.1337A>C	c.(1336-1338)GAG>GCG	p.E446A	BTN3A1_uc011dkj.1_3'UTR|BTN3A1_uc011dkk.1_Missense_Mutation_p.E394A|BTN3A1_uc010jqj.2_3'UTR	NM_007048	NP_008979	O00481	BT3A1_HUMAN	butyrophilin, subfamily 3, member A1 isoform a	446	Cytoplasmic (Potential).|B30.2/SPRY.				lipid metabolic process	integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2						ACTCTAACTGAGCCCAGAACC	0.468000													30	114					0	0	0.008361	0	0	
HIST1H2AL	8332	broad.mit.edu	37	6	27833264	27833264	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:27833264C>T	uc003njw.2	+	1	158	c.132C>T	c.(130-132)GTC>GTT	p.V44V		NM_003511	NP_003502	P0C0S8	H2A1_HUMAN	histone cluster 1, H2al	44					nucleosome assembly	nucleosome|nucleus	DNA binding|enzyme binding				0						CTGAGCGGGTCGGGGCCGGCG	0.692000													23	129					0	0	0.002780	0	0	
NKAPL	222698	broad.mit.edu	37	6	28227239	28227239	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:28227239G>A	uc003nkt.2	+	1	142	c.90G>A	c.(88-90)CCG>CCA	p.P30P	ZKSCAN4_uc011dlb.1_5'Flank	NM_001007531	NP_001007532	Q5M9Q1	NKAPL_HUMAN	NFKB activating protein-like	30										upper_aerodigestive_tract(1)|ovary(1)	2						CACCATCCCCGCAGAGCAGAT	0.657000													16	52					0	0	0.004007	0	0	
TRIM10	10107	broad.mit.edu	37	6	30121851	30121851	+	Silent	SNP	A	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:30121851A>C	uc003npo.3	-	7	1417	c.1341T>G	c.(1339-1341)GCT>GCG	p.A447A	TRIM10_uc003npn.2_Intron	NM_006778	NP_006769	Q9UDY6	TRI10_HUMAN	tripartite motif-containing 10 isoform 1	447	B30.2/SPRY.					cytoplasm	zinc ion binding				0						CTCGGGTGACAGCGTTGGTGA	0.607000													10	53					0	0	0.006214	0	0	
PPP1R10	5514	broad.mit.edu	37	6	30572415	30572415	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:30572415C>T	uc003nqn.1	-	12	1604	c.1052G>A	c.(1051-1053)CGT>CAT	p.R351H	PPP1R10_uc010jsc.1_Missense_Mutation_p.R5H	NM_002714	NP_002705	Q96QC0	PP1RA_HUMAN	protein phosphatase 1, regulatory subunit 10	351					protein import into nucleus|transcription, DNA-dependent	PTW/PP1 phosphatase complex	DNA binding|protein phosphatase inhibitor activity|RNA binding|zinc ion binding			ovary(2)|lung(1)|kidney(1)	4						GGTGCCTGGACGGTCTGCGTC	0.542000													20	350					0	0	0.008871	0	0	
TUBB	203068	broad.mit.edu	37	6	30692147	30692147	+	Silent	SNP	C	T	T	rs3873307		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:30692147C>T	uc003nrl.2	+	4	1435	c.1308C>T	c.(1306-1308)TTC>TTT	p.F436F	TUBB_uc003nrk.1_Missense_Mutation_p.R430W|TUBB_uc011dmq.1_Silent_p.F364F	NM_178014	NP_821133	P07437	TBB5_HUMAN	tubulin, beta	436					cellular component movement|G2/M transition of mitotic cell cycle|microtubule-based movement|natural killer cell mediated cytotoxicity|protein polymerization	cytosol|microtubule	GTP binding|GTPase activity|MHC class I protein binding			ovary(1)	1					Colchicine(DB01394)|Vinblastine(DB00570)|Vincristine(DB00541)|Vinorelbine(DB00361)	AGGAGGATTTCGGTGAGGAGG	0.572000													8	55					0	0	0.004482	0	0	
DDR1	780	broad.mit.edu	37	6	30865936	30865936	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:30865936C>T	uc003nrr.2	+	17	2562	c.2303C>T	c.(2302-2304)GCC>GTC	p.A768V	DDR1_uc010jse.2_Missense_Mutation_p.A731V|DDR1_uc003nrq.2_Missense_Mutation_p.A731V|DDR1_uc003nrs.2_Missense_Mutation_p.A768V|DDR1_uc003nrt.2_Missense_Mutation_p.A731V|DDR1_uc011dms.1_Missense_Mutation_p.A749V|DDR1_uc003nru.2_Missense_Mutation_p.A731V|DDR1_uc003nrv.2_Missense_Mutation_p.A774V|DDR1_uc003nrw.1_Missense_Mutation_p.A503V|DDR1_uc003nrz.1_Missense_Mutation_p.A93V	NM_013993	NP_054699	Q08345	DDR1_HUMAN	discoidin domain receptor family, member 1	768	Cytoplasmic (Potential).|Protein kinase.				cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular region|integral to plasma membrane	ATP binding|protein binding|protein binding|transmembrane receptor protein tyrosine kinase activity			lung(4)|central_nervous_system(3)|large_intestine(1)|ovary(1)	9					Imatinib(DB00619)	CGGGACCTGGCCACGCGGAAC	0.562000													5	68					0	0	0.000602	0	0	
C6orf25	80739	broad.mit.edu	37	6	31691611	31691611	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:31691611C>G	uc011doc.1	+	2	257	c.257C>G	c.(256-258)TCC>TGC	p.S86C	LY6G6C_uc003nwh.2_5'Flank|LY6G6C_uc010jtd.2_5'Flank|C6orf25_uc003nwk.2_Missense_Mutation_p.S86C|C6orf25_uc011dod.1_Missense_Mutation_p.S86C|C6orf25_uc011doe.1_Missense_Mutation_p.S86C|C6orf25_uc003nwo.2_Missense_Mutation_p.S86C|C6orf25_uc003nwn.2_Missense_Mutation_p.S86C	NM_138272	NP_612116	O95866	G6B_HUMAN	G6B protein isoform G6b-B precursor	86	Extracellular (Potential).					endoplasmic reticulum|Golgi apparatus|integral to membrane|plasma membrane	heparin binding|receptor activity				0						CGCCTACGCTCCCTGGACTCT	0.672000													38	116					0	0	0.006999	0	0	
VARS	7407	broad.mit.edu	37	6	31752401	31752401	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:31752401T>C	uc003nxe.2	-	11	1861	c.1438A>G	c.(1438-1440)ACC>GCC	p.T480A	VARS_uc011doi.1_RNA	NM_006295	NP_006286	P26640	SYVC_HUMAN	valyl-tRNA synthetase	480					translational elongation|valyl-tRNA aminoacylation	cytosol	ATP binding|protein binding|valine-tRNA ligase activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3					L-Valine(DB00161)	GAGTTGAGGGTGCAGGACCAG	0.612000													4	70					0	0	0.009096	0	0	
TNXB	7148	broad.mit.edu	37	6	32037632	32037632	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:32037632C>T	uc003nzl.2	-	15	5487	c.5285G>A	c.(5284-5286)CGG>CAG	p.R1762Q		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	1844					actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						CATAGCACTCCGGGCTTCTGA	0.597000													13	25					0	0	0.002450	0	0	
NOTCH4	4855	broad.mit.edu	37	6	32190542	32190542	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:32190542T>C	uc003obb.2	-	3	336	c.197A>G	c.(196-198)GAC>GGC	p.D66G	NOTCH4_uc011dpu.1_RNA|NOTCH4_uc011dpv.1_RNA|NOTCH4_uc003obc.2_Missense_Mutation_p.D66G	NM_004557	NP_004548	Q99466	NOTC4_HUMAN	notch4 preproprotein	66	Extracellular (Potential).|EGF-like 2.				cell fate determination|embryo development|hemopoiesis|mammary gland development|negative regulation of endothelial cell differentiation|Notch receptor processing|Notch signaling pathway|patterning of blood vessels|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|protein heterodimerization activity|receptor activity			lung(8)|ovary(5)|breast(4)|central_nervous_system(3)|upper_aerodigestive_tract(1)|skin(1)	22						CTGGCAGGGGTCAGGAAACTG	0.562000													15	38					0	0	0.004007	0	0	
ITPR3	3710	broad.mit.edu	37	6	33654203	33654203	+	Silent	SNP	C	T	T	rs145776727	byFrequency	TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:33654203C>T	uc011drk.1	+	43	6105	c.5886C>T	c.(5884-5886)CAC>CAT	p.H1962H	ITPR3_uc003oey.2_Silent_p.H49H	NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	1962	Cytoplasmic (Potential).				activation of phospholipase C activity|calcium ion transport into cytosol|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|protein heterooligomerization|protein homooligomerization|regulation of insulin secretion|response to calcium ion	apical part of cell|brush border|endoplasmic reticulum membrane|integral to plasma membrane|myelin sheath|neuronal cell body|nuclear outer membrane|platelet dense tubular network membrane	inositol 1,3,4,5 tetrakisphosphate binding|inositol 1,4,5 trisphosphate binding|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|inositol hexakisphosphate binding|intracellular ligand-gated calcium channel activity|protein binding			ovary(6)|lung(5)|central_nervous_system(5)|breast(2)|kidney(1)	19						TTGTGACTCACGAGTCCAATG	0.592000													17	73					0	0	0.007413	0	0	
UHRF1BP1	54887	broad.mit.edu	37	6	34825955	34825955	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:34825955C>A	uc003oju.3	+	14	2056	c.1822C>A	c.(1822-1824)CTT>ATT	p.L608I	UHRF1BP1_uc010jvm.1_RNA|UHRF1BP1_uc010jvn.2_RNA|UHRF1BP1_uc010jvo.2_RNA	NM_017754	NP_060224	Q6BDS2	URFB1_HUMAN	ICBP90 binding protein 1	608										ovary(3)	3						TCCCCAGGCCCTTGTCTTCTC	0.498000													14	99					2.61681e-11	2.95323e-11	0.002450	1	0	
ETV7	51513	broad.mit.edu	37	6	36334731	36334731	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:36334731C>T	uc003omb.2	-	7	978	c.829G>A	c.(829-831)GAG>AAG	p.E277K	ETV7_uc003olz.1_Missense_Mutation_p.E277K|ETV7_uc003oma.1_Missense_Mutation_p.E222K|ETV7_uc010jwg.2_RNA|ETV7_uc003omc.2_Missense_Mutation_p.E222K|ETV7_uc010jwj.2_Missense_Mutation_p.E218K|ETV7_uc010jwh.2_Missense_Mutation_p.E196K|ETV7_uc010jwi.2_Missense_Mutation_p.E200K|ETV7_uc011dtl.1_Missense_Mutation_p.E126K	NM_016135	NP_057219	Q9Y603	ETV7_HUMAN	ets variant 7	277	ETS.				organ morphogenesis|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2						GACATCTTCTCGTAGGTCATG	0.542000													13	198					0	0	0.013537	0	0	
CUL7	9820	broad.mit.edu	37	6	43020511	43020511	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:43020511G>A	uc003otq.2	-	2	319	c.16C>T	c.(16-18)CGC>TGC	p.R6C	CUL7_uc011dvb.1_Missense_Mutation_p.R58C|CUL7_uc010jyh.2_5'UTR|KLC4_uc003otr.1_Intron	NM_014780	NP_055595	Q14999	CUL7_HUMAN	cullin 7	6					interspecies interaction between organisms|ubiquitin-dependent protein catabolic process|vasculogenesis	anaphase-promoting complex|mitochondrion	ubiquitin protein ligase binding			ovary(3)|kidney(1)	4			all cancers(41;0.00231)|Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|OV - Ovarian serous cystadenocarcinoma(102;0.0442)|KIRC - Kidney renal clear cell carcinoma(15;0.133)|Kidney(15;0.188)			TCCCTGTAGCGGAGTTCTCCC	0.562000													3	44					0	0	0.004672	0	0	
VEGFA	7422	broad.mit.edu	37	6	43745279	43745279	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:43745279G>A	uc003owc.2	+	3	1223	c.192G>A	c.(190-192)GAG>GAA	p.E64E	VEGFA_uc003owb.2_Silent_p.E64E|VEGFA_uc003owd.2_Silent_p.E244E|VEGFA_uc003owf.2_Silent_p.E244E|VEGFA_uc003owe.2_Silent_p.E244E|VEGFA_uc003owg.2_Silent_p.E244E|VEGFA_uc003owh.2_Silent_p.E244E|VEGFA_uc003owi.2_Silent_p.E244E|VEGFA_uc003owj.2_Silent_p.E244E|VEGFA_uc010jyx.2_Silent_p.E64E|VEGFA_uc003owk.2_5'Flank	NM_001025370	NP_001020541	P15692	VEGFA_HUMAN	vascular endothelial growth factor A isoform f	64					basophil chemotaxis|cellular response to hypoxia|induction of positive chemotaxis|induction of positive chemotaxis|platelet activation|platelet degranulation|platelet-derived growth factor receptor signaling pathway|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of cell adhesion|positive regulation of cell division|positive regulation of endothelial cell proliferation|positive regulation of leukocyte migration|positive regulation of mast cell chemotaxis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of vascular endothelial growth factor receptor signaling pathway|positive regulation of vascular permeability|regulation of cell shape|vascular endothelial growth factor receptor signaling pathway|vasculogenesis	cell surface|extracellular space|membrane|platelet alpha granule lumen	cell surface binding|chemoattractant activity|cytokine activity|fibronectin binding|growth factor activity|heparin binding|platelet-derived growth factor receptor binding|protein heterodimerization activity|protein homodimerization activity|vascular endothelial growth factor receptor 1 binding|vascular endothelial growth factor receptor 2 binding|vascular endothelial growth factor receptor binding			ovary(1)|breast(1)	2	all_cancers(18;5.46e-07)|all_epithelial(2;5.96e-08)|Lung NSC(15;0.000157)|all_lung(25;0.000486)|Hepatocellular(11;0.00309)		all cancers(41;0.000413)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|STAD - Stomach adenocarcinoma(11;0.0742)|OV - Ovarian serous cystadenocarcinoma(102;0.196)		Atorvastatin(DB01076)|Bevacizumab(DB00112)|Carvedilol(DB01136)|Ginkgo biloba(DB01381)|Gliclazide(DB01120)|Minocycline(DB01017)|Ranibizumab(DB01270)|Simvastatin(DB00641)	TCTTCCAGGAGTACCCTGATG	0.562000													5	65					0	0	0.000602	0	0	
ENPP5	59084	broad.mit.edu	37	6	46135200	46135200	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:46135200G>T	uc003oxz.1	-	2	1008	c.800C>A	c.(799-801)TCT>TAT	p.S267Y	ENPP5_uc003oya.1_Missense_Mutation_p.S267Y|ENPP5_uc011dvz.1_Missense_Mutation_p.S173Y|ENPP5_uc010jzc.1_Missense_Mutation_p.S267Y	NM_021572	NP_067547	Q9UJA9	ENPP5_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	267						extracellular region|integral to membrane	hydrolase activity				0						TGCTACTGGAGATTGATCAAT	0.443000													26	130					1.68575e-08	1.86648e-08	0.007291	1	0	
HMGCLL1	54511	broad.mit.edu	37	6	55406583	55406583	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:55406583T>C	uc003pcn.2	-	4	490	c.331A>G	c.(331-333)ACT>GCT	p.T111A	HMGCLL1_uc003pco.2_Missense_Mutation_p.T81A|HMGCLL1_uc010jzx.2_5'UTR|HMGCLL1_uc011dxc.1_Missense_Mutation_p.T81A|HMGCLL1_uc011dxd.1_Missense_Mutation_p.T81A|HMGCLL1_uc011dxe.1_Missense_Mutation_p.T81A|HMGCLL1_uc003pcp.2_Missense_Mutation_p.T81A	NM_019036	NP_061909	Q8TB92	HMGC2_HUMAN	3-hydroxymethyl-3-methylglutaryl-Coenzyme A	111							hydroxymethylglutaryl-CoA lyase activity|metal ion binding			skin(2)|ovary(1)|pancreas(1)	4	Lung NSC(77;0.0875)		LUSC - Lung squamous cell carcinoma(124;0.23)			GACAAGCCAGTTTGGGAAAGT	0.308000													3	90					0	0	0.009096	0	0	
KHDRBS2	202559	broad.mit.edu	37	6	62887150	62887150	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:62887150G>A	uc003peg.2	-	2	406	c.159C>T	c.(157-159)ATC>ATT	p.I53I		NM_152688	NP_689901	Q5VWX1	KHDR2_HUMAN	KH domain-containing, RNA-binding, signal	53					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	SH3 domain binding			skin(7)|ovary(3)|liver(1)	11				BRCA - Breast invasive adenocarcinoma(397;0.149)		TTTTGTTGCTGATGACATCAA	0.328000													10	19					0	0	0.010729	0	0	
ZNF292	23036	broad.mit.edu	37	6	87965771	87965771	+	Silent	SNP	T	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:87965771T>G	uc003plm.3	+	8	2465	c.2424T>G	c.(2422-2424)ACT>ACG	p.T808T		NM_015021	NP_055836	O60281	ZN292_HUMAN	zinc finger protein 292	808	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)	4		all_cancers(76;3.82e-09)|Prostate(29;1.34e-10)|Acute lymphoblastic leukemia(125;2.17e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;5.31e-05)		BRCA - Breast invasive adenocarcinoma(108;0.0199)		ATACGTACACTTGTAAGTTCA	0.378000													6	20					0	0	0.001168	0	0	
ZNF292	23036	broad.mit.edu	37	6	87967537	87967537	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:87967537G>A	uc003plm.3	+	8	4231	c.4190G>A	c.(4189-4191)CGA>CAA	p.R1397Q		NM_015021	NP_055836	O60281	ZN292_HUMAN	zinc finger protein 292	1397	C2H2-type 8; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)	4		all_cancers(76;3.82e-09)|Prostate(29;1.34e-10)|Acute lymphoblastic leukemia(125;2.17e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;5.31e-05)		BRCA - Breast invasive adenocarcinoma(108;0.0199)		TTATCCAAGCGATCTTACTGT	0.443000													20	90					0	0	0.008871	0	0	
ZNF292	23036	broad.mit.edu	37	6	87968758	87968758	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:87968758A>G	uc003plm.3	+	8	5452	c.5411A>G	c.(5410-5412)AAC>AGC	p.N1804S		NM_015021	NP_055836	O60281	ZN292_HUMAN	zinc finger protein 292	1804					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)	4		all_cancers(76;3.82e-09)|Prostate(29;1.34e-10)|Acute lymphoblastic leukemia(125;2.17e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;5.31e-05)		BRCA - Breast invasive adenocarcinoma(108;0.0199)		GTGCAAAATAACAAATTACCC	0.363000													6	35					0	0	0.001168	0	0	
MDN1	23195	broad.mit.edu	37	6	90382364	90382364	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:90382364G>A	uc003pnn.1	-	81	13648	c.13532C>T	c.(13531-13533)GCC>GTC	p.A4511V		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	4511					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		GGCTCGGATGGCAATTTCCAT	0.408000													10	31					0	0	0.006214	0	0	
MDN1	23195	broad.mit.edu	37	6	90433306	90433306	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:90433306C>A	uc003pnn.1	-	39	5819	c.5703G>T	c.(5701-5703)ATG>ATT	p.M1901I		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	1901					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		CAATGAACTCCATGTCAATTA	0.348000													6	13					2.0095e-06	2.17401e-06	0.001984	1	0	
ASCC3	10973	broad.mit.edu	37	6	101037585	101037585	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:101037585C>T	uc003pqk.2	-	36	5804	c.5475G>A	c.(5473-5475)AAG>AAA	p.K1825K		NM_006828	NP_006819	Q8N3C0	HELC1_HUMAN	activating signal cointegrator 1 complex subunit	1825	SEC63 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)		CTGTTTGATGCTTCAAATAGT	0.348000													9	87					0	0	0.008291	0	0	
ASCC3	10973	broad.mit.edu	37	6	101100601	101100601	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:101100601C>A	uc003pqk.2	-	18	3317	c.2988G>T	c.(2986-2988)GAG>GAT	p.E996D	ASCC3_uc011eai.1_Missense_Mutation_p.E898D	NM_006828	NP_006819	Q8N3C0	HELC1_HUMAN	activating signal cointegrator 1 complex subunit	996	SEC63 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)		AGTATAATACCTCAATGGTGT	0.294000													10	20					6.40141e-05	6.78804e-05	0.010729	1	0	
FIG4	9896	broad.mit.edu	37	6	110037748	110037748	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:110037748C>T	uc003ptt.2	+	3	481	c.266C>T	c.(265-267)GCG>GTG	p.A89V	FIG4_uc011eau.1_Intron	NM_014845	NP_055660	Q92562	FIG4_HUMAN	Sac domain-containing inositol phosphatase 3	89					cell death	endosome membrane	protein binding			ovary(1)	1		all_cancers(87;8.63e-07)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.000124)|all_lung(197;0.0187)|Colorectal(196;0.0492)|Lung SC(18;0.0548)		OV - Ovarian serous cystadenocarcinoma(136;0.0355)|Epithelial(106;0.038)|all cancers(137;0.0425)|BRCA - Breast invasive adenocarcinoma(108;0.079)		TTATTTCGAGCGGTTTCAGCT	0.413000													29	144					0	0	0.005524	0	0	
C6orf204	387119	broad.mit.edu	37	6	118953732	118953732	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:118953732A>C	uc003pxz.1	-	2	704	c.116T>G	c.(115-117)TTG>TGG	p.L39W	C6orf204_uc003pya.1_Missense_Mutation_p.L42W|C6orf204_uc003pyb.2_Missense_Mutation_p.L39W|C6orf204_uc011ebj.1_Translation_Start_Site|C6orf204_uc003pyc.2_Missense_Mutation_p.L42W|C6orf204_uc011ebl.1_Translation_Start_Site	NM_001042475	NP_001035940	Q5SZL2	CF204_HUMAN	chromosome 6 open reading frame 204 isoform a	39						centrosome				breast(1)	1		all_cancers(87;0.0814)|all_epithelial(87;0.115)		GBM - Glioblastoma multiforme(226;0.0114)|all cancers(137;0.035)|OV - Ovarian serous cystadenocarcinoma(136;0.0618)		GGCCTGCCACAATGATTCATT	0.408000													12	42					0	0	0.010729	0	0	
MAN1A1	4121	broad.mit.edu	37	6	119569513	119569513	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:119569513G>A	uc003pym.1	-	6	1346	c.904C>T	c.(904-906)CGA>TGA	p.R302*	MAN1A1_uc010kei.1_Nonsense_Mutation_p.R325*	NM_005907	NP_005898	P33908	MA1A1_HUMAN	mannosidase, alpha, class 1A, member 1	302	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum|ER-Golgi intermediate compartment|Golgi membrane|integral to membrane|membrane fraction	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			ovary(2)|central_nervous_system(1)|skin(1)	4		all_epithelial(87;0.173)		OV - Ovarian serous cystadenocarcinoma(136;0.0612)|GBM - Glioblastoma multiforme(226;0.0702)|all cancers(137;0.115)		GCTTTCTTTCGAAAAATCTGA	0.348000													8	20					0	0	0.003080	0	0	
ECHDC1	55862	broad.mit.edu	37	6	127651955	127651955	+	Silent	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:127651955T>C	uc003qax.2	-	2	273	c.237A>G	c.(235-237)TCA>TCG	p.S79S	ECHDC1_uc003qaz.3_Silent_p.S73S|ECHDC1_uc010key.2_Intron|ECHDC1_uc003qay.3_Silent_p.S73S|ECHDC1_uc010kez.2_Intron|ECHDC1_uc010kex.2_RNA	NM_001139510	NP_001132982	Q9NTX5	ECHD1_HUMAN	enoyl Coenzyme A hydratase domain containing 1	79							catalytic activity				0				GBM - Glioblastoma multiforme(226;0.0423)|all cancers(137;0.156)		CCCTAATACCTGAAAAGGCAT	0.308000													7	42					0	0	0.001984	0	0	
HBS1L	10767	broad.mit.edu	37	6	135318743	135318743	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:135318743C>T	uc003qez.2	-	6	798	c.591G>A	c.(589-591)CCG>CCA	p.P197P	HBS1L_uc003qey.2_Silent_p.P33P|HBS1L_uc011ecy.1_Intron|HBS1L_uc011ecz.1_Silent_p.P33P|HBS1L_uc011eda.1_Silent_p.P155P	NM_006620	NP_006611	Q9Y450	HBS1L_HUMAN	Hsp70 subfamily B suppressor 1-like protein	197					signal transduction		GTP binding|GTPase activity|translation elongation factor activity			skin(2)	2	Colorectal(23;0.221)			OV - Ovarian serous cystadenocarcinoma(155;0.0046)|GBM - Glioblastoma multiforme(68;0.00702)		CTTCAATGGGCGGTCCTTTTT	0.413000													37	109					0	0	0.004878	0	0	
MYB	4602	broad.mit.edu	37	6	135507123	135507123	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:135507123C>T	uc003qfc.2	+	2	305	c.106C>T	c.(106-108)CGT>TGT	p.R36C	MYB_uc003qfh.2_Missense_Mutation_p.R36C|MYB_uc003qfi.2_Missense_Mutation_p.R36C|MYB_uc010kgi.2_Missense_Mutation_p.R36C|MYB_uc003qfq.2_Missense_Mutation_p.R36C|MYB_uc010kgj.2_Missense_Mutation_p.R36C|MYB_uc003qfo.2_Missense_Mutation_p.R36C|MYB_uc003qfu.2_Missense_Mutation_p.R36C|MYB_uc003qfl.2_RNA|MYB_uc003qfv.2_RNA|MYB_uc003qfz.2_RNA|MYB_uc003qfx.2_RNA|MYB_uc003qga.2_RNA|MYB_uc003qgb.2_RNA|MYB_uc010kgk.2_RNA|MYB_uc003qfd.2_RNA|MYB_uc003qfe.2_RNA|MYB_uc003qfg.2_RNA|MYB_uc003qff.2_RNA|MYB_uc003qfj.2_RNA|MYB_uc003qfm.2_RNA|MYB_uc003qfp.2_RNA|MYB_uc003qfn.2_RNA|MYB_uc003qfk.2_RNA|MYB_uc003qfr.2_RNA|MYB_uc003qfs.2_5'UTR|MYB_uc003qft.2_RNA|MYB_uc003qfw.2_5'UTR|MYB_uc003qfy.2_RNA|MYB_uc003qgc.2_RNA|MYB_uc003qfb.1_Missense_Mutation_p.R36C|MYB_uc003qgd.1_5'Flank	NM_005375	NP_005366	P10242	MYB_HUMAN	v-myb myeloblastosis viral oncogene homolog	36	HTH myb-type 1.				blood coagulation|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of histone H3-K4 methylation|positive regulation of histone H3-K9 methylation|positive regulation of T-helper cell differentiation|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear matrix	DNA binding|protein binding			lung(1)	1	all_epithelial(2;0.109)|Breast(56;0.158)|Colorectal(23;0.221)	Lung NSC(302;3.08e-05)|Ovarian(999;0.208)		OV - Ovarian serous cystadenocarcinoma(155;0.0079)|GBM - Glioblastoma multiforme(68;0.0117)		GTCTGGAAAGCGTCACTTGGG	0.398000			T	NFIB	adenoid cystic carcinoma								17	50					0	0	0.004990	0	0	
SLC35D3	340146	broad.mit.edu	37	6	137245806	137245806	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:137245806T>C	uc003qhe.2	+	2	1388	c.1223T>C	c.(1222-1224)ATA>ACA	p.I408T		NM_001008783	NP_001008783	Q5M8T2	S35D3_HUMAN	solute carrier family 35, member D3	408					carbohydrate transport	integral to membrane				ovary(1)|central_nervous_system(1)	2	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000136)|OV - Ovarian serous cystadenocarcinoma(155;0.00365)		GATTATTTGATAGAAAACGAG	0.423000													19	41					0	0	0.008871	0	0	
MTHFD1L	25902	broad.mit.edu	37	6	151209072	151209072	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:151209072C>T	uc003qob.2	+	7	1003	c.735C>T	c.(733-735)TCC>TCT	p.S245S	MTHFD1L_uc011een.1_RNA|MTHFD1L_uc011eeo.1_Silent_p.S246S|MTHFD1L_uc003qoc.2_Silent_p.S193S|MTHFD1L_uc003qoa.1_Silent_p.S245S|MTHFD1L_uc010kil.1_RNA	NM_015440	NP_056255	Q6UB35	C1TM_HUMAN	methylenetetrahydrofolate dehydrogenase (NADP+	245	Methylenetetrahydrofolate dehydrogenase and cyclohydrolase.				folic acid-containing compound biosynthetic process|formate metabolic process|one-carbon metabolic process|tetrahydrofolate metabolic process	mitochondrion	ATP binding|formate-tetrahydrofolate ligase activity|protein homodimerization activity			ovary(3)|large_intestine(1)	4		Ovarian(120;0.128)		OV - Ovarian serous cystadenocarcinoma(155;8.7e-12)		GAAAAGGGTCCATGACAATGA	0.383000													5	82					0	0	0.000602	0	0	
SYNE1	23345	broad.mit.edu	37	6	152680514	152680514	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:152680514T>C	uc010kiw.2	-	65	10981	c.10379A>G	c.(10378-10380)TAT>TGT	p.Y3460C	SYNE1_uc003qot.3_Missense_Mutation_p.Y3467C|SYNE1_uc003qou.3_Missense_Mutation_p.Y3460C|SYNE1_uc010kja.1_Missense_Mutation_p.Y165C	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	3460	Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		CTGGGTGACATAGTGTTCTGT	0.458000										HNSCC(10;0.0054)			6	111					0	0	0.001168	0	0	
SYNE1	23345	broad.mit.edu	37	6	152749388	152749388	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:152749388G>A	uc010kiw.2	-	37	5530	c.4928C>T	c.(4927-4929)GCG>GTG	p.A1643V	SYNE1_uc003qot.3_Missense_Mutation_p.A1650V|SYNE1_uc003qou.3_Missense_Mutation_p.A1643V|SYNE1_uc010kjb.1_Missense_Mutation_p.A1626V|SYNE1_uc003qow.2_Missense_Mutation_p.A938V	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	1643	Spectrin 1.|Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		TCTCTCCTTCGCCCTCCTTAG	0.537000										HNSCC(10;0.0054)			12	323					0	0	0.004007	0	0	
SYNE1	23345	broad.mit.edu	37	6	152831394	152831394	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:152831394A>G	uc010kiw.2	-	8	1117	c.515T>C	c.(514-516)GTG>GCG	p.V172A	SYNE1_uc003qot.3_Missense_Mutation_p.V179A|SYNE1_uc003qou.3_Missense_Mutation_p.V172A|SYNE1_uc010kjb.1_Missense_Mutation_p.V172A|SYNE1_uc003qpa.1_Missense_Mutation_p.V172A	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	172	Actin-binding.|Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		CTTGGTGGTCACCTTCCGTTT	0.488000										HNSCC(10;0.0054)			4	94					0	0	0.000602	0	0	
C6orf118	168090	broad.mit.edu	37	6	165715776	165715776	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:165715776T>G	uc003qum.3	-	2	71	c.35A>C	c.(34-36)AAG>ACG	p.K12T	C6orf118_uc011egi.1_RNA	NM_144980	NP_659417	Q5T5N4	CF118_HUMAN	hypothetical protein LOC168090	12											0		Breast(66;6.27e-05)|Ovarian(120;0.0228)|Prostate(117;0.0906)|all_neural(5;0.157)		OV - Ovarian serous cystadenocarcinoma(33;3.23e-18)|BRCA - Breast invasive adenocarcinoma(81;3.11e-06)|GBM - Glioblastoma multiforme(31;0.000313)		GTGCTTCCACTTCAGGTACAC	0.532000													23	71					0	0	0.002780	0	0	
T	6862	broad.mit.edu	37	6	166580221	166580221	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:166580221C>T	uc003quu.1	-	3	823	c.330G>A	c.(328-330)GTG>GTA	p.V110V	T_uc003qut.1_Silent_p.V110V|T_uc003quv.1_Silent_p.V110V	NM_003181	NP_003172	O15178	BRAC_HUMAN	transcription factor T	110	T-box.				anterior/posterior axis specification, embryo|mesoderm development|primitive streak formation	nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2		Prostate(117;4.48e-07)|Ovarian(120;1.78e-06)|Breast(66;2.54e-06)|Lung SC(201;0.0225)|Esophageal squamous(34;0.0559)		OV - Ovarian serous cystadenocarcinoma(33;1.09e-113)|GBM - Glioblastoma multiforme(31;1.51e-108)|BRCA - Breast invasive adenocarcinoma(81;8.45e-09)|LUAD - Lung adenocarcinoma(999;0.0407)		TGCCCCCCGGCACCCATTCCC	0.657000									Chordoma_Familial_Clustering_of				6	75					0	0	0.001984	0	0	
UNC93A	54346	broad.mit.edu	37	6	167721272	167721272	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:167721272G>A	uc003qvq.2	+	7	1157	c.982G>A	c.(982-984)GTG>ATG	p.V328M	UNC93A_uc003qvr.2_Missense_Mutation_p.V286M	NM_018974	NP_061847	Q86WB7	UN93A_HUMAN	unc-93 homolog A isoform 1	328	Helical; (Potential).					integral to membrane|plasma membrane					0		Breast(66;7.62e-05)|Ovarian(120;0.105)		OV - Ovarian serous cystadenocarcinoma(33;2.22e-20)|BRCA - Breast invasive adenocarcinoma(81;6.17e-07)|GBM - Glioblastoma multiforme(31;0.00492)		CCCAGGCGCGGTGACCCACGT	0.622000													4	78					0	0	0.009096	0	0	
DLL1	28514	broad.mit.edu	37	6	170597536	170597536	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr6:170597536G>A	uc003qxm.2	-	4	931	c.461C>T	c.(460-462)ACG>ATG	p.T154M	DLL1_uc011ehc.1_Missense_Mutation_p.T154M|DLL1_uc003qxn.3_3'UTR	NM_005618	NP_005609	O00548	DLL1_HUMAN	delta-like 1 precursor	154	Extracellular (Potential).				cell communication|cell fate determination|hemopoiesis|Notch receptor processing|Notch signaling pathway|regulation of cell adhesion	extracellular region|integral to plasma membrane	calcium ion binding|Notch binding			lung(4)|ovary(1)	5		Breast(66;5.08e-05)|Ovarian(120;0.125)|Esophageal squamous(34;0.246)		OV - Ovarian serous cystadenocarcinoma(33;6.71e-23)|BRCA - Breast invasive adenocarcinoma(81;4.81e-06)|GBM - Glioblastoma multiforme(31;0.0584)		CTCGCCCACCGTCAGGTGCCT	0.607000													12	33					0	0	0.013537	0	0	
C7orf27	221927	broad.mit.edu	37	7	2578167	2578167	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:2578167G>A	uc003smi.2	-	14	2044	c.2002C>T	c.(2002-2004)CCG>TCG	p.P668S	C7orf27_uc003smh.3_Missense_Mutation_p.P100S	NM_152743	NP_689956	Q6PJG6	BRAT1_HUMAN	hypothetical protein LOC221927 precursor	668					response to ionizing radiation	nucleus	protein binding				0		Ovarian(82;0.0779)		OV - Ovarian serous cystadenocarcinoma(56;2.91e-14)		GTACGCGGCGGCCCCAAAGTC	0.716000													8	15					0	0	0.003080	0	0	
CARD11	84433	broad.mit.edu	37	7	2962848	2962848	+	Missense_Mutation	SNP	G	A	A	rs41493047	byFrequency	TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:2962848G>A	uc003smv.2	-	16	2464	c.2060C>T	c.(2059-2061)GCG>GTG	p.A687V		NM_032415	NP_115791	Q9BXL7	CAR11_HUMAN	caspase recruitment domain family, member 11	687	PDZ.				positive regulation of cytokine production|positive regulation of NF-kappaB transcription factor activity|regulation of apoptosis|T cell costimulation|T cell receptor signaling pathway	cytosol|membrane raft|plasma membrane	CARD domain binding|guanylate kinase activity			haematopoietic_and_lymphoid_tissue(43)|ovary(2)|kidney(2)|skin(2)|central_nervous_system(1)	50		Ovarian(82;0.0115)		OV - Ovarian serous cystadenocarcinoma(56;8.44e-14)		GCTCCCTCGCGCGTTGCCCCC	0.697000			Mis		DLBCL								6	77					0	0	0.001168	0	0	
KIAA0415	9907	broad.mit.edu	37	7	4830444	4830444	+	Silent	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:4830444T>C	uc003sne.2	+	16	2162	c.2079T>C	c.(2077-2079)TGT>TGC	p.C693C	KIAA0415_uc010ksp.2_RNA|KIAA0415_uc003snf.2_Silent_p.C170C	NM_014855	NP_055670	O43299	K0415_HUMAN	hypothetical protein LOC9907	693					cell death|double-strand break repair via homologous recombination	cytoplasm|nucleus	protein binding			central_nervous_system(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.091)|OV - Ovarian serous cystadenocarcinoma(56;8.35e-15)		TGCCCAGGTGTCCCCCCCAGG	0.647000													3	23					0	0	0.009096	0	0	
FBXL18	80028	broad.mit.edu	37	7	5540477	5540477	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:5540477A>G	uc003soo.2	-	3	1517	c.1423T>C	c.(1423-1425)TTC>CTC	p.F475L	FBXL18_uc003son.3_Missense_Mutation_p.F475L	NM_024963	NP_079239	Q96ME1	FXL18_HUMAN	F-box and leucine-rich repeat protein 18	475	LRR 8.									central_nervous_system(2)|ovary(1)	3		Ovarian(82;0.0607)		UCEC - Uterine corpus endometrioid carcinoma (126;0.181)|OV - Ovarian serous cystadenocarcinoma(56;3.64e-13)		AGAGACCAGAACACGGAGGAG	0.657000													10	31					0	0	0.010729	0	0	
FERD3L	222894	broad.mit.edu	37	7	19184940	19184940	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:19184940A>C	uc003suo.1	-	1	105	c.46T>G	c.(46-48)TTC>GTC	p.F16V	uc003sun.1_RNA	NM_152898	NP_690862	Q96RJ6	FER3L_HUMAN	nephew of atonal 3	16					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			large_intestine(1)	1						TCTGCGACGAAGTCCAGCACC	0.682000													8	58					0	0	0.003080	0	0	
OSBPL3	26031	broad.mit.edu	37	7	24839808	24839808	+	Silent	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:24839808T>C	uc003sxf.2	-	23	3063	c.2658A>G	c.(2656-2658)TTA>TTG	p.L886L	OSBPL3_uc003sxd.2_RNA|OSBPL3_uc003sxe.2_RNA|OSBPL3_uc003sxg.2_Silent_p.L850L|OSBPL3_uc003sxh.2_Silent_p.L855L|OSBPL3_uc003sxi.2_Silent_p.L819L	NM_015550	NP_056365	Q9H4L5	OSBL3_HUMAN	oxysterol-binding protein-like protein 3 isoform	886					lipid transport		lipid binding|protein binding			skin(1)	1						TTTTTCACCATAAGACAGGAT	0.383000													4	27					0	0	0.000602	0	0	
HOXA6	3203	broad.mit.edu	37	7	27185359	27185359	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:27185359C>T	uc003syo.1	-	2	620	c.620G>A	c.(619-621)CGC>CAC	p.R207H	HOXA5_uc003syn.1_5'Flank|uc003syp.1_5'Flank	NM_024014	NP_076919	P31267	HXA6_HUMAN	homeobox A6	207	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2						CCACTTCATGCGGCGGTTCTG	0.602000													11	317					0	0	0.001855	0	0	
TRIL	9865	broad.mit.edu	37	7	28997405	28997405	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:28997405T>G	uc003szt.2	-	3	625	c.258A>C	c.(256-258)AGA>AGC	p.R86S	uc003szu.1_5'Flank	NM_014817	NP_055632	Q7L0X0	TRIL_HUMAN	TLR4 interactor with leucine rich repeats	86	LRR 2.|Extracellular (Potential).				inflammatory response|innate immune response|regulation of cytokine production involved in immune response|toll-like receptor 4 signaling pathway	lipopolysaccharide receptor complex	lipopolysaccharide binding				0						GGTCCAGCCGTCTGAGCTGCC	0.617000													16	59					0	0	0.004007	0	0	
CPVL	54504	broad.mit.edu	37	7	29105640	29105640	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:29105640G>A	uc003szv.2	-	10	1081	c.962C>T	c.(961-963)ACG>ATG	p.T321M	CPVL_uc003szw.2_Missense_Mutation_p.T321M|CPVL_uc003szx.2_Missense_Mutation_p.T321M	NM_031311	NP_112601	Q9H3G5	CPVL_HUMAN	serine carboxypeptidase vitellogenic-like	321					proteolysis		protein binding|serine-type carboxypeptidase activity			ovary(2)	2						TGTCATTACCGTGCACCGCAA	0.323000													12	65					0	0	0.013537	0	0	
DPY19L2P1	554236	broad.mit.edu	37	7	35131480	35131480	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:35131480A>T	uc003teq.1	-	20	2213	c.1106T>A	c.(1105-1107)CTT>CAT	p.L369H	DPY19L2P1_uc003tep.1_RNA|DPY19L2P1_uc010kwz.1_RNA					RecName: Full=Protein dpy-19 homolog 2-like 2; AltName: Full=Dpy-19-like protein 2 pseudogene 2;												0						ATCTTCGTAAAGTGGATGATT	0.408000													9	99					0	0	0.013537	0	0	
DPY19L2P1	554236	broad.mit.edu	37	7	35131520	35131520	+	Missense_Mutation	SNP	C	T	T	rs112550942		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:35131520C>T	uc003teq.1	-	20	2173	c.1066G>A	c.(1066-1068)GTC>ATC	p.V356I	DPY19L2P1_uc003tep.1_RNA|DPY19L2P1_uc010kwz.1_RNA					RecName: Full=Protein dpy-19 homolog 2-like 2; AltName: Full=Dpy-19-like protein 2 pseudogene 2;												0						GACAGCTTGACGCTTGCCATT	0.398000													5	113					0	0	0.001168	0	0	
DPY19L2P1	554236	broad.mit.edu	37	7	35131548	35131548	+	Silent	SNP	G	A	A	rs144021252	by1000genomes	TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:35131548G>A	uc003teq.1	-	20	2145	c.1038C>T	c.(1036-1038)TTC>TTT	p.F346F	DPY19L2P1_uc003tep.1_RNA|DPY19L2P1_uc010kwz.1_RNA					RecName: Full=Protein dpy-19 homolog 2-like 2; AltName: Full=Dpy-19-like protein 2 pseudogene 2;												0						TGGCACCTGCGAAGACAGCAT	0.388000													12	96					0	0	0.013537	0	0	
POU6F2	11281	broad.mit.edu	37	7	39472802	39472802	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:39472802G>A	uc003thb.1	+	7	1195	c.1153G>A	c.(1153-1155)GCC>ACC	p.A385T		NM_007252	NP_009183	P78424	PO6F2_HUMAN	POU class 6 homeobox 2 isoform 1	385	Gln-rich.				central nervous system development|ganglion mother cell fate determination|transcription from RNA polymerase II promoter|visual perception		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1						CCAGATCATCGCCACAGTCAT	0.602000													4	99					0	0	0.009096	0	0	
ZMIZ2	83637	broad.mit.edu	37	7	44802877	44802877	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:44802877C>T	uc003tlr.2	+	13	1848	c.1725C>T	c.(1723-1725)GGC>GGT	p.G575G	ZMIZ2_uc003tlq.2_Silent_p.G517G|ZMIZ2_uc003tls.2_Silent_p.G549G|ZMIZ2_uc003tlt.2_Silent_p.G198G|ZMIZ2_uc010kyj.2_Silent_p.G97G|ZMIZ2_uc003tlu.2_5'Flank	NM_031449	NP_113637	Q8NF64	ZMIZ2_HUMAN	zinc finger, MIZ-type containing 2 isoform 1	575					positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear replication fork	ligand-dependent nuclear receptor transcription coactivator activity|protein binding|zinc ion binding			ovary(2)|large_intestine(2)|breast(1)	5						TCAGCAGCGGCACCATCCCTG	0.587000													33	178					0	0	0.010818	0	0	
TNS3	64759	broad.mit.edu	37	7	47344511	47344511	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:47344511G>A	uc003tnv.2	-	21	3108	c.2741C>T	c.(2740-2742)GCG>GTG	p.A914V	TNS3_uc003tnw.2_Missense_Mutation_p.A914V	NM_022748	NP_073585	Q68CZ2	TENS3_HUMAN	tensin 3	914						focal adhesion	protein binding			ovary(4)	4						CGTCGAGGACGCATCAGCCCG	0.582000													13	46					0	0	0.013537	0	0	
COBL	23242	broad.mit.edu	37	7	51111346	51111346	+	Silent	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:51111346T>C	uc003tpr.3	-	8	1325	c.1140A>G	c.(1138-1140)GGA>GGG	p.G380G	COBL_uc003tps.2_Silent_p.G437G|COBL_uc011kcl.1_Silent_p.G380G|COBL_uc010kzc.2_Silent_p.G380G|COBL_uc003tpp.3_Silent_p.G166G|COBL_uc003tpq.3_Silent_p.G321G	NM_015198	NP_056013	O75128	COBL_HUMAN	cordon-bleu homolog	380										skin(3)|ovary(2)	5	Glioma(55;0.08)					CCTGCGGGGCTCCATCCGGGC	0.632000													13	45					0	0	0.013537	0	0	
LOC168474	168474	broad.mit.edu	37	7	64313000	64313000	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:64313000C>T	uc003ttj.1	-	1	1179	c.627G>A	c.(625-627)AGG>AGA	p.R209R		NR_002789				SubName: Full=Selenophosphate synthetase 1; SubName: Full=Selenophosphate synthetase 1, isoform CRA_a;												0						TCCTGTTGAGCCTCGCCATGT	0.473000													23	233					0	0	0.003330	0	0	
KCTD7	154881	broad.mit.edu	37	7	66103382	66103382	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:66103382C>T	uc003tve.2	+	3	619	c.457C>T	c.(457-459)CGC>TGC	p.R153C	RABGEF1_uc003tvf.2_5'UTR|KCTD7_uc003tvd.3_Missense_Mutation_p.R153C	NM_153033	NP_694578	Q96MP8	KCTD7_HUMAN	potassium channel tetramerisation domain	153						voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(2)|central_nervous_system(1)	3						CGAGAAGGTGCGCCAAGCGTT	0.582000													13	86					0	0	0.013537	0	0	
FZD9	8326	broad.mit.edu	37	7	72849399	72849399	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:72849399C>T	uc003tyb.2	+	1	1291	c.1062C>T	c.(1060-1062)CAC>CAT	p.H354H		NM_003508	NP_003499	O00144	FZD9_HUMAN	frizzled 9 precursor	354	Cytoplasmic (Potential).				B cell differentiation|brain development|canonical Wnt receptor signaling pathway|embryo development|gonad development|neuroblast proliferation|vasculature development	cell surface|filopodium membrane|integral to membrane|perinuclear region of cytoplasm	G-protein coupled receptor activity|PDZ domain binding|protein heterodimerization activity|protein homodimerization activity|Wnt receptor activity|Wnt-protein binding			central_nervous_system(1)	1		Lung NSC(55;0.0659)|all_lung(88;0.152)				TCGAGGCCCACGGCAGCTATT	0.642000													6	96					0	0	0.001984	0	0	
WBSCR28	135886	broad.mit.edu	37	7	73275584	73275584	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:73275584G>A	uc003tzk.2	+	1	96	c.60G>A	c.(58-60)AGG>AGA	p.R20R	RFC2_uc011kfa.1_Intron|WBSCR28_uc003tzl.2_5'UTR	NM_182504	NP_872310	Q6UE05	WBS28_HUMAN	hypothetical protein LOC135886	20						integral to membrane				breast(1)	1		Lung NSC(55;0.159)				AGGTTACGAGGCTCTCAGTGC	0.642000													4	48					0	0	0.009096	0	0	
CCDC146	57639	broad.mit.edu	37	7	76889459	76889459	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:76889459C>T	uc003uga.2	+	8	1019	c.892C>T	c.(892-894)CGA>TGA	p.R298*	CCDC146_uc010ldp.2_Nonsense_Mutation_p.R44*	NM_020879	NP_065930	Q8IYE0	CC146_HUMAN	coiled-coil domain containing 146	298	Potential.									ovary(1)|central_nervous_system(1)	2		all_cancers(73;0.128)|all_lung(88;0.0986)|all_epithelial(88;0.163)|Myeloproliferative disorder(862;0.205)				TGAAGGCAAACGAGCCTTACT	0.363000													5	73					0	0	0.001168	0	0	
SEMA3D	223117	broad.mit.edu	37	7	84702392	84702392	+	Silent	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:84702392T>C	uc003uic.2	-	4	421	c.381A>G	c.(379-381)GAA>GAG	p.E127E	SEMA3D_uc010led.2_Silent_p.E127E|SEMA3D_uc010lee.1_Silent_p.E127E	NM_152754	NP_689967	O95025	SEM3D_HUMAN	semaphorin 3D precursor	127	Sema.				cell differentiation|nervous system development	extracellular region|membrane	receptor activity			ovary(3)|large_intestine(2)	5						AATTTGCACATTCTGTCTGTT	0.343000													5	54					0	0	0.001168	0	0	
AKAP9	10142	broad.mit.edu	37	7	91631714	91631714	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:91631714A>G	uc003ulg.2	+	8	2708	c.2483A>G	c.(2482-2484)GAA>GGA	p.E828G	AKAP9_uc003ule.2_Missense_Mutation_p.E840G|AKAP9_uc003ulf.2_Missense_Mutation_p.E828G|AKAP9_uc003uli.2_Missense_Mutation_p.E453G	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	840	Glu-rich.|Potential.				G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			CTTATAGAGGAAAATGAGGAC	0.323000			T	BRAF	papillary thyroid								8	90					0	0	0.003080	0	0	
CALCR	799	broad.mit.edu	37	7	93108738	93108738	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:93108738G>A	uc003umv.1	-	4	448	c.187C>T	c.(187-189)CGA>TGA	p.R63*	CALCR_uc003ums.1_RNA|CALCR_uc003umt.1_RNA|CALCR_uc003umu.1_Nonsense_Mutation_p.R45*|CALCR_uc003umw.2_Nonsense_Mutation_p.R45*	NM_001742	NP_001733	P30988	CALCR_HUMAN	calcitonin receptor isoform 2 precursor	45	Extracellular (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|elevation of cytosolic calcium ion concentration|positive regulation of adenylate cyclase activity|response to glucocorticoid stimulus	integral to plasma membrane	calcitonin binding|calcitonin binding|calcitonin receptor activity|calcitonin receptor activity|protein binding	p.R45*(1)		ovary(3)|lung(3)|skin(2)|pancreas(1)	9	all_cancers(62;3.18e-12)|all_epithelial(64;1.34e-11)|Breast(17;0.000675)|Lung NSC(181;0.207)		STAD - Stomach adenocarcinoma(171;0.000244)		Salmon Calcitonin(DB00017)	ATCTTCTTTCGTCCTACGACG	0.398000													6	170					0	0	0.001984	0	0	
COL1A2	1278	broad.mit.edu	37	7	94034179	94034179	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:94034179G>A	uc003ung.1	+	9	878	c.407G>A	c.(406-408)GGC>GAC	p.G136D	COL1A2_uc011kib.1_Missense_Mutation_p.G136D|COL1A2_uc010lfh.1_5'Flank	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	136					axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)	GGTCCAGCTGGCCCTCCTGGC	0.393000										HNSCC(75;0.22)			23	123					0	0	0.012319	0	0	
ZNF655	79027	broad.mit.edu	37	7	99170985	99170985	+	Silent	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:99170985T>C	uc003urh.2	+	3	1647	c.1254T>C	c.(1252-1254)AGT>AGC	p.S418S	ZNF655_uc010lga.2_Silent_p.S453S|ZNF655_uc010lgc.2_Silent_p.S453S|ZNF655_uc003urj.2_Silent_p.S418S|ZNF655_uc003urk.2_Silent_p.S255S|ZNF655_uc010lgd.2_Silent_p.S255S	NM_138494	NP_612503	Q8N720	ZN655_HUMAN	zinc finger protein 655 isoform a	418	C2H2-type 6.				G1 phase|regulation of mitotic cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding|zinc ion binding			ovary(1)	1	all_epithelial(64;3.19e-09)|Lung NSC(181;0.0066)|all_lung(186;0.011)|Esophageal squamous(72;0.0166)					AAGCTTTCAGTCAAACCTCAT	0.368000													34	56					0	0	0.012213	0	0	
CYP3A7	1551	broad.mit.edu	37	7	99315250	99315250	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:99315250C>T	uc003uru.2	-	5	436	c.331G>A	c.(331-333)GTG>ATG	p.V111M	ZNF498_uc003urn.2_Intron|CYP3A5_uc003urs.2_Intron|CYP3A5_uc010lgg.2_Intron	NM_000765	NP_000756	P24462	CP3A7_HUMAN	cytochrome P450, family 3, subfamily A,	111					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(1)	1	Lung NSC(181;0.0144)|Esophageal squamous(72;0.0166)|all_lung(186;0.0228)					ATAAATCCCACTGGCCCGAAA	0.408000													3	53					0	0	0.004672	0	0	
STAG3	10734	broad.mit.edu	37	7	99787211	99787211	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:99787211C>T	uc003utx.1	+	8	1014	c.859C>T	c.(859-861)CGC>TGC	p.R287C	STAG3_uc010lgs.1_Missense_Mutation_p.R75C|STAG3_uc011kjk.1_Missense_Mutation_p.R229C	NM_012447	NP_036579	Q9UJ98	STAG3_HUMAN	stromal antigen 3	287					chromosome segregation|synaptonemal complex assembly	chromosome, centromeric region|meiotic cohesin complex|synaptonemal complex	binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					GTTGGAGAAACGCAAAGAGGT	0.552000													7	143					0	0	0.001984	0	0	
EPHB4	2050	broad.mit.edu	37	7	100410518	100410518	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:100410518G>C	uc003uwn.1	-	12	2460	c.1969C>G	c.(1969-1971)CAG>GAG	p.Q657E	EPHB4_uc003uwm.1_Missense_Mutation_p.Q564E|EPHB4_uc010lhj.1_Missense_Mutation_p.Q657E	NM_004444	NP_004435	P54760	EPHB4_HUMAN	EPH receptor B4 precursor	657	Cytoplasmic (Potential).|Protein kinase.				cell proliferation|organ morphogenesis|regulation of angiogenesis	cell surface|integral to plasma membrane	ATP binding|ephrin receptor activity			lung(4)|stomach(3)|skin(3)|central_nervous_system(2)|ovary(2)|breast(1)	15	Lung NSC(181;0.041)|all_lung(186;0.0581)					TCACGCCGCTGCCGCTCCGTG	0.627000													37	188					0	0	0.004878	0	0	
EPHB4	2050	broad.mit.edu	37	7	100416267	100416267	+	Splice_Site	SNP	C	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:100416267C>G	uc003uwn.1	-	7	1789	c.1298_splice	c.e7-1	p.V433_splice	EPHB4_uc003uwm.1_Splice_Site_p.V340_splice|EPHB4_uc010lhj.1_Splice_Site_p.V433_splice|EPHB4_uc011kkf.1_Splice_Site_p.V433_splice|EPHB4_uc011kkg.1_Intron|EPHB4_uc011kkh.1_Intron	NM_004444	NP_004435	P54760	EPHB4_HUMAN	EPH receptor B4 precursor						cell proliferation|organ morphogenesis|regulation of angiogenesis	cell surface|integral to plasma membrane	ATP binding|ephrin receptor activity			lung(4)|stomach(3)|skin(3)|central_nervous_system(2)|ovary(2)|breast(1)	15	Lung NSC(181;0.041)|all_lung(186;0.0581)					GCAGGAGGTACTGTGAGAGGC	0.483000													7	28					0	0	0.001984	0	0	
FBXL13	222235	broad.mit.edu	37	7	102604067	102604067	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:102604067C>T	uc003vaq.2	-	8	1064	c.637G>A	c.(637-639)GTG>ATG	p.V213M	FBXL13_uc010liq.1_Missense_Mutation_p.V28M|FBXL13_uc010lir.1_Missense_Mutation_p.V213M|FBXL13_uc003var.2_RNA|FBXL13_uc003vas.2_Missense_Mutation_p.V213M|FBXL13_uc003vav.2_RNA	NM_145032	NP_659469	Q8NEE6	FXL13_HUMAN	F-box and leucine-rich repeat protein 13 isoform	213											0						AAAGTAGACACTATATATTTA	0.289000													7	78					0	0	0.003080	0	0	
PSMC2	5701	broad.mit.edu	37	7	102996164	102996164	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:102996164C>A	uc003vbs.2	+	4	284	c.214C>A	c.(214-216)CTG>ATG	p.L72M	SLC26A5_uc003vbt.1_Intron|SLC26A5_uc003vbu.1_Intron|SLC26A5_uc003vbv.1_Intron|PSMC2_uc011kln.1_Missense_Mutation_p.L72M|PSMC2_uc011klo.1_Intron	NM_002803	NP_002794	P35998	PRS7_HUMAN	proteasome 26S ATPase subunit 2	72					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	mitochondrion|nucleus|proteasome complex	ATP binding|ATPase activity|protein binding				0						TGACACTGGCCTGGCCCCACC	0.413000													7	67					0.000274275	0.000289094	0.004482	1	0	
PNPLA8	50640	broad.mit.edu	37	7	108119718	108119718	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:108119718G>A	uc003vff.1	-	11	2391	c.1984C>T	c.(1984-1986)CGT>TGT	p.R662C	PNPLA8_uc003vfg.1_RNA|PNPLA8_uc003vfh.1_Missense_Mutation_p.R662C|PNPLA8_uc003vfi.1_Missense_Mutation_p.R562C|PNPLA8_uc003vfj.1_Missense_Mutation_p.R662C|PNPLA8_uc003vfk.1_Missense_Mutation_p.R562C	NM_015723	NP_056538	Q9NP80	PLPL8_HUMAN	patatin-like phospholipase domain containing 8	662					fatty acid metabolic process|lipid catabolic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|membrane fraction|perinuclear region of cytoplasm|peroxisomal membrane	ATP binding|calcium-independent phospholipase A2 activity|lysophospholipase activity			breast(2)	2						CTCTCATAACGTCCAGTGCCC	0.418000													41	81					0	0	0.008740	0	0	
GPR85	54329	broad.mit.edu	37	7	112724532	112724532	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:112724532T>C	uc010ljv.2	-	2	762	c.245A>G	c.(244-246)AAA>AGA	p.K82R	GPR85_uc003vgp.1_Missense_Mutation_p.K82R|GPR85_uc003vgq.2_Missense_Mutation_p.K82R|GPR85_uc010ljw.1_Missense_Mutation_p.K82R	NM_001146266	NP_001139738	P60893	GPR85_HUMAN	G protein-coupled receptor 85	82	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)|central_nervous_system(1)	2						AGAACCATTTTTGACAGAGTT	0.433000													3	105					0	0	0.004672	0	0	
MET	4233	broad.mit.edu	37	7	116423356	116423356	+	Splice_Site	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:116423356A>G	uc003vij.2	+	19	3820	c.3633_splice	c.e19-2	p.M1211_splice	MET_uc010lkh.2_Splice_Site_p.M1229_splice|MET_uc011knj.1_Splice_Site_p.M781_splice	NM_000245	NP_000236	P08581	MET_HUMAN	met proto-oncogene isoform b precursor						axon guidance|cell proliferation	basal plasma membrane|integral to plasma membrane	ATP binding|hepatocyte growth factor receptor activity|protein binding			upper_aerodigestive_tract(63)|lung(41)|kidney(18)|NS(10)|ovary(5)|thyroid(4)|central_nervous_system(4)|stomach(3)|liver(3)|pleura(2)|large_intestine(2)|breast(2)|testis(1)|skin(1)	159	all_cancers(3;1.25e-07)|all_epithelial(6;4.07e-08)|Lung NSC(10;0.00108)|all_lung(10;0.00125)	Ovarian(593;0.133)	GBM - Glioblastoma multiforme(2;2.31e-07)|all cancers(2;0.000419)|STAD - Stomach adenocarcinoma(10;0.000512)			TCCTTTCTGTAGGCTGGATGA	0.348000			Mis		papillary renal|head-neck squamous cell 	papillary renal			Hereditary_Papillary_Renal_Carcinoma_(type_1)				10	32					0	0	0.008291	0	0	
SPAM1	6677	broad.mit.edu	37	7	123593877	123593877	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:123593877G>A	uc003vld.2	+	4	655	c.253G>A	c.(253-255)GGG>AGG	p.G85R	SPAM1_uc003vle.2_Missense_Mutation_p.G85R|SPAM1_uc011koa.1_5'Flank|SPAM1_uc003vlf.3_Missense_Mutation_p.G85R|SPAM1_uc010lku.2_Missense_Mutation_p.G85R	NM_153189	NP_694859	P38567	HYALP_HUMAN	sperm adhesion molecule 1 isoform 2	85					binding of sperm to zona pellucida|carbohydrate metabolic process|cell adhesion|fusion of sperm to egg plasma membrane	anchored to membrane|plasma membrane	hyalurononglucosaminidase activity			ovary(3)|kidney(1)	4					Hyaluronidase(DB00070)	AAACGCCACCGGGCAAGGTGT	0.433000													20	49					0	0	0.010504	0	0	
SPAM1	6677	broad.mit.edu	37	7	123594152	123594152	+	Silent	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:123594152T>C	uc003vld.2	+	4	930	c.528T>C	c.(526-528)AAT>AAC	p.N176N	SPAM1_uc003vle.2_Silent_p.N176N|SPAM1_uc011koa.1_5'Flank|SPAM1_uc003vlf.3_Silent_p.N176N|SPAM1_uc010lku.2_Silent_p.N176N	NM_153189	NP_694859	P38567	HYALP_HUMAN	sperm adhesion molecule 1 isoform 2	176					binding of sperm to zona pellucida|carbohydrate metabolic process|cell adhesion|fusion of sperm to egg plasma membrane	anchored to membrane|plasma membrane	hyalurononglucosaminidase activity			ovary(3)|kidney(1)	4					Hyaluronidase(DB00070)	AGCAACAAAATGTACAACTTA	0.388000													18	33					0	0	0.007413	0	0	
C7orf45	136263	broad.mit.edu	37	7	129847757	129847757	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:129847757G>T	uc003vpp.2	+	1	54	c.7G>T	c.(7-9)GAC>TAC	p.D3Y	TMEM209_uc003vpn.2_5'Flank|TMEM209_uc010lmc.1_5'Flank|TMEM209_uc003vpo.2_5'Flank	NM_145268	NP_660311	Q8WWF3	CG045_HUMAN	hypothetical protein LOC136263	3						integral to membrane					0	Melanoma(18;0.0435)					CATCATGGGAGACCTTTTTTC	0.413000													35	84					2.51541e-25	2.92473e-25	0.004878	1	0	
WDR91	29062	broad.mit.edu	37	7	134873256	134873256	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:134873256A>G	uc003vsp.2	-	13	1872	c.1810T>C	c.(1810-1812)TAC>CAC	p.Y604H	WDR91_uc010lmq.2_Missense_Mutation_p.Y193H|WDR91_uc010lmr.2_Intron	NM_014149	NP_054868	A4D1P6	WDR91_HUMAN	WD repeat domain 91	604	WD 5.									breast(2)|ovary(1)|skin(1)	4						ACCTCCCCGTAGTGGGCCCTC	0.522000													20	271					0	0	0.012319	0	0	
SLC13A4	26266	broad.mit.edu	37	7	135370367	135370367	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:135370367G>T	uc003vta.2	-	14	2197	c.1508C>A	c.(1507-1509)GCT>GAT	p.A503D	SLC13A4_uc003vtb.2_Missense_Mutation_p.A504D|PL-5283_uc003vsz.3_Intron	NM_012450	NP_036582	Q9UKG4	S13A4_HUMAN	solute carrier family 13 (sodium/sulfate	503	Helical; (Potential).					integral to plasma membrane	sodium:sulfate symporter activity				0						CAGGGTGACAGCCCACGGTGG	0.547000													66	167					5.98616e-33	6.96685e-33	0.014410	1	0	
CREB3L2	64764	broad.mit.edu	37	7	137612997	137612997	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:137612997G>A	uc003vtw.2	-	2	613	c.218C>T	c.(217-219)CCG>CTG	p.P73L	CREB3L2_uc003vtx.1_Missense_Mutation_p.P73L|CREB3L2_uc003vty.3_Missense_Mutation_p.P73L|CREB3L2_uc003vtv.2_Missense_Mutation_p.P10L	NM_194071	NP_919047	Q70SY1	CR3L2_HUMAN	cAMP responsive element binding protein 3-like	73	Cytoplasmic (Potential).				chondrocyte differentiation|positive regulation of transcription, DNA-dependent|response to endoplasmic reticulum stress|response to unfolded protein	endoplasmic reticulum membrane|integral to membrane|nucleus	cAMP response element binding|protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		FUS/CREB3L2(158)	soft_tissue(158)|upper_aerodigestive_tract(1)|ovary(1)	160						GAGAGGCGCCGGGGACGTCGG	0.577000			T	FUS	fibromyxoid sarcoma								6	24					0	0	0.001168	0	0	
OR2F2	135948	broad.mit.edu	37	7	143632486	143632486	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:143632486G>A	uc011ktv.1	+	1	161	c.161G>A	c.(160-162)CGA>CAA	p.R54Q		NM_001004685	NP_001004685	O95006	OR2F2_HUMAN	olfactory receptor, family 2, subfamily F,	54	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|skin(1)	4	Melanoma(164;0.0903)					CTGGACAGCCGACTCCACACT	0.507000													44	333					0	0	0.014410	0	0	
CNTNAP2	26047	broad.mit.edu	37	7	147092860	147092860	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:147092860C>T	uc003weu.1	+	10	2174	c.1658C>T	c.(1657-1659)GCG>GTG	p.A553V		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	553	Extracellular (Potential).				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			GACATGTGTGCGATCATAGAC	0.428000										HNSCC(39;0.1)			4	107					0	0	0.009096	0	0	
ZNF786	136051	broad.mit.edu	37	7	148767858	148767858	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:148767858G>A	uc003wfh.2	-	4	2143	c.2006C>T	c.(2005-2007)ACG>ATG	p.T669M	ZNF786_uc011kuk.1_Missense_Mutation_p.T632M|ZNF786_uc003wfi.2_Missense_Mutation_p.T583M	NM_152411	NP_689624	Q8N393	ZN786_HUMAN	zinc finger protein 786	669	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(3)|skin(1)	4	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00463)			TCCCGTGTGCGTTCTGATGTG	0.577000													30	119					0	0	0.008361	0	0	
ZNF398	57541	broad.mit.edu	37	7	148876830	148876830	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:148876830C>T	uc003wfl.2	+	6	2141	c.1866C>T	c.(1864-1866)GTC>GTT	p.V622V	ZNF398_uc011kul.1_Silent_p.V451V|ZNF398_uc011kum.1_Silent_p.V627V	NM_170686	NP_733787	Q8TD17	ZN398_HUMAN	zinc finger 398 isoform a	622					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00143)			GCCTGGGTGTCAACACTGAAG	0.532000													12	71					0	0	0.013537	0	0	
ZNF467	168544	broad.mit.edu	37	7	149463148	149463148	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:149463148G>A	uc003wgd.2	-	5	584	c.443C>T	c.(442-444)GCG>GTG	p.A148V	ZNF467_uc003wgc.2_Intron	NM_207336	NP_997219	Q7Z7K2	ZN467_HUMAN	zinc finger protein 467	148					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			CCCAGACAGCGCGAGCCCACT	0.692000													6	12					0	0	0.001984	0	0	
ZNF467	168544	broad.mit.edu	37	7	149463207	149463207	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:149463207C>T	uc003wgd.2	-	5	525	c.384G>A	c.(382-384)GGG>GGA	p.G128G	ZNF467_uc003wgc.2_Intron	NM_207336	NP_997219	Q7Z7K2	ZN467_HUMAN	zinc finger protein 467	128					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			CAGCCAGATGCCCCAGGTCAG	0.652000													12	45					0	0	0.010729	0	0	
GIMAP7	168537	broad.mit.edu	37	7	150217549	150217549	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:150217549C>T	uc003whk.2	+	2	617	c.487C>T	c.(487-489)CGC>TGC	p.R163C		NM_153236	NP_694968	Q8NHV1	GIMA7_HUMAN	GTPase, IMAP family member 7	163							GTP binding			pancreas(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(82;0.0218)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		GTGCGGGAACCGCTGCTGTGC	0.502000													6	69					0	0	0.001168	0	0	
SLC4A2	6522	broad.mit.edu	37	7	150772823	150772823	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:150772823G>A	uc003wit.3	+	21	3688	c.3432G>A	c.(3430-3432)ATG>ATA	p.M1144I	SLC4A2_uc011kve.1_Missense_Mutation_p.M1135I|SLC4A2_uc003wiu.3_Missense_Mutation_p.M1130I|SLC4A2_uc003wiv.3_Missense_Mutation_p.M338I|uc011kvf.1_Intron	NM_003040	NP_003031	P04920	B3A2_HUMAN	solute carrier family 4, anion exchanger, member	1144	Membrane (anion exchange).				bicarbonate transport	integral to membrane|membrane fraction	inorganic anion exchanger activity				0			OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		TGCTGCTCATGCCGCCCAAAC	0.587000													36	49					0	0	0.006999	0	0	
FASTK	10922	broad.mit.edu	37	7	150774416	150774416	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:150774416C>T	uc003wix.1	-	7	1370	c.1272G>A	c.(1270-1272)GTG>GTA	p.V424V	uc011kvf.1_5'Flank|FASTK_uc003wiw.1_Silent_p.V185V|FASTK_uc003wiy.1_Silent_p.V283V|FASTK_uc003wiz.1_Silent_p.V397V|FASTK_uc003wja.1_3'UTR	NM_006712	NP_006703	Q14296	FASTK_HUMAN	Fas-activated serine/threonine kinase isoform 1	424			V -> L (in a lung adenocarcinoma sample; somatic mutation).		apoptosis|induction of apoptosis by extracellular signals|regulation of RNA splicing		ATP binding|Fas-activated serine/threonine kinase activity|protein binding	p.V424L(2)		lung(2)|stomach(2)	4			OV - Ovarian serous cystadenocarcinoma(82;0.00989)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)|LUSC - Lung squamous cell carcinoma(290;0.0718)|Lung(243;0.138)		AGCCTGGAGGCACAGTCAGGT	0.562000													22	61					0	0	0.003330	0	0	
MLL3	58508	broad.mit.edu	37	7	151856107	151856107	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:151856107C>T	uc003wla.2	-	44	11730	c.11511G>A	c.(11509-11511)TTG>TTA	p.L3837L	MLL3_uc003wkz.2_Silent_p.L2898L|MLL3_uc003wkx.2_5'Flank|MLL3_uc003wky.2_Silent_p.L1346L	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	3837					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		CTGTTTTTGGCAACTGGTTGC	0.433000			N		medulloblastoma								7	136					0	0	0.001984	0	0	
MLL3	58508	broad.mit.edu	37	7	151878420	151878420	+	Silent	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:151878420A>G	uc003wla.2	-	36	6744	c.6525T>C	c.(6523-6525)AGT>AGC	p.S2175S	MLL3_uc003wkz.2_Silent_p.S1236S	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	2175	Pro-rich.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		GGGGCTGCTGACTATATGGGT	0.463000			N		medulloblastoma								49	128					0	0	0.014410	0	0	
DPP6	1804	broad.mit.edu	37	7	154681010	154681010	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:154681010C>T	uc003wlk.2	+	24	2462	c.2333C>T	c.(2332-2334)GCG>GTG	p.A778V	DPP6_uc003wli.2_Missense_Mutation_p.A714V|DPP6_uc003wlm.2_Missense_Mutation_p.A716V|DPP6_uc011kvq.1_Missense_Mutation_p.A671V	NM_130797	NP_570629	P42658	DPP6_HUMAN	dipeptidyl-peptidase 6 isoform 1	778	Extracellular (Potential).				cell death|proteolysis	integral to membrane	dipeptidyl-peptidase activity|serine-type peptidase activity			pancreas(3)|breast(1)	4	all_neural(206;0.181)	all_hematologic(28;0.0044)|all_lung(21;0.0176)|Lung NSC(21;0.0204)	OV - Ovarian serous cystadenocarcinoma(82;0.0562)			CGAGTCTCCGCGCTGGAAGAA	0.537000													8	25					0	0	0.006214	0	0	
NOM1	64434	broad.mit.edu	37	7	156755705	156755705	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:156755705C>T	uc003wmy.2	+	6	1762	c.1747C>T	c.(1747-1749)CGC>TGC	p.R583C	NOM1_uc010lqp.1_Missense_Mutation_p.R32C	NM_138400	NP_612409	Q5C9Z4	NOM1_HUMAN	nucleolar protein with MIF4G domain 1	583					RNA metabolic process	nucleolus	protein binding				0	Ovarian(565;0.218)	all_hematologic(28;0.0749)	OV - Ovarian serous cystadenocarcinoma(82;0.00301)	UCEC - Uterine corpus endometrioid carcinoma (81;0.169)		TCATCAGGTCCGCAACGCCGG	0.527000													6	37					0	0	0.001984	0	0	
PTPRN2	5799	broad.mit.edu	37	7	157414084	157414084	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:157414084G>A	uc003wno.2	-	15	2435	c.2314C>T	c.(2314-2316)CCC>TCC	p.P772S	PTPRN2_uc003wnp.2_Missense_Mutation_p.P755S|PTPRN2_uc003wnq.2_Missense_Mutation_p.P743S|PTPRN2_uc003wnr.2_Missense_Mutation_p.P734S|PTPRN2_uc011kwa.1_Missense_Mutation_p.P795S	NM_002847	NP_002838	Q92932	PTPR2_HUMAN	protein tyrosine phosphatase, receptor type, N	772	Cytoplasmic (Potential).|Tyrosine-protein phosphatase.					integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|large_intestine(1)|pleura(1)|skin(1)	7	all_neural(206;0.181)	all_cancers(7;8.99e-13)|all_epithelial(9;2.4e-06)|all_hematologic(28;0.0155)|Breast(660;0.132)	OV - Ovarian serous cystadenocarcinoma(82;0.00463)	STAD - Stomach adenocarcinoma(7;0.0875)		CGGTTCTTGGGCACGTTCTCC	0.647000													77	301					0	0	0.014410	0	0	
ZNF596	169270	broad.mit.edu	37	8	196026	196026	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:196026C>T	uc003wot.2	+	6	1467	c.1179C>T	c.(1177-1179)TGC>TGT	p.C393C	ZNF596_uc003wou.2_Silent_p.C292C|ZNF596_uc003wov.2_Silent_p.C393C|ZNF596_uc003wow.2_Silent_p.C393C	NM_173539	NP_775810	Q8TC21	ZN596_HUMAN	zinc finger protein 596	393	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(2;4.81e-29)|all_epithelial(2;5.03e-19)|Lung NSC(2;8.68e-08)|all_lung(2;1.52e-07)|Ovarian(12;0.00965)|Colorectal(14;0.0367)|all_neural(12;0.0837)|Myeloproliferative disorder(644;0.116)|all_hematologic(2;0.138)|Acute lymphoblastic leukemia(644;0.242)		Epithelial(5;3.77e-18)|all cancers(2;5.2e-17)|OV - Ovarian serous cystadenocarcinoma(5;5.37e-09)|BRCA - Breast invasive adenocarcinoma(11;1.7e-06)|Colorectal(2;6.51e-05)|READ - Rectum adenocarcinoma(2;0.0276)|COAD - Colon adenocarcinoma(149;0.0702)		CATATGAGTGCCATGTATGTG	0.428000													8	70					0	0	0.003080	0	0	
MYOM2	9172	broad.mit.edu	37	8	2072088	2072088	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:2072088G>A	uc003wpx.3	+	31	3830	c.3692G>A	c.(3691-3693)TGT>TAT	p.C1231Y	MYOM2_uc011kwi.1_Missense_Mutation_p.C656Y	NM_003970	NP_003961	P54296	MYOM2_HUMAN	myomesin 2	1231					muscle contraction	myosin filament	structural constituent of muscle			ovary(4)|central_nervous_system(1)|skin(1)	6		Ovarian(12;0.0572)|Colorectal(14;0.0844)|Hepatocellular(245;0.217)		BRCA - Breast invasive adenocarcinoma(11;1.85e-05)|Colorectal(4;0.0101)|READ - Rectum adenocarcinoma(4;0.148)|COAD - Colon adenocarcinoma(4;0.179)		AGTAGAGTCTGTGGTAAGTAA	0.408000													6	24					0	0	0.001984	0	0	
CSMD1	64478	broad.mit.edu	37	8	2836280	2836280	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:2836280C>T	uc011kwk.1	-	55	8813	c.8423G>A	c.(8422-8424)CGT>CAT	p.R2808H	CSMD1_uc011kwj.1_Missense_Mutation_p.R2137H|CSMD1_uc010lrg.2_Missense_Mutation_p.R818H	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	2808	Extracellular (Potential).|Sushi 20.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		TTGCCCGTGACGAATGGCATT	0.403000													6	13					0	0	0.001984	0	0	
RHOBTB2	23221	broad.mit.edu	37	8	22864845	22864845	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:22864845C>T	uc003xcq.2	+	5	1624	c.1087C>T	c.(1087-1089)CGT>TGT	p.R363C	RHOBTB2_uc003xcp.2_Missense_Mutation_p.R385C|RHOBTB2_uc011kzp.1_Missense_Mutation_p.R370C|uc003xcr.2_RNA	NM_015178	NP_055993	Q9BYZ6	RHBT2_HUMAN	Rho-related BTB domain containing 2 isoform 3	363	BTB 1.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	GTP binding			ovary(1)|lung(1)	2		Prostate(55;0.0513)|Breast(100;0.214)		Colorectal(74;0.0157)|COAD - Colon adenocarcinoma(73;0.064)		TGCTGGCCTCCGTGCTTCCAC	0.592000													8	164					0	0	0.003080	0	0	
TRIM35	23087	broad.mit.edu	37	8	27145611	27145611	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:27145611C>T	uc003xfl.1	-	6	1020	c.938G>A	c.(937-939)GGC>GAC	p.G313D	TRIM35_uc010lup.1_3'UTR	NM_171982	NP_741983	Q9UPQ4	TRI35_HUMAN	tripartite motif-containing 35 isoform 2	313	B30.2/SPRY.				apoptosis|induction of apoptosis|negative regulation of mitotic cell cycle	cytoplasm|nucleus	zinc ion binding				0		Ovarian(32;2.61e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0213)|Epithelial(17;9.34e-10)|Colorectal(74;0.141)		GGAGAGCCAGCCAGCTGCGGT	0.612000													8	70					0	0	0.008291	0	0	
TRIM35	23087	broad.mit.edu	37	8	27151667	27151667	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:27151667G>A	uc003xfl.1	-	3	774	c.692C>T	c.(691-693)ACG>ATG	p.T231M	TRIM35_uc010lup.1_Missense_Mutation_p.T199M|TRIM35_uc003xfm.1_RNA	NM_171982	NP_741983	Q9UPQ4	TRI35_HUMAN	tripartite motif-containing 35 isoform 2	231	Potential.				apoptosis|induction of apoptosis|negative regulation of mitotic cell cycle	cytoplasm|nucleus	zinc ion binding				0		Ovarian(32;2.61e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0213)|Epithelial(17;9.34e-10)|Colorectal(74;0.141)		CAGCACCTCCGTCTCCTCTGT	0.552000													15	72					0	0	0.006122	0	0	
SCARA5	286133	broad.mit.edu	37	8	27779531	27779531	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:27779531G>A	uc003xgj.2	-	4	913	c.473C>T	c.(472-474)GCG>GTG	p.A158V	SCARA5_uc010luz.2_Intron|SCARA5_uc003xgk.2_Missense_Mutation_p.A115V|SCARA5_uc003xgl.2_Missense_Mutation_p.A158V	NM_173833	NP_776194	Q6ZMJ2	SCAR5_HUMAN	scavenger receptor class A, member 5	158	Extracellular (Potential).				cellular iron ion homeostasis|endocytosis|iron ion transmembrane transport|protein homotrimerization	integral to plasma membrane	ferritin receptor activity|scavenger receptor activity			central_nervous_system(1)|skin(1)	2		Ovarian(32;0.0218)		UCEC - Uterine corpus endometrioid carcinoma (27;0.023)|KIRC - Kidney renal clear cell carcinoma(542;0.152)|Kidney(114;0.181)|Colorectal(74;0.228)		CACCGCCTGCGCCTGCAGCCC	0.721000													4	4					0	0	0.000602	0	0	
DUSP4	1846	broad.mit.edu	37	8	29195908	29195908	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:29195908C>T	uc003xhm.2	-	3	1080	c.690G>A	c.(688-690)TCG>TCA	p.S230S	DUSP4_uc003xhl.2_Silent_p.S139S	NM_001394	NP_001385	Q13115	DUS4_HUMAN	dual specificity phosphatase 4 isoform 1	230	Tyrosine-protein phosphatase.				endoderm formation|inactivation of MAPK activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|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	nucleoplasm	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/threonine phosphatase activity			lung(1)	1				KIRC - Kidney renal clear cell carcinoma(542;0.094)|Kidney(114;0.113)		TTGGGCAGTCCGAGGAGACAT	0.552000													10	64					0	0	0.013537	0	0	
FGFR1	2260	broad.mit.edu	37	8	38275456	38275456	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:38275456G>A	uc003xlp.2	-	12	2426	c.1484C>T	c.(1483-1485)GCA>GTA	p.A495V	FGFR1_uc010lwf.2_RNA|FGFR1_uc011lbo.1_Missense_Mutation_p.A493V|FGFR1_uc011lbp.1_Missense_Mutation_p.A406V|FGFR1_uc011lbq.1_Missense_Mutation_p.A404V|FGFR1_uc010lwk.2_Missense_Mutation_p.A485V	NM_023110	NP_075598	P11362	FGFR1_HUMAN	fibroblast growth factor receptor 1 isoform 1	495	Cytoplasmic (Potential).|Protein kinase.				axon guidance|cell growth|insulin receptor signaling pathway|MAPKKK cascade|positive regulation of cell proliferation|skeletal system development	extracellular region|integral to plasma membrane|membrane fraction	ATP binding|fibroblast growth factor receptor activity|heparin binding|protein homodimerization activity			lung(5)|central_nervous_system(5)|stomach(2)|breast(2)|ovary(1)	15	all_cancers(2;9.05e-47)|all_epithelial(2;2.64e-50)|all_lung(3;1.71e-23)|Lung NSC(2;3.61e-23)|Colorectal(12;0.000442)	Breast(189;1.48e-05)|all_lung(54;0.00354)|Lung NSC(58;0.0138)|Hepatocellular(245;0.065)	Epithelial(3;3.96e-34)|all cancers(3;3.06e-30)|BRCA - Breast invasive adenocarcinoma(5;2.28e-21)|COAD - Colon adenocarcinoma(9;0.24)		Palifermin(DB00039)	GATAGCCTCTGCCAACACCAC	0.522000		1	T	BCR|FOP|ZNF198|CEP1	MPD|NHL		Pfeiffer syndrome|Kallman syndrome						5	101					0	0	0.001984	0	0	
ADAM32	203102	broad.mit.edu	37	8	39131857	39131857	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:39131857C>G	uc003xmt.3	+	21	2473	c.2228C>G	c.(2227-2229)ACA>AGA	p.T743R	ADAM32_uc011lch.1_Missense_Mutation_p.T644R|ADAM32_uc003xmu.3_Intron|ADAM32_uc003xmv.2_Intron	NM_145004	NP_659441	Q8TC27	ADA32_HUMAN	a disintegrin and metalloprotease domain 32	743	Cytoplasmic (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)|kidney(1)	3		all_cancers(7;3e-05)|all_lung(54;0.00187)|Hepatocellular(245;0.00745)|Lung NSC(58;0.00771)|Breast(189;0.0503)	LUSC - Lung squamous cell carcinoma(45;6.2e-07)|Colorectal(1;0.00699)|READ - Rectum adenocarcinoma(1;0.146)			AGCACTCAGACATATGCCAGC	0.308000													4	93					0	0	0.000602	0	0	
POLB	5423	broad.mit.edu	37	8	42207582	42207582	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:42207582G>T	uc003xoz.1	+	5	432	c.319G>T	c.(319-321)GGT>TGT	p.G107C	POLB_uc003xpa.1_Missense_Mutation_p.G107C|POLB_uc011lcs.1_Intron	NM_002690	NP_002681	P06746	DPOLB_HUMAN	DNA-directed DNA polymerase beta	107					DNA-dependent DNA replication	cytoplasm|nucleoplasm|spindle microtubule	DNA-(apurinic or apyrimidinic site) lyase activity|DNA-directed DNA polymerase activity|enzyme binding|metal ion binding|microtubule binding			ovary(1)|breast(1)	2	all_cancers(6;1.42e-24)|all_epithelial(6;1.02e-25)|all_lung(13;2.58e-12)|Lung NSC(13;4.24e-11)|Ovarian(28;0.00769)|Prostate(17;0.0119)|Colorectal(14;0.1)|Lung SC(25;0.211)	all_lung(54;0.00671)|Lung NSC(58;0.0184)|Esophageal squamous(32;0.131)|Hepatocellular(245;0.133)|Renal(179;0.151)	BRCA - Breast invasive adenocarcinoma(8;3.18e-11)|Lung(22;0.00467)|OV - Ovarian serous cystadenocarcinoma(14;0.00523)|LUSC - Lung squamous cell carcinoma(45;0.024)		Cytarabine(DB00987)	TAGTGGCATTGGGTAAGAACT	0.348000								DNA_polymerases_(catalytic_subunits)					4	76					0.00909568	0.00934665	0.009096	1	0	
HOOK3	84376	broad.mit.edu	37	8	42812260	42812260	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:42812260C>T	uc003xpr.2	+	7	734	c.492C>T	c.(490-492)GTC>GTT	p.V164V	HOOK3_uc010lxq.1_Silent_p.V164V	NM_032410	NP_115786	Q86VS8	HOOK3_HUMAN	golgi-associated microtubule-binding protein	164	Sufficient for interaction with microtubules.				cytoplasmic microtubule organization|early endosome to late endosome transport|endosome organization|endosome to lysosome transport|Golgi localization|interkinetic nuclear migration|lysosome organization|microtubule anchoring|negative regulation of neurogenesis|protein localization to centrosome|protein transport	cis-Golgi network|FHF complex|microtubule|pericentriolar material	identical protein binding|microtubule binding			ovary(1)|breast(1)	2	Ovarian(28;0.01)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.000105)|Lung NSC(58;0.000419)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.129)	Lung(22;0.048)|LUSC - Lung squamous cell carcinoma(45;0.114)			AATCTCCTGTCTCTGCTGGAA	0.303000			T	RET	papillary thyroid								8	16					0	0	0.004482	0	0	
HOOK3	84376	broad.mit.edu	37	8	42821647	42821647	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:42821647C>T	uc003xpr.2	+	10	1053	c.811C>T	c.(811-813)CGT>TGT	p.R271C	HOOK3_uc010lxq.1_Missense_Mutation_p.R271C	NM_032410	NP_115786	Q86VS8	HOOK3_HUMAN	golgi-associated microtubule-binding protein	271	Potential.				cytoplasmic microtubule organization|early endosome to late endosome transport|endosome organization|endosome to lysosome transport|Golgi localization|interkinetic nuclear migration|lysosome organization|microtubule anchoring|negative regulation of neurogenesis|protein localization to centrosome|protein transport	cis-Golgi network|FHF complex|microtubule|pericentriolar material	identical protein binding|microtubule binding			ovary(1)|breast(1)	2	Ovarian(28;0.01)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.000105)|Lung NSC(58;0.000419)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.129)	Lung(22;0.048)|LUSC - Lung squamous cell carcinoma(45;0.114)			TTATCGAATACGTTGTGAAGA	0.398000			T	RET	papillary thyroid								8	112					0	0	0.003080	0	0	
MCM4	4173	broad.mit.edu	37	8	48874074	48874074	+	Splice_Site	SNP	A	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:48874074A>C	uc003xqk.1	+	3	166	c.71_splice	c.e3-2	p.P24_splice	PRKDC_uc003xqi.2_5'Flank|PRKDC_uc003xqj.2_5'Flank|PRKDC_uc011ldh.1_5'Flank|MCM4_uc003xql.1_Splice_Site_p.P24_splice|MCM4_uc011ldi.1_Splice_Site_p.P24_splice|MCM4_uc010lxw.1_Splice_Site	NM_182746	NP_877423	P33991	MCM4_HUMAN	minichromosome maintenance complex component 4						cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	MCM complex	ATP binding|DNA binding|helicase activity|protein binding			ovary(2)|skin(2)	4		all_cancers(86;0.026)|all_epithelial(80;0.000748)|Lung NSC(129;0.00327)|all_lung(136;0.00354)				GTGTGACACAAGCTCGGAGTG	0.542000													4	63					0	0	0.009096	0	0	
UBE2V2	7336	broad.mit.edu	37	8	48955657	48955657	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:48955657C>T	uc003xqm.2	+	2	102	c.81C>T	c.(79-81)GGC>GGT	p.G27G		NM_003350	NP_003341	Q15819	UB2V2_HUMAN	ubiquitin-conjugating enzyme E2v2	27					cell proliferation|DNA double-strand break processing|protein polyubiquitination|regulation of DNA repair	cytoplasm|nucleus|UBC13-MMS2 complex	acid-amino acid ligase activity|protein binding				0		all_cancers(86;0.026)|all_epithelial(80;0.000748)|Lung NSC(129;0.00171)|all_lung(136;0.00196)				AAGGAGTAGGCGACGGTACAG	0.408000								Direct_reversal_of_damage|Rad6_pathway					16	122					0	0	0.004990	0	0	
RB1CC1	9821	broad.mit.edu	37	8	53568774	53568774	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:53568774G>A	uc003xre.3	-	15	4173	c.3615C>T	c.(3613-3615)TAC>TAT	p.Y1205Y	RB1CC1_uc003xrf.3_Silent_p.Y1205Y	NM_014781	NP_055596	Q8TDY2	RBCC1_HUMAN	Rb1-inducible coiled coil protein 1 isoform 1	1205	Potential.				autophagy|cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus|pre-autophagosomal structure|ULK1-ATG13-FIP200 complex	protein binding			ovary(8)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)	11		all_cancers(86;0.137)|all_epithelial(80;0.00494)|Lung NSC(129;0.011)|all_lung(136;0.023)				TAATAGCTTCGTATTTCTCTT	0.343000													33	123					0	0	0.012213	0	0	
SLCO5A1	81796	broad.mit.edu	37	8	70585114	70585114	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:70585114G>A	uc003xyl.2	-	10	3244	c.2537C>T	c.(2536-2538)CCG>CTG	p.P846L	SLCO5A1_uc010lzb.2_Missense_Mutation_p.P791L|SLCO5A1_uc011lfa.1_RNA|SLCO5A1_uc003xyk.2_3'UTR	NM_030958	NP_112220	Q9H2Y9	SO5A1_HUMAN	solute carrier organic anion transporter family,	846						integral to membrane|plasma membrane	transporter activity			ovary(3)|upper_aerodigestive_tract(1)	4	Breast(64;0.0654)		Epithelial(68;0.0141)|OV - Ovarian serous cystadenocarcinoma(28;0.0315)|all cancers(69;0.0594)			TCAGGAGGGCGGCTCCAAGGC	0.512000													24	81					0	0	0.014323	0	0	
SLCO5A1	81796	broad.mit.edu	37	8	70744651	70744651	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:70744651C>T	uc003xyl.2	-	2	965	c.258G>A	c.(256-258)CCG>CCA	p.P86P	SLCO5A1_uc010lzb.2_Silent_p.P86P|SLCO5A1_uc011lfa.1_RNA|SLCO5A1_uc003xyk.2_Silent_p.P86P|SLCO5A1_uc010lzc.2_Silent_p.P86P	NM_030958	NP_112220	Q9H2Y9	SO5A1_HUMAN	solute carrier organic anion transporter family,	86	Cytoplasmic (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|upper_aerodigestive_tract(1)	4	Breast(64;0.0654)		Epithelial(68;0.0141)|OV - Ovarian serous cystadenocarcinoma(28;0.0315)|all cancers(69;0.0594)			CCGAAGTGGACGGGGCAGAGG	0.642000											OREG0018815	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	55					0	0	0.002450	0	0	
TRPA1	8989	broad.mit.edu	37	8	72946517	72946517	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:72946517A>G	uc003xza.2	-	22	2826	c.2651T>C	c.(2650-2652)TTT>TCT	p.F884S	uc011lff.1_Intron|uc003xyy.2_Intron	NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	884	Helical; Name=5; (Potential).					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	GCTGAGTCCAAAAGCCAGAAG	0.303000													14	70					0	0	0.003163	0	0	
PAG1	55824	broad.mit.edu	37	8	81897284	81897284	+	Silent	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:81897284A>G	uc003ybz.2	-	7	1314	c.603T>C	c.(601-603)AGT>AGC	p.S201S		NM_018440	NP_060910	Q9NWQ8	PAG1_HUMAN	phosphoprotein associated with glycosphingolipid	201	Cytoplasmic (Potential).				epidermal growth factor receptor signaling pathway|intracellular signal transduction|T cell receptor signaling pathway	integral to membrane|intracellular|membrane raft|plasma membrane	SH2 domain binding|SH3/SH2 adaptor activity				0	Lung NSC(7;5.76e-06)|all_lung(9;2e-05)		BRCA - Breast invasive adenocarcinoma(6;0.0567)|Epithelial(68;0.0634)|all cancers(69;0.197)			TTGCCTTGCCACTGTGGCCTT	0.512000													9	95					0	0	0.004482	0	0	
MTERFD1	51001	broad.mit.edu	37	8	97269256	97269256	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:97269256G>A	uc003yhs.1	-	3	499	c.421C>T	c.(421-423)CCA>TCA	p.P141S	MTERFD1_uc003yhr.1_Missense_Mutation_p.P20S|MTERFD1_uc010mbd.1_Missense_Mutation_p.P141S	NM_015942	NP_057026	Q96E29	MTER1_HUMAN	MTERF domain containing 1 precursor	141					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion	transcription regulatory region DNA binding			ovary(1)	1	Breast(36;5.16e-05)					AATGAAGCTGGTGGCAATGGA	0.418000													5	47					0	0	0.000602	0	0	
VPS13B	157680	broad.mit.edu	37	8	100791202	100791202	+	Silent	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:100791202A>G	uc003yiv.2	+	42	7908	c.7797A>G	c.(7795-7797)GTA>GTG	p.V2599V	VPS13B_uc003yiw.2_Silent_p.V2574V	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	2599					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			CTGTATTTGTAAACCTTGGAC	0.443000													3	77					0	0	0.004672	0	0	
TNFRSF11B	4982	broad.mit.edu	37	8	119941097	119941097	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:119941097C>T	uc003yon.3	-	3	795	c.472G>A	c.(472-474)GCA>ACA	p.A158T	TNFRSF11B_uc010mdc.1_RNA	NM_002546	NP_002537	O00300	TR11B_HUMAN	osteoprotegerin precursor	158	TNFR-Cys 4.				apoptosis|skeletal system development		cytokine activity|receptor activity			central_nervous_system(2)	2	all_cancers(13;3.71e-26)|Lung NSC(37;1.69e-07)|Ovarian(258;0.018)|all_neural(195;0.0592)|Hepatocellular(40;0.234)		STAD - Stomach adenocarcinoma(47;0.00193)			CTACAGGGTGCTTTAGATGAC	0.418000													21	93					0	0	0.008871	0	0	
ADCY8	114	broad.mit.edu	37	8	132051861	132051861	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:132051861G>A	uc003ytd.3	-	1	975	c.719C>T	c.(718-720)ACG>ATG	p.T240M	ADCY8_uc010mds.2_Missense_Mutation_p.T240M	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	240					activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			CTGCAGGTACGTGTGGGAGGT	0.647000										HNSCC(32;0.087)			10	30					0	0	0.010729	0	0	
TG	7038	broad.mit.edu	37	8	134034247	134034247	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:134034247G>A	uc003ytw.2	+	40	6929	c.6888G>A	c.(6886-6888)GCG>GCA	p.A2296A	TG_uc010mdw.2_Silent_p.A1055A|TG_uc011ljb.1_Silent_p.A665A|TG_uc011ljc.1_Silent_p.A429A	NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	2296					hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		CCCCTAACGCGTCTGTGCTGG	0.562000													21	67					0	0	0.010504	0	0	
COL22A1	169044	broad.mit.edu	37	8	139636008	139636008	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:139636008G>A	uc003yvd.2	-	52	4185	c.3738C>T	c.(3736-3738)GGC>GGT	p.G1246G	COL22A1_uc011ljo.1_Silent_p.G526G	NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	1246	Pro-rich.|Gly-rich.				cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(11)|pancreas(1)|skin(1)	13	all_epithelial(106;1.55e-12)|Lung NSC(106;1.67e-05)|all_lung(105;3.39e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0517)			TTCCATCTCTGCCCTCTTTGC	0.433000										HNSCC(7;0.00092)			14	215					0	0	0.001855	0	0	
TRAPPC9	83696	broad.mit.edu	37	8	141407727	141407727	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:141407727G>T	uc003yvj.2	-	7	1260	c.1126C>A	c.(1126-1128)CTT>ATT	p.L376I	TRAPPC9_uc003yvh.2_Missense_Mutation_p.L474I|TRAPPC9_uc003yvi.1_Missense_Mutation_p.L367I	NM_001160372	NP_001153844	Q96Q05	TPPC9_HUMAN	trafficking protein particle complex 9 isoform	376					cell differentiation	endoplasmic reticulum|Golgi apparatus				skin(2)	2						ACCTGTCGAAGGTTAATGTAA	0.418000													4	94					4.096e-09	4.55977e-09	0.001168	1	0	
FAM83H	286077	broad.mit.edu	37	8	144810245	144810245	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:144810245C>T	uc003yzk.2	-	5	1455	c.1386G>A	c.(1384-1386)CCG>CCA	p.P462P	FAM83H_uc010mfk.1_RNA	NM_198488	NP_940890	Q6ZRV2	FA83H_HUMAN	FAM83H	462					biomineral tissue development					lung(1)|central_nervous_system(1)|pancreas(1)	3	all_cancers(97;3.74e-11)|all_epithelial(106;2.62e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.38e-41)|Epithelial(56;6.8e-40)|all cancers(56;6.43e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.146)			GCGTGAGCTGCGGGTCCCACT	0.701000													6	108					0	0	0.001984	0	0	
EPPK1	83481	broad.mit.edu	37	8	144946676	144946676	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:144946676T>G	uc003zaa.1	-	1	759	c.746A>C	c.(745-747)GAG>GCG	p.E249A		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	249						cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			GATGCCCACCTCCAGCAGCTC	0.692000													4	19					0	0	0.001168	0	0	
PLEC	5339	broad.mit.edu	37	8	144994175	144994175	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:144994175G>A	uc003zaf.1	-	32	10395	c.10225C>T	c.(10225-10227)CGT>TGT	p.R3409C	PLEC_uc003zab.1_Missense_Mutation_p.R3272C|PLEC_uc003zac.1_Missense_Mutation_p.R3276C|PLEC_uc003zad.2_Missense_Mutation_p.R3272C|PLEC_uc003zae.1_Missense_Mutation_p.R3240C|PLEC_uc003zag.1_Missense_Mutation_p.R3250C|PLEC_uc003zah.2_Missense_Mutation_p.R3258C|PLEC_uc003zaj.2_Missense_Mutation_p.R3299C	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	3409	Globular 2.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						CGGAACTGACGCAACAGCTCC	0.607000													6	128					0	0	0.001984	0	0	
GRINA	2907	broad.mit.edu	37	8	145065972	145065972	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:145065972G>T	uc003zan.1	+	3	658	c.492G>T	c.(490-492)AAG>AAT	p.K164N	GRINA_uc003zao.1_Missense_Mutation_p.K164N|GRINA_uc003zap.1_Missense_Mutation_p.K164N	NM_001009184	NP_001009184	Q7Z429	GRINA_HUMAN	glutamate receptor, ionotropic, N-methyl	164						integral to membrane				central_nervous_system(1)	1	all_cancers(97;8.2e-11)|all_epithelial(106;1.1e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.31e-40)|Epithelial(56;1.16e-39)|all cancers(56;6.43e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			TCATCCGCAAGGTGGGTAGGG	0.607000													5	98					0.00116845	0.001218	0.001168	1	0	
LRRC14	9684	broad.mit.edu	37	8	145746387	145746387	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:145746387C>A	uc003zdk.1	+	4	1153	c.1007C>A	c.(1006-1008)GCC>GAC	p.A336D	LRRC14_uc003zdl.1_Missense_Mutation_p.A336D|LRRC14_uc003zdo.2_5'Flank	NM_014665	NP_055480	Q15048	LRC14_HUMAN	leucine rich repeat containing 14	336											0	all_cancers(97;5.56e-11)|all_epithelial(106;3.54e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.48e-41)|Epithelial(56;1.85e-40)|all cancers(56;3.59e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0483)|Colorectal(110;0.055)			CCACATGCTGCCCACCTCAAG	0.617000													8	172					0.00307968	0.00318596	0.003080	1	0	
ZNF251	90987	broad.mit.edu	37	8	145948606	145948606	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:145948606C>T	uc003zdv.3	-	5	695	c.439G>A	c.(439-441)GTG>ATG	p.V147M		NM_138367	NP_612376	Q9BRH9	ZN251_HUMAN	zinc finger protein 251	147					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(97;3.54e-11)|all_epithelial(106;2.65e-10)|Lung NSC(106;4.08e-05)|all_lung(105;0.000125)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.75e-39)|Epithelial(56;7.54e-38)|all cancers(56;6.19e-33)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.11)	GBM - Glioblastoma multiforme(99;0.198)		GAATTTCCCACGCGCTCTTTG	0.478000													18	86					0	0	0.006122	0	0	
COMMD5	28991	broad.mit.edu	37	8	146076615	146076615	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr8:146076615C>A	uc003zem.2	-	2	240	c.109G>T	c.(109-111)GCC>TCC	p.A37S	COMMD5_uc003zel.1_RNA|COMMD5_uc003zen.2_Missense_Mutation_p.A37S|COMMD5_uc003zeo.3_Missense_Mutation_p.A37S|COMMD5_uc010mgf.2_Missense_Mutation_p.A37S	NM_001081004	NP_001074473	Q9GZQ3	COMD5_HUMAN	COMM domain containing 5	37						nucleus	protein binding			ovary(1)	1	all_cancers(97;1.14e-11)|all_epithelial(106;7.74e-11)|Lung NSC(106;4.08e-05)|all_lung(105;0.000125)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		Epithelial(56;8.75e-39)|OV - Ovarian serous cystadenocarcinoma(54;1.13e-38)|all cancers(56;8.48e-34)|BRCA - Breast invasive adenocarcinoma(115;0.0355)|Colorectal(110;0.055)			AGTAGCCGGGCCATTGCTGCC	0.597000													29	121					7.68411e-24	8.92607e-24	0.008361	1	0	
CBWD1	55871	broad.mit.edu	37	9	164038	164038	+	Splice_Site	SNP	C	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:164038C>G	uc003zga.3	-	5	537	c.431_splice	c.e5-1	p.G144_splice	CBWD1_uc010mgs.2_Splice_Site|CBWD1_uc003zgb.3_Splice_Site_p.G108_splice|CBWD1_uc003zgc.3_Splice_Site_p.G144_splice|CBWD1_uc011llr.1_Splice_Site_p.G108_splice	NM_018491	NP_060961	Q9BRT8	CBWD1_HUMAN	COBW domain containing 1 isoform 1								ATP binding|protein binding			ovary(1)	1	all_lung(41;0.218)	all_cancers(5;3.04e-16)|all_epithelial(5;4.68e-12)|all_lung(10;1.94e-10)|Lung NSC(10;3.61e-10)|Acute lymphoblastic leukemia(5;0.00439)|Breast(48;0.0148)|all_hematologic(5;0.024)|Prostate(43;0.122)	Kidney(42;0.112)|KIRC - Kidney renal clear cell carcinoma(5;0.157)	all cancers(5;0.000704)|Lung(218;0.00755)|GBM - Glioblastoma multiforme(5;0.0149)|Epithelial(6;0.0154)		GCCACTGCACCTGAAAATATA	0.269000													9	146					0	0	0.004482	0	0	
DOCK8	81704	broad.mit.edu	37	9	379854	379854	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:379854C>T	uc003zgf.2	+	21	2636	c.2524C>T	c.(2524-2526)CAT>TAT	p.H842Y	DOCK8_uc010mgu.2_Missense_Mutation_p.H144Y|DOCK8_uc010mgv.2_Missense_Mutation_p.H774Y|DOCK8_uc010mgw.1_Missense_Mutation_p.H144Y|DOCK8_uc003zgk.2_Missense_Mutation_p.H300Y|DOCK8_uc003zgh.2_RNA	NM_203447	NP_982272	Q8NF50	DOCK8_HUMAN	dedicator of cytokinesis 8	842					blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)|central_nervous_system(3)	6		all_cancers(5;2.13e-17)|all_epithelial(5;2.15e-12)|all_lung(10;6.69e-11)|Lung NSC(10;1.08e-10)|Acute lymphoblastic leukemia(5;0.000242)|all_hematologic(5;0.00317)|Breast(48;0.0151)|Prostate(43;0.128)		all cancers(5;9.3e-07)|GBM - Glioblastoma multiforme(5;2.41e-06)|Epithelial(6;0.00557)|Lung(218;0.00942)		CAAGGACCAGCATGGGAGGAA	0.572000													13	57					0	0	0.001855	0	0	
DMRT3	58524	broad.mit.edu	37	9	990868	990868	+	Missense_Mutation	SNP	C	A	A	rs141821476	byFrequency	TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:990868C>A	uc003zgw.1	+	2	1320	c.1282C>A	c.(1282-1284)CGC>AGC	p.R428S		NM_021240	NP_067063	Q9NQL9	DMRT3_HUMAN	doublesex and mab-3 related transcription factor	428					cell differentiation|multicellular organismal development|sex differentiation	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity	p.R428C(1)		ovary(2)|central_nervous_system(1)	3		all_lung(10;1.39e-08)|Lung NSC(10;1.42e-08)		Lung(218;0.0196)		CCTTCCTGCCCGCGCCACGGA	0.552000													20	65					3.51602e-12	3.98633e-12	0.008871	1	0	
SMARCA2	6595	broad.mit.edu	37	9	2060967	2060967	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:2060967A>G	uc003zhc.2	+	9	1772	c.1673A>G	c.(1672-1674)AAG>AGG	p.K558R	SMARCA2_uc003zhd.2_Missense_Mutation_p.K558R|SMARCA2_uc010mha.2_Missense_Mutation_p.K549R	NM_003070	NP_003061	P51531	SMCA2_HUMAN	SWI/SNF-related matrix-associated	558					chromatin remodeling|negative regulation of cell growth|negative regulation of transcription from RNA polymerase II promoter|nervous system development	intermediate filament cytoskeleton|nBAF complex|npBAF complex|nuclear chromatin|nucleoplasm|SWI/SNF complex|WINAC complex	ATP binding|DNA-dependent ATPase activity|helicase activity|protein binding|RNA polymerase II transcription coactivator activity|transcription regulatory region DNA binding			ovary(2)|central_nervous_system(1)	3		all_lung(10;2.06e-09)|Lung NSC(10;2.43e-09)		GBM - Glioblastoma multiforme(50;0.0475)		gagaagaagaagaggaggagg	0.418000													4	46					0	0	0.009096	0	0	
KCNV2	169522	broad.mit.edu	37	9	2717876	2717876	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:2717876G>A	uc003zho.1	+	1	351	c.137G>A	c.(136-138)TGG>TAG	p.W46*		NM_133497	NP_598004	Q8TDN2	KCNV2_HUMAN	potassium channel, subfamily V, member 2	46	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(50;0.0257)		ATCCACGGCTGGACAGAGGGC	0.617000													4	126					0	0	0.000602	0	0	
KCNV2	169522	broad.mit.edu	37	9	2718786	2718786	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:2718786G>A	uc003zho.1	+	1	1261	c.1047G>A	c.(1045-1047)CAG>CAA	p.Q349Q		NM_133497	NP_598004	Q8TDN2	KCNV2_HUMAN	potassium channel, subfamily V, member 2	349	Helical; Name=Segment S3; (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(50;0.0257)		TCTACCTTCAGCTGCTGCTCG	0.682000													20	97					0	0	0.012319	0	0	
NFIB	4781	broad.mit.edu	37	9	14125630	14125630	+	Splice_Site	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:14125630C>T	uc003zle.2	-	7	1495	c.1060_splice	c.e7+1	p.V354_splice	NFIB_uc003zld.2_Splice_Site_p.V102_splice|NFIB_uc003zlf.2_Splice_Site_p.V354_splice|NFIB_uc011lmo.1_Splice_Site_p.V354_splice	NM_005596	NP_005587	O00712	NFIB_HUMAN	nuclear factor I/B						anterior commissure morphogenesis|chondrocyte differentiation|Clara cell differentiation|commissural neuron axon guidance|DNA replication|glial cell differentiation|lung ciliated cell differentiation|negative regulation of DNA binding|negative regulation of epithelial cell proliferation involved in lung morphogenesis|negative regulation of mesenchymal cell proliferation involved in lung development|positive regulation of transcription from RNA polymerase II promoter|principal sensory nucleus of trigeminal nerve development|Type I pneumocyte differentiation|Type II pneumocyte differentiation	cerebellar mossy fiber|nucleolus|nucleus	RNA polymerase II transcription corepressor activity|sequence-specific DNA binding RNA polymerase II transcription factor activity				0				GBM - Glioblastoma multiforme(50;4.4e-08)|LUAD - Lung adenocarcinoma(58;0.119)|Lung(218;0.164)		AAACTCCTCACCACTGTGTGC	0.507000			T	MYB|HGMA2	adenoid cystic carcinoma|lipoma								5	158					0	0	0.000602	0	0	
FREM1	158326	broad.mit.edu	37	9	14737531	14737531	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:14737531T>A	uc003zlm.2	-	37	6993	c.6403A>T	c.(6403-6405)ACC>TCC	p.T2135S	FREM1_uc010mic.2_RNA|FREM1_uc003zlk.2_RNA|FREM1_uc003zll.2_Missense_Mutation_p.T671S	NM_144966	NP_659403	Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1 precursor	2135	C-type lectin.				cell communication|multicellular organismal development	basement membrane|integral to membrane	metal ion binding|sugar binding			ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(50;3.53e-06)		CTCCCATTGGTGAAGGCAACA	0.468000													5	20					0	0	0.000602	0	0	
FREM1	158326	broad.mit.edu	37	9	14823321	14823321	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:14823321G>T	uc003zlm.2	-	13	2764	c.2174C>A	c.(2173-2175)GCT>GAT	p.A725D	FREM1_uc010mic.2_RNA	NM_144966	NP_659403	Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1 precursor	725	CSPG 4.				cell communication|multicellular organismal development	basement membrane|integral to membrane	metal ion binding|sugar binding			ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(50;3.53e-06)		ATAGTTCACAGCATGCTGCAA	0.433000													10	207					3.07112e-06	3.31379e-06	0.010729	1	0	
HAUS6	54801	broad.mit.edu	37	9	19058129	19058129	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:19058129A>C	uc003znk.2	-	16	2889	c.2636T>G	c.(2635-2637)CTT>CGT	p.L879R	HAUS6_uc011lmz.1_Missense_Mutation_p.L599R|HAUS6_uc003znl.1_Missense_Mutation_p.L743R	NM_017645	NP_060115	Q7Z4H7	HAUS6_HUMAN	HAUS augmin-like complex, subunit 6	879					cell division|centrosome organization|mitosis|spindle assembly	centrosome|HAUS complex|microtubule|nucleus|spindle				ovary(2)	2						CAAAAAGTTAAGCGTATCATC	0.413000													6	136					0	0	0.001984	0	0	
MLLT3	4300	broad.mit.edu	37	9	20414346	20414346	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:20414346G>A	uc003zoe.2	-	5	757	c.498C>T	c.(496-498)AGC>AGT	p.S166S	MLLT3_uc011lne.1_Silent_p.S134S|MLLT3_uc011lnf.1_Silent_p.S163S|MLLT3_uc003zof.2_5'UTR|MLLT3_uc011lng.1_Missense_Mutation_p.A128V	NM_004529	NP_004520	P42568	AF9_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	166	Poly-Ser.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			lung(2)|ovary(1)	3				GBM - Glioblastoma multiforme(3;4.35e-105)|Lung(42;3.48e-06)|LUSC - Lung squamous cell carcinoma(42;7.92e-05)		tgctgctactgctgctgctgc	0.134000			T	MLL	ALL								12	58					0	0	0.013537	0	0	
SPINK4	27290	broad.mit.edu	37	9	33240248	33240248	+	Silent	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:33240248C>A	uc003zsh.2	+	1	53	c.42C>A	c.(40-42)GCC>GCA	p.A14A	SUGT1P1_uc010mjq.1_Intron	NM_014471	NP_055286	O60575	ISK4_HUMAN	serine peptidase inhibitor, Kazal type 4	14						extracellular region	serine-type endopeptidase inhibitor activity				0			LUSC - Lung squamous cell carcinoma(29;0.00506)			CCTTGGCTGCCCTCCTTGTTG	0.622000													3	7					0.004672	0.00481702	0.004672	1	0	
NOL6	65083	broad.mit.edu	37	9	33469213	33469213	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:33469213G>A	uc003zsz.2	-	6	955	c.854C>T	c.(853-855)GCA>GTA	p.A285V	SUGT1P1_uc010mjq.1_Intron|NOL6_uc003zta.2_Missense_Mutation_p.A285V|NOL6_uc010mjv.2_Missense_Mutation_p.A285V|NOL6_uc011lob.1_Missense_Mutation_p.A225V|NOL6_uc003ztb.1_Missense_Mutation_p.A285V	NM_022917	NP_075068	Q9H6R4	NOL6_HUMAN	nucleolar protein family 6 alpha isoform	285					rRNA processing	condensed nuclear chromosome|nucleolus	RNA binding			ovary(2)	2			LUSC - Lung squamous cell carcinoma(29;0.00788)	GBM - Glioblastoma multiforme(74;0.152)		ACCATCCCCTGCAGGACTCTG	0.612000													17	100					0	0	0.007413	0	0	
UBAP1	51271	broad.mit.edu	37	9	34234267	34234267	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:34234267A>G	uc003ztx.2	+	3	323	c.88A>G	c.(88-90)ACA>GCA	p.T30A	UBAP1_uc010mka.1_Intron|UBAP1_uc003zty.2_Missense_Mutation_p.T30A|UBAP1_uc011loi.1_Intron|UBAP1_uc011loj.1_Missense_Mutation_p.T94A|KIF24_uc010mkb.2_Intron|UBAP1_uc003ztz.2_Missense_Mutation_p.T30A	NM_016525	NP_057609	Q9NZ09	UBAP1_HUMAN	ubiquitin associated protein 1	30	UMA.					cytoplasm					0			LUSC - Lung squamous cell carcinoma(29;0.00272)			CAAATTCAAAACACCAGCTAA	0.348000													19	61					0	0	0.010504	0	0	
KIF24	347240	broad.mit.edu	37	9	34256112	34256112	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:34256112C>T	uc003zua.3	-	11	3613	c.3493G>A	c.(3493-3495)GAA>AAA	p.E1165K	KIF24_uc010mkb.2_Intron	NM_194313	NP_919289	Q5T7B8	KIF24_HUMAN	kinesin family member 24	1165					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			central_nervous_system(1)	1			LUSC - Lung squamous cell carcinoma(29;0.0107)			CCCATGTGTTCGTGGGAGAAA	0.582000													5	73					0	0	0.000602	0	0	
ZCCHC7	84186	broad.mit.edu	37	9	37126908	37126908	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:37126908C>A	uc003zzq.2	+	2	752	c.579C>A	c.(577-579)AAC>AAA	p.N193K	ZCCHC7_uc011lqh.1_Intron|ZCCHC7_uc011lqi.1_Missense_Mutation_p.N192K|ZCCHC7_uc010mlt.2_Missense_Mutation_p.N192K|ZCCHC7_uc003zzs.1_Missense_Mutation_p.N192K	NM_032226	NP_115602	Q8N3Z6	ZCHC7_HUMAN	zinc finger, CCHC domain containing 7	193							nucleic acid binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(29;0.0137)		TCCTTCTCAACCTTGTGGGAT	0.393000													37	90					3.62531e-18	4.1875e-18	0.004289	1	0	
CNTNAP3	79937	broad.mit.edu	37	9	39140608	39140608	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:39140608T>C	uc004abi.2	-	12	2023	c.1784A>G	c.(1783-1785)CAC>CGC	p.H595R	CNTNAP3_uc004abj.2_Missense_Mutation_p.H595R|CNTNAP3_uc011lqr.1_RNA|CNTNAP3_uc004abk.1_Missense_Mutation_p.H595R|CNTNAP3_uc011lqs.1_Missense_Mutation_p.H502R|CNTNAP3_uc004abl.1_Missense_Mutation_p.H414R	NM_033655	NP_387504	Q9BZ76	CNTP3_HUMAN	cell recognition molecule CASPR3 precursor	595	Fibrinogen C-terminal.|Extracellular (Potential).				cell adhesion|cell recognition|signal transduction	extracellular region|integral to membrane|plasma membrane	receptor binding			ovary(1)	1				GBM - Glioblastoma multiforme(29;0.02)|Lung(182;0.0681)		TCGGTGCTTGTGGGCTTCACA	0.478000													7	81					0	0	0.001984	0	0	
Unknown	0	broad.mit.edu	37	9	68413565	68413565	+	RNA	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:68413565G>A	uc004aex.2	+	1		c.120G>A								Homo sapiens mRNA; cDNA DKFZp564N0763 (from clone DKFZp564N0763).																		AGCTCCCCCAGTGGCGCCGGA	0.547000													3	4					0	0	0.004672	0	0	
Unknown	0	broad.mit.edu	37	9	68413569	68413569	+	RNA	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:68413569C>T	uc004aex.2	+	1		c.124C>T								Homo sapiens mRNA; cDNA DKFZp564N0763 (from clone DKFZp564N0763).																		CCCCCAGTGGCGCCGGATCTA	0.557000													3	4					0	0	0.004672	0	0	
TMEM2	23670	broad.mit.edu	37	9	74347431	74347431	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:74347431G>T	uc011lsa.1	-	7	1939	c.1399C>A	c.(1399-1401)CCT>ACT	p.P467T	TMEM2_uc010mos.2_Missense_Mutation_p.P404T|TMEM2_uc011lsb.1_RNA	NM_013390	NP_037522	Q9UHN6	TMEM2_HUMAN	transmembrane protein 2 isoform a	467						integral to membrane				ovary(2)	2		all_epithelial(88;4.56e-14)|Myeloproliferative disorder(762;0.0255)		GBM - Glioblastoma multiforme(74;7.45e-21)|OV - Ovarian serous cystadenocarcinoma(323;1.02e-16)		AGGAACTGAGGGGTTTCTGGT	0.408000													3	29					0.004672	0.00481702	0.004672	1	0	
TRPM6	140803	broad.mit.edu	37	9	77448921	77448921	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:77448921C>T	uc004ajl.1	-	6	900	c.662G>A	c.(661-663)GGA>GAA	p.G221E	TRPM6_uc004ajk.1_Missense_Mutation_p.G216E|TRPM6_uc010mpb.1_RNA|TRPM6_uc010mpc.1_Missense_Mutation_p.G221E|TRPM6_uc010mpd.1_Missense_Mutation_p.G221E|TRPM6_uc010mpe.1_Missense_Mutation_p.G221E|TRPM6_uc004ajn.1_Missense_Mutation_p.G221E	NM_017662	NP_060132	Q9BX84	TRPM6_HUMAN	transient receptor potential cation channel,	221	Cytoplasmic (Potential).				response to toxin	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|stomach(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	8						TACATCTTTTCCAATAAGGTC	0.333000													10	47					0	0	0.013537	0	0	
VPS13A	23230	broad.mit.edu	37	9	79981681	79981681	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:79981681A>C	uc004akr.2	+	61	8624	c.8364A>C	c.(8362-8364)GAA>GAC	p.E2788D	VPS13A_uc004akp.3_Missense_Mutation_p.E2788D|VPS13A_uc004akq.3_Missense_Mutation_p.E2788D|VPS13A_uc004aks.2_Missense_Mutation_p.E2749D	NM_033305	NP_150648	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13A isoform A	2788					Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10						GCAGAGAAGAAGCTAAAGATT	0.313000													7	26					0	0	0.004482	0	0	
HNRNPK	3190	broad.mit.edu	37	9	86586858	86586858	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:86586858C>T	uc004ang.3	-	11	1116	c.892G>A	c.(892-894)GGC>AGC	p.G298S	HNRNPK_uc011lsw.1_Missense_Mutation_p.G58S|HNRNPK_uc004and.3_Missense_Mutation_p.G58S|HNRNPK_uc004ank.3_Missense_Mutation_p.G298S|HNRNPK_uc004anf.3_Missense_Mutation_p.G298S|HNRNPK_uc004anh.3_Missense_Mutation_p.G274S|HNRNPK_uc011lsx.1_Missense_Mutation_p.G274S|HNRNPK_uc004ani.3_Missense_Mutation_p.G298S|HNRNPK_uc004anj.3_Missense_Mutation_p.G298S|HNRNPK_uc004ann.3_Missense_Mutation_p.G274S|HNRNPK_uc004anl.3_Missense_Mutation_p.G298S|HNRNPK_uc004anm.3_Missense_Mutation_p.G298S|uc004ano.1_5'Flank|MIR7-1_hsa-mir-7-1|MI0000263_5'Flank	NM_031262	NP_112552	P61978	HNRPK_HUMAN	heterogeneous nuclear ribonucleoprotein K	298	3-4.|2 X 6 AA approximate repeats.|2 X 22 AA approximate repeats.|Interaction with ZIK1 (By similarity).|5 X 4 AA repeats of G-X-G-G.				interspecies interaction between organisms|positive regulation of low-density lipoprotein particle receptor biosynthetic process|positive regulation of receptor-mediated endocytosis|regulation of lipid transport by positive regulation of transcription from an RNA polymerase II promoter|regulation of low-density lipoprotein particle clearance|signal transduction	catalytic step 2 spliceosome|cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nuclear chromatin|nucleoplasm	protein binding|RNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|single-stranded DNA binding			skin(1)	1						CCACCCCGGCCGCCTCGTCCG	0.572000													17	111					0	0	0.004007	0	0	
ZCCHC6	79670	broad.mit.edu	37	9	88938202	88938202	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:88938202C>A	uc004aoq.2	-	13	2678	c.2463G>T	c.(2461-2463)GAG>GAT	p.E821D	ZCCHC6_uc011ltf.1_RNA|ZCCHC6_uc004aor.2_RNA|ZCCHC6_uc004aos.2_RNA|ZCCHC6_uc004aot.2_Missense_Mutation_p.E698D|ZCCHC6_uc004aou.2_Missense_Mutation_p.E821D	NM_024617	NP_078893	Q5VYS8	TUT7_HUMAN	zinc finger, CCHC domain containing 6	821	Glu-rich.				RNA 3'-end processing		nucleic acid binding|RNA uridylyltransferase activity|zinc ion binding			ovary(2)	2						CTTCTAGTTCCTCAGTACCTT	0.373000													11	78					1.08611e-07	1.19931e-07	0.010729	1	0	
ANKRD19	138649	broad.mit.edu	37	9	95646204	95646204	+	RNA	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:95646204C>T	uc004asr.3	+	9		c.1897C>T								Homo sapiens cDNA FLJ36178 fis, clone TESTI2026534.												0						CTTGTCTCCTCGCGTCATCTT	0.592000													19	80					0	0	0.008871	0	0	
WNK2	65268	broad.mit.edu	37	9	95992150	95992150	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:95992150C>T	uc004ati.1	+	2	854	c.854C>T	c.(853-855)ACA>ATA	p.T285I	WNK2_uc011lud.1_Missense_Mutation_p.T285I|WNK2_uc004atj.2_Missense_Mutation_p.T285I|WNK2_uc010mrc.1_Missense_Mutation_p.T285I|WNK2_uc010mrd.1_5'Flank	NM_006648	NP_006639	Q9Y3S1	WNK2_HUMAN	WNK lysine deficient protein kinase 2	285	Protein kinase.				intracellular protein kinase cascade		ATP binding|protein binding|protein serine/threonine kinase activity			lung(4)|stomach(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)|breast(1)	12						ACGCTGAAGACGTAAGCTCCG	0.637000													9	24					0	0	0.006214	0	0	
ANKS6	203286	broad.mit.edu	37	9	101530501	101530501	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:101530501G>A	uc004ayu.2	-	11	2025	c.2004C>T	c.(2002-2004)ATC>ATT	p.I668I	ANKS6_uc004ayt.2_Silent_p.I367I|ANKS6_uc004ayv.1_Silent_p.I130I|ANKS6_uc004ayw.1_Silent_p.I250I|ANKS6_uc004ayx.1_RNA|ANKS6_uc004ayy.1_RNA	NM_173551	NP_775822	Q68DC2	ANKS6_HUMAN	ankyrin repeat and sterile alpha motif domain	668	Ser-rich.									ovary(2)	2		Acute lymphoblastic leukemia(62;0.0527)				TCTGGGCAGCGATTTGGGACA	0.527000													16	63					0	0	0.006122	0	0	
TMEFF1	8577	broad.mit.edu	37	9	103204565	103204565	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:103204565G>A	uc004bay.1	+	1	378	c.345G>A	c.(343-345)CTG>CTA	p.L115L	C9orf30_uc004baw.2_Silent_p.L115L|C9orf30_uc004bax.2_RNA	NM_003692	NP_003683	Q8IYR6	TEFF1_HUMAN	transmembrane protein with EGF-like and two	Error:Variant_position_missing_in_Q8IYR6_after_alignment					multicellular organismal development	integral to membrane|plasma membrane					0		Acute lymphoblastic leukemia(62;0.0452)				CCAGCATGCTGCCGGAGCAGC	0.582000													4	75					0	0	0.009096	0	0	
CYLC2	1539	broad.mit.edu	37	9	105767642	105767642	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:105767642G>C	uc004bbs.2	+	5	799	c.729G>C	c.(727-729)AAG>AAC	p.K243N		NM_001340	NP_001331	Q14093	CYLC2_HUMAN	cylicin 2	243	31 X 3 AA repeats of K-K-X.				cell differentiation|multicellular organismal development|spermatogenesis	cytoskeletal calyx	structural constituent of cytoskeleton			skin(1)	1		all_hematologic(171;0.125)				ATGAAAAGAAGGATGAGGATG	0.363000													8	36					0	0	0.006214	0	0	
ACTL7B	10880	broad.mit.edu	37	9	111617863	111617863	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:111617863C>A	uc004bdi.2	-	1	413	c.348G>T	c.(346-348)AAG>AAT	p.K116N		NM_006686	NP_006677	Q9Y614	ACL7B_HUMAN	actin-like 7B	116						actin cytoskeleton|cytoplasm	structural constituent of cytoskeleton			pancreas(1)	1						CGATGCCGTGCTTCAGCGGGT	0.642000													7	47					0.00198382	0.00205922	0.001984	1	0	
ACTL7A	10881	broad.mit.edu	37	9	111625161	111625161	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:111625161C>T	uc004bdj.1	+	1	559	c.559C>T	c.(559-561)CTG>TTG	p.L187L		NM_006687	NP_006678	Q9Y615	ACL7A_HUMAN	actin-like 7A	187						cytoplasm|cytoskeleton|protein complex	structural constituent of cytoskeleton				0						TGCTGAAATGCTGTTTGAAGC	0.567000													9	91					0	0	0.006214	0	0	
PTPN3	5774	broad.mit.edu	37	9	112144725	112144725	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:112144725G>A	uc004bed.2	-	24	2497	c.2385C>T	c.(2383-2385)ACC>ACT	p.T795T	PTPN3_uc004beb.2_Silent_p.T664T|PTPN3_uc004bec.2_Silent_p.T619T|PTPN3_uc010mtu.2_RNA|PTPN3_uc011lwg.1_Silent_p.T750T|PTPN3_uc011lwh.1_Silent_p.T641T|PTPN3_uc011lwd.1_Silent_p.T263T|PTPN3_uc011lwe.1_Silent_p.T508T|PTPN3_uc011lwf.1_Silent_p.T463T	NM_002829	NP_002820	P26045	PTN3_HUMAN	protein tyrosine phosphatase, non-receptor type	795	Tyrosine-protein phosphatase.				negative regulation of membrane protein ectodomain proteolysis|negative regulation of mitotic cell cycle	cytoplasm|cytoskeleton|internal side of plasma membrane	ATPase binding|cytoskeletal protein binding|phosphotyrosine binding|protein tyrosine phosphatase activity			ovary(3)	3						GTTCTTCCCCGGTCTGTGGGA	0.572000													16	45					0	0	0.006122	0	0	
KIAA0368	23392	broad.mit.edu	37	9	114138817	114138817	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:114138817G>A	uc004bfe.1	-	38	4493	c.4493C>T	c.(4492-4494)GCG>GTG	p.A1498V		NM_001080398	NP_001073867			KIAA0368 protein												0						ACTATCCATCGCAGCCTAAAG	0.388000													5	12					0	0	0.000602	0	0	
SUSD1	64420	broad.mit.edu	37	9	114874015	114874015	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:114874015G>T	uc004bfu.2	-	8	1131	c.1090C>A	c.(1090-1092)CCA>ACA	p.P364T	SUSD1_uc010mui.2_Missense_Mutation_p.P364T|SUSD1_uc010muj.2_Missense_Mutation_p.P364T	NM_022486	NP_071931	Q6UWL2	SUSD1_HUMAN	sushi domain containing 1 precursor	364	Extracellular (Potential).					integral to membrane	calcium ion binding				0						TTGGTGCCTGGGTACAGGGCT	0.557000													15	77					1.05317e-09	1.17775e-09	0.002450	1	0	
TNFSF15	9966	broad.mit.edu	37	9	117552745	117552745	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:117552745G>A	uc004bjh.2	-	4	859	c.743C>T	c.(742-744)GCC>GTC	p.A248V	TNFSF15_uc004bjg.2_Missense_Mutation_p.A189V	NM_005118	NP_005109	O95150	TNF15_HUMAN	tumor necrosis factor (ligand) superfamily,	248	Extracellular (Potential).				activation of caspase activity|activation of NF-kappaB-inducing kinase activity|cytokine metabolic process|immune response	extracellular space|integral to plasma membrane	cytokine activity|tumor necrosis factor receptor binding				0						TAGTAAGAAGGCTCCAAAGAA	0.398000													16	102					0	0	0.004990	0	0	
PAPPA	5069	broad.mit.edu	37	9	119109445	119109445	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:119109445C>T	uc004bjn.2	+	15	4302	c.3921C>T	c.(3919-3921)GGC>GGT	p.G1307G	PAPPA_uc011lxq.1_Silent_p.G682G	NM_002581	NP_002572	Q13219	PAPP1_HUMAN	pregnancy-associated plasma protein A	1307	Sushi 2.				cell differentiation|female pregnancy	cytoplasm|extracellular region|membrane	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(4)|pancreas(1)	9						CCACCTTTGGCAGTCAATGTT	0.542000													10	72					0	0	0.001855	0	0	
CEP110	11064	broad.mit.edu	37	9	123877367	123877367	+	Splice_Site	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:123877367A>G	uc004bkx.1	+	9	1377	c.1346_splice	c.e9-2	p.A449_splice	CEP110_uc004bky.1_Splice_Site_p.A53_splice	NM_007018	NP_008949	Q7Z7A1	CNTRL_HUMAN	centrosomal protein 110kDa						cell division|G2/M transition of mitotic cell cycle	centrosome|cytosol	protein binding				0						TTAAATTTGCAGCACAAACTC	0.333000													16	50					0	0	0.003163	0	0	
GAPVD1	26130	broad.mit.edu	37	9	128061329	128061329	+	Silent	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:128061329T>C	uc010mwx.2	+	4	455	c.129T>C	c.(127-129)CGT>CGC	p.R43R	GAPVD1_uc004bpo.2_Silent_p.R43R|GAPVD1_uc011lzs.1_Silent_p.R43R|GAPVD1_uc004bpp.2_Silent_p.R43R|GAPVD1_uc004bpq.2_Silent_p.R43R|GAPVD1_uc004bpr.2_Silent_p.R43R|GAPVD1_uc004bps.2_Silent_p.R43R|GAPVD1_uc010mwy.1_5'Flank	NM_015635	NP_056450	Q14C86	GAPD1_HUMAN	GTPase activating protein and VPS9 domains 1	43					endocytosis|regulation of protein transport|regulation of small GTPase mediated signal transduction|signal transduction	cytosol|endosome|membrane	GTPase activating protein binding|GTPase activator activity|guanyl-nucleotide exchange factor activity			ovary(2)|central_nervous_system(1)|skin(1)	4						AGTTGTATCGTACAGCATGGA	0.398000													4	39					0	0	0.009096	0	0	
ZBTB43	23099	broad.mit.edu	37	9	129595476	129595476	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:129595476C>T	uc004bql.2	+	3	961	c.688C>T	c.(688-690)CCC>TCC	p.P230S	ZBTB43_uc010mxf.2_Missense_Mutation_p.P230S	NM_014007	NP_054726	O43298	ZBT43_HUMAN	zinc finger and BTB domain containing 43	230					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						CTACACCCGGCCCATGTACAG	0.622000													4	34					0	0	0.000602	0	0	
ANGPTL2	23452	broad.mit.edu	37	9	129856048	129856048	+	Silent	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:129856048G>T	uc004bqr.1	-	3	1475	c.975C>A	c.(973-975)GGC>GGA	p.G325G	RALGPS1_uc004bqo.1_Intron|RALGPS1_uc011mab.1_Intron|RALGPS1_uc011mac.1_Intron|RALGPS1_uc004bqq.3_Intron|ANGPTL2_uc010mxg.1_Silent_p.G23G	NM_012098	NP_036230	Q9UKU9	ANGL2_HUMAN	angiopoietin-like 2 precursor	325	Fibrinogen C-terminal.				multicellular organismal development|signal transduction	extracellular space	receptor binding				0						AGTTAACAGAGCCATCCAGGC	0.612000													16	144					4.7546e-09	5.28337e-09	0.004007	1	0	
GARNL3	84253	broad.mit.edu	37	9	130106617	130106617	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:130106617A>G	uc011mae.1	+	15	1756	c.1355A>G	c.(1354-1356)CAG>CGG	p.Q452R	GARNL3_uc011mad.1_Missense_Mutation_p.Q430R|GARNL3_uc004bqt.1_Missense_Mutation_p.Q233R	NM_032293	NP_115669	Q5VVW2	GARL3_HUMAN	GTPase activating Rap/RanGAP domain-like 3	452					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity|small GTPase regulator activity			ovary(1)|central_nervous_system(1)|skin(1)	3						AGAATAGGGCAGGTGGGTTTT	0.478000													6	145					0	0	0.003080	0	0	
ST6GALNAC6	30815	broad.mit.edu	37	9	130653119	130653119	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:130653119C>T	uc004bso.1	-	5	620	c.501G>A	c.(499-501)AGG>AGA	p.R167R	ST6GALNAC6_uc004bsn.1_Silent_p.R133R|ST6GALNAC6_uc011man.1_Intron|ST6GALNAC6_uc004bsp.1_Silent_p.R167R|ST6GALNAC6_uc004bsq.1_Silent_p.R133R|ST6GALNAC6_uc004bsr.2_Silent_p.R133R|ST6GALNAC6_uc010mxp.1_RNA	NM_013443	NP_038471	Q969X2	SIA7F_HUMAN	sialytransferase 7F	167	Lumenal (Potential).				protein glycosylation	integral to Golgi membrane|plasma membrane					0						ACTCCTGGGGCCTCCTCAGCA	0.612000													13	36					0	0	0.001855	0	0	
CERCAM	51148	broad.mit.edu	37	9	131198024	131198024	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:131198024C>T	uc004buz.3	+	12	2026	c.1628C>T	c.(1627-1629)GCC>GTC	p.A543V	CERCAM_uc004buy.1_Missense_Mutation_p.A465V|CERCAM_uc010mxz.2_Missense_Mutation_p.A465V	NM_016174	NP_057258	Q5T4B2	GT253_HUMAN	cerebral endothelial cell adhesion molecule 1	543					cellular component movement|leukocyte cell-cell adhesion|lipopolysaccharide biosynthetic process	endoplasmic reticulum lumen|plasma membrane				pancreas(1)	1						GCCGGGGACGCCGAGTGGCTC	0.662000													4	26					0	0	0.009096	0	0	
SPTAN1	6709	broad.mit.edu	37	9	131386637	131386637	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:131386637A>G	uc004bvl.3	+	45	5961	c.5848A>G	c.(5848-5850)AAG>GAG	p.K1950E	SPTAN1_uc004bvm.3_Missense_Mutation_p.K1955E|SPTAN1_uc004bvn.3_Missense_Mutation_p.K1930E|SPTAN1_uc010mye.1_5'Flank|SPTAN1_uc010myf.1_5'Flank	NM_003127	NP_003118	Q13813	SPTA2_HUMAN	spectrin, alpha, non-erythrocytic 1	1950	Spectrin 20.				actin filament capping|axon guidance|cellular component disassembly involved in apoptosis	cytosol|intracellular membrane-bounded organelle|membrane fraction|microtubule cytoskeleton|spectrin	actin binding|calcium ion binding|calmodulin binding|structural constituent of cytoskeleton			breast(5)|ovary(4)|pancreas(1)	10						CATCTCTTCAAAGATGAAGGG	0.532000													4	30					0	0	0.009096	0	0	
C9orf50	375759	broad.mit.edu	37	9	132375434	132375434	+	Silent	SNP	C	T	T	rs149142867	byFrequency	TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:132375434C>T	uc004byc.3	-	6	1342	c.1140G>A	c.(1138-1140)CCG>CCA	p.P380P	C9orf50_uc004byb.3_RNA	NM_199350	NP_955382	Q5SZB4	CI050_HUMAN	hypothetical protein LOC375759	380										ovary(1)|central_nervous_system(1)	2		Ovarian(14;0.00556)				GGCTGCTTCGCGGCCTCTGAG	0.607000													17	54					0	0	0.004990	0	0	
USP20	10868	broad.mit.edu	37	9	132632083	132632083	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:132632083G>A	uc004bys.2	+	14	1736	c.1525G>A	c.(1525-1527)GCC>ACC	p.A509T	USP20_uc004byr.2_Missense_Mutation_p.A509T|USP20_uc004byt.1_Missense_Mutation_p.A509T	NM_001110303	NP_001103773	Q9Y2K6	UBP20_HUMAN	ubiquitin specific protease 20	509					endocytosis|protein K48-linked deubiquitination|protein K63-linked deubiquitination|regulation of G-protein coupled receptor protein signaling pathway|ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm	cysteine-type endopeptidase activity|G-protein-coupled receptor binding|ubiquitin thiolesterase activity|zinc ion binding			lung(1)|breast(1)	2		Ovarian(14;0.00556)				CAGCTATGCCGCCCAGGGCTG	0.627000													6	119					0	0	0.001984	0	0	
BAT2L1	84726	broad.mit.edu	37	9	134357813	134357813	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:134357813G>A	uc004can.3	+	20	5094	c.5039G>A	c.(5038-5040)CGG>CAG	p.R1680Q	BAT2L1_uc004cao.3_Missense_Mutation_p.R1037Q|BAT2L1_uc004cap.3_5'Flank	NM_013318	NP_037450	Q5JSZ5	PRC2B_HUMAN	HLA-B associated transcript 2-like	1680							protein binding				0						GCCGAGTCTCGGGAGTCGTCT	0.602000													56	208					0	0	0.014410	0	0	
DDX31	64794	broad.mit.edu	37	9	135493751	135493751	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:135493751G>A	uc004cbq.1	-	18	2258	c.2106C>T	c.(2104-2106)CAC>CAT	p.H702H	DDX31_uc010mzu.1_Intron	NM_022779	NP_073616	Q9H8H2	DDX31_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 31	702						nucleolus	ATP binding|ATP-dependent helicase activity|RNA binding			central_nervous_system(1)	1				OV - Ovarian serous cystadenocarcinoma(145;2.67e-06)|Epithelial(140;7.61e-05)		TCTCACTGGAGTGCACGTAAT	0.557000													6	79					0	0	0.001168	0	0	
ABO	28	broad.mit.edu	37	9	136131645	136131645	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:136131645G>A	uc004cda.1	-	8	498	c.473C>T	c.(472-474)GCG>GTG	p.A158V	ABO_uc010naf.1_Missense_Mutation_p.A17V|ABO_uc011mcz.1_Missense_Mutation_p.A17V|ABO_uc010nag.1_Missense_Mutation_p.A17V	NM_020469	NP_065202	P16442	BGAT_HUMAN	ABO blood group (alpha	158	Lumenal (Potential).				protein glycosylation	extracellular region|Golgi cisterna membrane|integral to Golgi membrane	fucosylgalactoside 3-alpha-galactosyltransferase activity|glycoprotein-fucosylgalactoside alpha-N-acetylgalactosaminyltransferase activity|metal ion binding				0				OV - Ovarian serous cystadenocarcinoma(145;5.82e-06)|Epithelial(140;3.45e-05)		GCGGGGCACCGCGGCCGGCTG	0.647000													13	37					0	0	0.001855	0	0	
CAMSAP1	157922	broad.mit.edu	37	9	138710908	138710908	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:138710908C>T	uc004cgr.3	-	12	3907	c.3907G>A	c.(3907-3909)GTG>ATG	p.V1303M	CAMSAP1_uc004cgq.3_Missense_Mutation_p.V1193M|CAMSAP1_uc010nbg.2_Missense_Mutation_p.V1025M	NM_015447	NP_056262	Q5T5Y3	CAMP1_HUMAN	calmodulin regulated spectrin-associated protein	1303						cytoplasm|microtubule				ovary(1)|central_nervous_system(1)|pancreas(1)	3				OV - Ovarian serous cystadenocarcinoma(145;1.4e-06)|Epithelial(140;1.11e-05)		TGCTTGCGCACGCGGGCCTCC	0.657000													4	18					0	0	0.000602	0	0	
LHX3	8022	broad.mit.edu	37	9	139089228	139089228	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:139089228G>A	uc004cha.2	-	6	1234	c.1137C>T	c.(1135-1137)CCC>CCT	p.P379P	LHX3_uc004cgz.2_Silent_p.P384P	NM_178138	NP_835258	Q9UBR4	LHX3_HUMAN	LIM homeobox protein 3 isoform a	379					inner ear development|organ morphogenesis|positive regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1		Myeloproliferative disorder(178;0.0511)		Epithelial(140;8.43e-08)|OV - Ovarian serous cystadenocarcinoma(145;1.26e-07)		CAGGGAAGTCGGGGTAACCCC	0.697000													4	23					0	0	0.000602	0	0	
CARD9	64170	broad.mit.edu	37	9	139265581	139265581	+	Silent	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:139265581T>C	uc004chg.3	-	4	505	c.339A>G	c.(337-339)TCA>TCG	p.S113S	CARD9_uc011mdw.1_Silent_p.S113S|CARD9_uc011mdx.1_Silent_p.S9S|CARD9_uc010nbj.2_Silent_p.S113S	NM_052813	NP_434700	Q9H257	CARD9_HUMAN	caspase recruitment domain protein 9 isoform 1	113					positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of JNK cascade|positive regulation of stress-activated MAPK cascade|regulation of apoptosis	cytoplasm	CARD domain binding|protein homodimerization activity			pancreas(1)|lung(1)|skin(1)	3		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;4.58e-06)|Epithelial(140;5.65e-06)		GAGTCAGGCCTGACTCCCCGG	0.627000													7	27					0	0	0.004482	0	0	
NOTCH1	4851	broad.mit.edu	37	9	139401051	139401051	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:139401051C>T	uc004chz.2	-	24	3942	c.3942G>A	c.(3940-3942)AAG>AAA	p.K1314K	NOTCH1_uc004cia.1_Silent_p.K544K	NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	1314	Extracellular (Potential).|EGF-like 34.				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		TCTTGCAGGGCTTGCCTTTGC	0.687000			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			6	27					0	0	0.001984	0	0	
MAMDC4	158056	broad.mit.edu	37	9	139751877	139751877	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:139751877C>T	uc004cjs.2	+	18	2215	c.2165C>T	c.(2164-2166)GCC>GTC	p.A722V	MAMDC4_uc011mej.1_Missense_Mutation_p.A59V	NM_206920	NP_996803	Q6UXC1	AEGP_HUMAN	apical early endosomal glycoprotein precursor	801	MAM 4.|Extracellular (Potential).				protein transport	integral to membrane				breast(4)|upper_aerodigestive_tract(2)|central_nervous_system(1)	7	all_cancers(76;0.0763)|all_epithelial(76;0.198)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;1.52e-05)|Epithelial(140;0.000171)		GACGATGTGGCCGTGCGGCCG	0.692000													14	48					0	0	0.004990	0	0	
TRAF2	7186	broad.mit.edu	37	9	139820133	139820133	+	Splice_Site	SNP	A	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:139820133A>C	uc010nbu.2	+	12	1461	c.1288_splice	c.e12-2	p.V430_splice	TRAF2_uc004cjv.2_Splice_Site_p.V430_splice|TRAF2_uc011mek.1_Splice_Site_p.V419_splice|TRAF2_uc010nbw.2_Splice_Site_p.V405_splice	NM_021138	NP_066961	Q12933	TRAF2_HUMAN	TNF receptor-associated factor 2						activation of caspase activity|activation of NF-kappaB-inducing kinase activity|activation of pro-apoptotic gene products|cellular protein complex assembly|induction of apoptosis by extracellular signals|positive regulation of interleukin-2 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of T cell cytokine production|protein autoubiquitination|protein homotrimerization|protein K63-linked ubiquitination|tumor necrosis factor-mediated signaling pathway	CD40 receptor complex|cytosol|internal side of plasma membrane	CD40 receptor binding|enzyme binding|protein binding|signal transducer activity|sphingolipid binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)|skin(1)	4	all_cancers(76;0.11)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.229)	OV - Ovarian serous cystadenocarcinoma(145;4.48e-06)|Epithelial(140;9.55e-06)		TCTCTCCTCCAGGTGACCTTA	0.617000													11	56					0	0	0.008291	0	0	
NDOR1	27158	broad.mit.edu	37	9	140100312	140100312	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:140100312C>T	uc004clw.2	+	1	194	c.83C>T	c.(82-84)GCC>GTC	p.A28V	TMEM203_uc004clv.2_5'Flank|NDOR1_uc004clx.2_Missense_Mutation_p.A28V|NDOR1_uc011mes.1_Missense_Mutation_p.A28V|NDOR1_uc004cly.2_Missense_Mutation_p.A28V	NM_014434	NP_055249	Q9UHB4	NDOR1_HUMAN	NADPH dependent diflavin oxidoreductase 1	28	Flavodoxin-like.				cell death	cytosol|intermediate filament cytoskeleton|nucleus|perinuclear region of cytoplasm	flavin adenine dinucleotide binding|FMN binding|iron ion binding|NADP binding|oxidoreductase activity|protein binding				0	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.0698)	OV - Ovarian serous cystadenocarcinoma(145;6.37e-05)|Epithelial(140;0.00057)		GGTCGCGAGGCCCGGCGCCGG	0.731000													18	44					0	0	0.006122	0	0	
FAM166A	401565	broad.mit.edu	37	9	140139126	140139126	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:140139126T>C	uc004cmi.1	-	5	770	c.715A>G	c.(715-717)ATG>GTG	p.M239V		NM_001001710	NP_001001710	Q6J272	F166A_HUMAN	hypothetical protein LOC401565	239										ovary(1)	1						ATGGCTTGCATGACGCCGTCT	0.592000													8	47					0	0	0.006214	0	0	
FAM166A	401565	broad.mit.edu	37	9	140140222	140140222	+	Missense_Mutation	SNP	C	A	A	rs142886368		TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr9:140140222C>A	uc004cmi.1	-	2	195	c.140G>T	c.(139-141)AGT>ATT	p.S47I		NM_001001710	NP_001001710	Q6J272	F166A_HUMAN	hypothetical protein LOC401565	47										ovary(1)	1						CTTCTGCACACTGGGGTCTGT	0.607000													7	59					0.00448238	0.00463318	0.004482	1	0	
SLC25A6	293	broad.mit.edu	37	X	1505589	1505589	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:1505589T>C	uc004cpt.2	-	4	899	c.803A>G	c.(802-804)AAG>AGG	p.K268R	SLC25A6_uc004cpu.2_RNA	NM_001636	NP_001627	P12236	ADT3_HUMAN	adenine nucleotide translocator 3	268	Solcar 3.				active induction of host immune response by virus|apoptosis|energy reserve metabolic process|regulation of insulin secretion|viral infectious cycle	integral to membrane|mitochondrial inner membrane presequence translocase complex	ATP:ADP antiporter activity|protein binding				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)			Clodronate(DB00720)	GAAGAAGGCCTTGCCCCCCTC	0.617000													18	328					0	0	0.007413	0	0	
GPR143	4935	broad.mit.edu	37	X	9693832	9693832	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:9693832T>C	uc004cst.1	-	9	1229	c.1229A>G	c.(1228-1230)AAC>AGC	p.N410S		NM_000273	NP_000264	P51810	GP143_HUMAN	G protein-coupled receptor 143	390	Cytoplasmic (Potential).				calcium-mediated signaling using intracellular calcium source|eye pigment biosynthetic process|melanosome organization|melanosome transport|phosphatidylinositol-mediated signaling|regulation of calcium-mediated signaling|visual perception	apical plasma membrane|Golgi apparatus|integral to membrane|lysosomal membrane|melanosome membrane|membrane fraction	dopamine binding|L-DOPA receptor activity|protein binding|tyrosine binding			ovary(1)	1		Hepatocellular(5;0.000888)				CTCATTTTTGTTGCAGGATTC	0.483000													9	40					0	0	0.004482	0	0	
CDKL5	6792	broad.mit.edu	37	X	18622574	18622574	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:18622574G>A	uc004cym.2	+	12	1783	c.1530G>A	c.(1528-1530)GAG>GAA	p.E510E	CDKL5_uc004cyn.2_Silent_p.E510E	NM_003159	NP_003150	O76039	CDKL5_HUMAN	cyclin-dependent kinase-like 5	510					neuron migration|positive regulation of axon extension|positive regulation of dendrite morphogenesis|positive regulation of Rac GTPase activity|protein autophosphorylation	dendrite cytoplasm|dendritic growth cone|nucleus	ATP binding|cyclin-dependent protein kinase activity|Rac GTPase binding			ovary(2)|large_intestine(1)|stomach(1)|central_nervous_system(1)|skin(1)	6	Hepatocellular(33;0.183)					AAATTGCGGAGCCCAGTACCA	0.552000													14	229					0	0	0.002450	0	0	
GPR64	10149	broad.mit.edu	37	X	19031992	19031992	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:19031992G>A	uc004cyx.2	-	16	1075	c.911C>T	c.(910-912)CCC>CTC	p.P304L	GPR64_uc004cyy.2_Missense_Mutation_p.P301L|GPR64_uc004cyz.2_Missense_Mutation_p.P290L|GPR64_uc004czb.2_Missense_Mutation_p.P304L|GPR64_uc004czc.2_Missense_Mutation_p.P288L|GPR64_uc004czd.2_Missense_Mutation_p.P280L|GPR64_uc004cze.2_Missense_Mutation_p.P274L|GPR64_uc004czf.2_Missense_Mutation_p.P266L|GPR64_uc004cza.2_Missense_Mutation_p.P282L|GPR64_uc004cyw.2_Missense_Mutation_p.P288L|GPR64_uc010nfj.2_Missense_Mutation_p.P274L	NM_001079858	NP_001073327	Q8IZP9	GPR64_HUMAN	G protein-coupled receptor 64 isoform 1	304	Extracellular (Potential).				neuropeptide signaling pathway|spermatogenesis	cytoplasm|integral to plasma membrane	G-protein coupled receptor activity				0	Hepatocellular(33;0.183)					TGAAGGCTGGGGTGAAAGGGG	0.552000													24	153					0	0	0.002780	0	0	
DCAF8L1	139425	broad.mit.edu	37	X	27998016	27998016	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:27998016T>C	uc004dbx.1	-	1	1551	c.1436A>G	c.(1435-1437)GAC>GGC	p.D479G		NM_001017930	NP_001017930	A6NGE4	DC8L1_HUMAN	DDB1 and CUL4 associated factor 8-like 1	479	WD 7.									ovary(3)|skin(1)	4						ATCTCCTCTGTCCCCCTCCAT	0.532000													8	36					0	0	0.004482	0	0	
IL1RAPL1	11141	broad.mit.edu	37	X	29959813	29959813	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:29959813T>C	uc004dby.2	+	9	1611	c.1103T>C	c.(1102-1104)CTC>CCC	p.L368P		NM_014271	NP_055086	Q9NZN1	IRPL1_HUMAN	interleukin 1 receptor accessory protein-like 1	368	Helical; (Potential).				innate immune response|negative regulation of calcium ion transport via voltage-gated calcium channel activity|negative regulation of exocytosis|regulation of neuron projection development	cytoplasm|integral to membrane|plasma membrane	protein binding|transmembrane receptor activity			ovary(3)|lung(1)|pancreas(1)	5						GGTGCTATACTCTTGCTGCTT	0.403000													8	169					0	0	0.003080	0	0	
DMD	1756	broad.mit.edu	37	X	32360319	32360319	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:32360319C>T	uc004dda.1	-	41	6064	c.5820G>A	c.(5818-5820)GGG>GGA	p.G1940G	DMD_uc004dcw.2_Silent_p.G596G|DMD_uc004dcx.2_Silent_p.G599G|DMD_uc004dcz.2_Silent_p.G1817G|DMD_uc004dcy.1_Silent_p.G1936G|DMD_uc004ddb.1_Silent_p.G1932G|DMD_uc010ngo.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	1940	Spectrin 13.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				CCATTGCGGCCCCATCCTCAG	0.493000													15	62					0	0	0.003163	0	0	
DMD	1756	broad.mit.edu	37	X	32466739	32466739	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:32466739G>A	uc004dda.1	-	27	3864	c.3620C>T	c.(3619-3621)GCC>GTC	p.A1207V	DMD_uc004dcz.2_Missense_Mutation_p.A1084V|DMD_uc004dcy.1_Missense_Mutation_p.A1203V|DMD_uc004ddb.1_Missense_Mutation_p.A1199V|DMD_uc010ngo.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	1207	Spectrin 8.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				TTTTTGTTGGGCCTCTTCTTT	0.348000													4	47					0	0	0.009096	0	0	
DMD	1756	broad.mit.edu	37	X	32834669	32834669	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:32834669C>T	uc004dda.1	-	6	690	c.446G>A	c.(445-447)CGT>CAT	p.R149H	DMD_uc004dcz.2_Missense_Mutation_p.R26H|DMD_uc004dcy.1_Missense_Mutation_p.R145H|DMD_uc004ddb.1_Missense_Mutation_p.R141H|DMD_uc010ngo.1_Intron|DMD_uc004ddf.2_Missense_Mutation_p.R141H|DMD_uc010ngp.1_Missense_Mutation_p.R26H|DMD_uc010ngq.1_Intron|DMD_uc010ngr.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	149	CH 2.|Actin-binding.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				TGGATAATTACGAGTTGATTG	0.408000													4	93					0	0	0.009096	0	0	
DYNLT3	6990	broad.mit.edu	37	X	37701055	37701055	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:37701055C>G	uc004dds.2	-	3	302	c.176G>C	c.(175-177)GGA>GCA	p.G59A		NM_006520	NP_006511	P51808	DYLT3_HUMAN	dynein, light chain, Tctex-type 3	59					cell division|mitosis|regulation of mitotic cell cycle|transport	condensed chromosome kinetochore|cytoplasmic dynein complex|microtubule|nucleus|plasma membrane	motor activity				0						ATAGGCTTTTCCCAACTTAAC	0.368000													11	24					0	0	0.001855	0	0	
USP9X	8239	broad.mit.edu	37	X	41025133	41025133	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:41025133T>C	uc004dfb.2	+	16	2627	c.1994T>C	c.(1993-1995)TTG>TCG	p.L665S	USP9X_uc004dfc.2_Missense_Mutation_p.L665S	NM_001039590	NP_001034679	Q93008	USP9X_HUMAN	ubiquitin specific protease 9, X-linked isoform	665					BMP signaling pathway|cell division|chromosome segregation|female gamete generation|mitosis|protein deubiquitination|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent protein catabolic process	cytoplasm	co-SMAD binding|cysteine-type endopeptidase activity|ubiquitin thiolesterase activity			lung(3)|breast(2)|ovary(1)	6						AGATTTTTATTGAAGGATGGT	0.338000													6	66					0	0	0.001168	0	0	
USP11	8237	broad.mit.edu	37	X	47101540	47101540	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:47101540C>T	uc004dhp.2	+	10	1368	c.1368C>T	c.(1366-1368)GAC>GAT	p.D456D	USP11_uc004dhq.2_Silent_p.D183D	NM_004651	NP_004642	P51784	UBP11_HUMAN	ubiquitin specific peptidase 11	456					protein deubiquitination|ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(1)|lung(1)|central_nervous_system(1)	3						TGATCGTGGACACTTTCCACG	0.567000													9	26					0	0	0.004482	0	0	
KCND1	3750	broad.mit.edu	37	X	48826046	48826046	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:48826046G>A	uc004dlx.1	-	1	2206	c.633C>T	c.(631-633)CGC>CGT	p.R211R	KCND1_uc004dlw.1_5'Flank	NM_004979	NP_004970	Q9NSA2	KCND1_HUMAN	potassium voltage-gated channel, Shal-related	211						voltage-gated potassium channel complex	metal ion binding|voltage-gated potassium channel activity			ovary(2)|lung(1)	3						GTGCAGAGCCGCGGCATGGGA	0.582000													10	22					0	0	0.008291	0	0	
GRIPAP1	56850	broad.mit.edu	37	X	48839705	48839705	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:48839705G>A	uc004dly.1	-	16	1455	c.1420C>T	c.(1420-1422)CGA>TGA	p.R474*	GRIPAP1_uc004dlz.2_Nonsense_Mutation_p.R364*|GRIPAP1_uc004dma.2_Nonsense_Mutation_p.R421*	NM_020137	NP_064522	Q4V328	GRAP1_HUMAN	GRIP1 associated protein 1 isoform 1	474	Potential.					early endosome				breast(2)|kidney(1)	3						TGCAGCTCTCGGAGCTCACGC	0.592000													43	80					0	0	0.009718	0	0	
TFE3	7030	broad.mit.edu	37	X	48891239	48891239	+	Splice_Site	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:48891239A>G	uc004dmb.3	-	7	1298	c.1060_splice	c.e7+1	p.I354_splice	TFE3_uc004dmc.3_Splice_Site_p.I249_splice|TFE3_uc004dme.1_Splice_Site	NM_006521	NP_006512	P19532	TFE3_HUMAN	transcription factor E3						humoral immune response|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding		ASPSCR1/TFE3(161)|PRCC/TFE3(25)|SFPQ/TFE3(6)|NONO/TFE3(2)|CLTC/TFE3(2)	soft_tissue(120)|kidney(76)|central_nervous_system(1)	197						TCTCTGGCTTACTTAGGTTGT	0.582000			T	SFPQ|ASPSCR1|PRCC|NONO|CLTC	papillary renal|alveolar soft part sarcoma|renal								14	47					0	0	0.004990	0	0	
PRAF2	11230	broad.mit.edu	37	X	48931588	48931588	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:48931588G>A	uc004dmi.2	-	1	75	c.59C>T	c.(58-60)GCG>GTG	p.A20V	PRAF2_uc004dmh.2_5'Flank|PRAF2_uc011mmt.1_Intron	NM_007213	NP_009144	O60831	PRAF2_HUMAN	PRA1 domain family, member 2	20	Cytoplasmic (Potential).				L-glutamate transport|protein transport	endosome membrane|integral to membrane					0						CGCCAGACGCGCCGACCCCAG	0.647000													5	27					0	0	0.000602	0	0	
RIBC1	158787	broad.mit.edu	37	X	53455530	53455530	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:53455530C>T	uc004dsk.2	+	5	652	c.499C>T	c.(499-501)CAA>TAA	p.Q167*	RIBC1_uc004dsj.1_Nonsense_Mutation_p.Q167*|RIBC1_uc011mog.1_Intron	NM_001031745	NP_001026915	Q8N443	RIBC1_HUMAN	RIB43A domain with coiled-coils 1 isoform 1	167											0						CTTGGAAAGGCAACAGCAGGA	0.562000													6	33					0	0	0.001984	0	0	
PHF8	23133	broad.mit.edu	37	X	54069132	54069132	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:54069132G>A	uc004dsu.2	-	2	211	c.138C>T	c.(136-138)TGC>TGT	p.C46C	PHF8_uc004dst.2_Silent_p.C10C|PHF8_uc004dsw.2_Silent_p.C10C|PHF8_uc004dsy.2_Silent_p.C10C	NM_015107	NP_055922	Q9UPP1	PHF8_HUMAN	PHD finger protein 8	46	PHD-type.				brain development|G1/S transition of mitotic cell cycle|negative regulation of chromatin silencing at rDNA|positive regulation of transcription from RNA polymerase I promoter|transcription, DNA-dependent	nucleolus	chromatin binding|histone demethylase activity (H3-K27 specific)|histone demethylase activity (H3-K36 specific)|histone demethylase activity (H3-K9 specific)|histone demethylase activity (H4-K20 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(3)	3						AAGGCAGCCGGCAGAGGCAAT	0.642000											OREG0019805	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	26					0	0	0.010729	0	0	
WNK3	65267	broad.mit.edu	37	X	54275628	54275628	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:54275628C>T	uc004dtd.1	-	17	3592	c.3153G>A	c.(3151-3153)ATG>ATA	p.M1051I	WNK3_uc004dtc.1_Missense_Mutation_p.M1051I	NM_001002838	NP_001002838	Q9BYP7	WNK3_HUMAN	WNK lysine deficient protein kinase 3 isoform 2	1051					intracellular protein kinase cascade|positive regulation of establishment of protein localization in plasma membrane|positive regulation of peptidyl-threonine phosphorylation|positive regulation of rubidium ion transmembrane transporter activity|positive regulation of rubidium ion transport|positive regulation of sodium ion transmembrane transporter activity|positive regulation of sodium ion transport|protein autophosphorylation	adherens junction|tight junction	ATP binding|protein binding|protein serine/threonine kinase activity|rubidium ion transmembrane transporter activity|sodium ion transmembrane transporter activity			lung(4)|ovary(3)|kidney(2)|central_nervous_system(2)	11						ACTCTGCATCCATAGCTGGCT	0.453000													6	52					0	0	0.001168	0	0	
MAGED2	10916	broad.mit.edu	37	X	54837342	54837342	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:54837342T>C	uc004dtk.1	+	4	720	c.626T>C	c.(625-627)CTA>CCA	p.L209P	MAGED2_uc004dtl.1_Missense_Mutation_p.L209P|MAGED2_uc004dtm.1_Intron|MAGED2_uc010nkc.1_Missense_Mutation_p.L209P|MAGED2_uc004dtn.1_Missense_Mutation_p.L209P|MAGED2_uc004dto.1_Missense_Mutation_p.L183P	NM_177433	NP_803182	Q9UNF1	MAGD2_HUMAN	melanoma antigen family D, 2	209										ovary(2)|breast(1)	3						TCAAAGGCCCTAATGGCCTCA	0.602000													14	28					0	0	0.001855	0	0	
MAGEH1	28986	broad.mit.edu	37	X	55479097	55479097	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:55479097C>T	uc004dum.2	+	1	560	c.290C>T	c.(289-291)GCG>GTG	p.A97V		NM_014061	NP_054780	Q9H213	MAGH1_HUMAN	melanoma antigen, family H, 1 protein	97	MAGE.				apoptosis					ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4						TCTATATTAGCGCTCATCTTC	0.527000													15	68					0	0	0.003163	0	0	
USP51	158880	broad.mit.edu	37	X	55514661	55514661	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:55514661C>T	uc004dun.1	-	2	791	c.712G>A	c.(712-714)GTA>ATA	p.V238I	USP51_uc011moo.1_Intron	NM_201286	NP_958443	Q70EK9	UBP51_HUMAN	ubiquitin specific protease 51	238	UBP-type.				ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3						GTACTACATACGTGACAGATG	0.443000													8	56					0	0	0.006214	0	0	
RRAGB	10325	broad.mit.edu	37	X	55748712	55748712	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:55748712G>A	uc004dup.2	+	3	871	c.220G>A	c.(220-222)GCA>ACA	p.A74T	RRAGB_uc004duq.2_Missense_Mutation_p.A74T	NM_016656	NP_057740	Q5VZM2	RRAGB_HUMAN	Ras-related GTP binding B long isoform	74					cellular protein localization|cellular response to amino acid stimulus|positive regulation of TOR signaling cascade|signal transduction	Golgi apparatus|lysosome|nucleus	GTP binding|protein binding				0						TCGCCTTGGCGCAACAAGTAA	0.408000													5	83					0	0	0.001168	0	0	
ZXDB	158586	broad.mit.edu	37	X	57620192	57620192	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:57620192A>G	uc004dvd.2	+	1	1924	c.1711A>G	c.(1711-1713)AGG>GGG	p.R571G		NM_007157	NP_009088	P98169	ZXDB_HUMAN	zinc finger, X-linked, duplicated B	571	C2H2-type 10.|Required for interaction with ZXDC (By similarity).				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding				0						CATGGTTAAAAGGCATAAGGT	0.483000													3	137					0	0	0.001168	0	0	
FAM123B	139285	broad.mit.edu	37	X	63411068	63411068	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:63411068G>T	uc004dvo.2	-	2	2372	c.2099C>A	c.(2098-2100)CCT>CAT	p.P700H		NM_152424	NP_689637	Q5JTC6	F123B_HUMAN	family with sequence similarity 123B	700					Wnt receptor signaling pathway	cytoplasm|nucleus|plasma membrane		p.0?(40)		kidney(99)|large_intestine(6)|ovary(3)|lung(2)|breast(1)|liver(1)	112						CTTCTCCAGAGGACGGAAGTC	0.542000													14	63					0.00244969	0.00254065	0.002450	1	0	
KIF4A	24137	broad.mit.edu	37	X	69626771	69626771	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:69626771T>C	uc004dyg.2	+	28	3228	c.3101T>C	c.(3100-3102)TTC>TCC	p.F1034S	KIF4A_uc010nkw.2_Missense_Mutation_p.F1034S	NM_012310	NP_036442	O95239	KIF4A_HUMAN	kinesin family member 4	1034	Globular.|Interaction with PRC1.				anterograde axon cargo transport|axon guidance|blood coagulation|organelle organization	chromosome|cytosol|midbody|nuclear matrix|spindle microtubule	ATP binding|DNA binding|microtubule motor activity|protein binding			ovary(4)	4						AAAGAAAAGTTCCTGGAGCAA	0.264000													16	50					0	0	0.008871	0	0	
DLG3	1741	broad.mit.edu	37	X	69669640	69669640	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:69669640T>A	uc004dyi.1	+	4	962	c.634T>A	c.(634-636)TTG>ATG	p.L212M	DLG3_uc004dyj.1_5'Flank	NM_021120	NP_066943	Q92796	DLG3_HUMAN	synapse-associated protein 102 isoform a	212	PDZ 1.				axon guidance|negative regulation of cell proliferation|synaptic transmission	plasma membrane	guanylate kinase activity			large_intestine(1)|pancreas(1)	2	Renal(35;0.156)					TGTGGTGCGATTGGTGGTGCG	0.647000													7	36					0	0	0.001984	0	0	
MED12	9968	broad.mit.edu	37	X	70349689	70349689	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:70349689G>A	uc004dyy.2	+	27	4050	c.3851G>A	c.(3850-3852)CGC>CAC	p.R1284H	MED12_uc011mpq.1_Missense_Mutation_p.R1284H|MED12_uc004dyz.2_Missense_Mutation_p.R1284H|MED12_uc004dza.2_Missense_Mutation_p.R1131H|MED12_uc010nla.2_5'UTR	NM_005120	NP_005111	Q93074	MED12_HUMAN	mediator complex subunit 12	1284					androgen receptor signaling pathway|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|protein C-terminus binding|protein domain specific binding|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4	Renal(35;0.156)					TACGTGCTGCGCAGCATCTGC	0.562000											OREG0019857	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	31					0	0	0.008291	0	0	
OGT	8473	broad.mit.edu	37	X	70767837	70767837	+	Silent	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:70767837A>G	uc004eaa.1	+	5	829	c.612A>G	c.(610-612)CAA>CAG	p.Q204Q	BCYRN1_uc011mpt.1_Intron|OGT_uc004eab.1_Silent_p.Q194Q|OGT_uc004eac.2_Silent_p.Q65Q|OGT_uc004ead.2_5'UTR	NM_181672	NP_858058	O15294	OGT1_HUMAN	O-linked GlcNAc transferase isoform 1	204	TPR 5.				cellular response to retinoic acid|positive regulation of granulocyte differentiation|positive regulation of histone H3-K4 methylation|positive regulation of proteolysis|protein O-linked glycosylation|signal transduction	cytosol|MLL5-L complex	enzyme activator activity|protein binding|protein N-acetylglucosaminyltransferase activity			ovary(3)|kidney(1)|pancreas(1)	5	Renal(35;0.156)					TCAATGCACAAGGGGAAATTT	0.358000													11	123					0	0	0.008291	0	0	
PCDH19	57526	broad.mit.edu	37	X	99663536	99663536	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:99663536G>A	uc010nmz.2	-	1	1736	c.60C>T	c.(58-60)GCC>GCT	p.A20A	PCDH19_uc004efw.3_Silent_p.A20A|PCDH19_uc004efx.3_Silent_p.A20A	NM_020766	NP_001098713	Q8TAB3	PCD19_HUMAN	protocadherin 19 isoform b	20					homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|breast(2)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	7						TAATGAGGGCGGCAGCCTGCG	0.667000													7	16					0	0	0.001984	0	0	
DRP2	1821	broad.mit.edu	37	X	100505521	100505521	+	Silent	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:100505521C>T	uc004egz.2	+	15	2019	c.1650C>T	c.(1648-1650)GCC>GCT	p.A550A	DRP2_uc011mrh.1_Silent_p.A472A	NM_001939	NP_001930	Q13474	DRP2_HUMAN	dystrophin related protein 2	550					central nervous system development	cytoplasm|cytoskeleton	zinc ion binding			ovary(2)	2						AAGTGGCAGCCTTTGGGGGCA	0.483000													6	102					0	0	0.001168	0	0	
BEX2	84707	broad.mit.edu	37	X	102564886	102564886	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:102564886G>A	uc004ekb.2	-	3	258	c.19C>T	c.(19-21)CGA>TGA	p.R7*	BEX2_uc004eka.2_Nonsense_Mutation_p.R36*	NM_032621	NP_116010	Q9BXY8	BEX2_HUMAN	brain expressed X-linked 2	7					apoptosis|cell cycle|regulation of apoptosis|regulation of cell cycle	cytoplasm|nucleus				ovary(1)	1						TTTAACGCTCGTTCCTCTTTG	0.468000													18	72					0	0	0.007413	0	0	
SERPINA7	6906	broad.mit.edu	37	X	105279315	105279315	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:105279315G>A	uc004eme.1	-	2	700	c.684C>T	c.(682-684)GAC>GAT	p.D228D	SERPINA7_uc010npd.2_Silent_p.D228D|SERPINA7_uc010npe.1_Silent_p.D228D	NM_000354	NP_000345	P05543	THBG_HUMAN	serine (or cysteine) proteinase inhibitor, clade	228					regulation of proteolysis	extracellular space	serine-type endopeptidase inhibitor activity				0					Levothyroxine(DB00451)|Liothyronine(DB00279)	TGGTGGTCTTGTCTATTAAGA	0.408000													6	161					0	0	0.001168	0	0	
DOCK11	139818	broad.mit.edu	37	X	117788585	117788585	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:117788585A>C	uc004eqp.2	+	43	4779	c.4716A>C	c.(4714-4716)GAA>GAC	p.E1572D	DOCK11_uc004eqq.2_Missense_Mutation_p.E1351D	NM_144658	NP_653259	Q5JSL3	DOC11_HUMAN	dedicator of cytokinesis 11	1572	DHR-2.				blood coagulation	cytosol	GTP binding			ovary(3)	3						TTCCCGCAGAAGTCAAAGACT	0.423000													20	75					0	0	0.010504	0	0	
PGRMC1	10857	broad.mit.edu	37	X	118370568	118370568	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:118370568T>C	uc004erb.2	+	1	358	c.242T>C	c.(241-243)TTC>TCC	p.F81S	PGRMC1_uc011mts.1_Missense_Mutation_p.F81S	NM_006667	NP_006658	O00264	PGRC1_HUMAN	progesterone receptor membrane component 1	81	Cytochrome b5 heme-binding.|Cytoplasmic (Potential).					cell surface|endoplasmic reticulum membrane|integral to membrane|microsome|nucleolus	heme binding|protein binding|receptor activity|steroid binding				0						CTGCGGCGCTTCGACGGCGTC	0.716000													7	28					0	0	0.001984	0	0	
ANKRD58	347454	broad.mit.edu	37	X	118893082	118893082	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:118893082T>A	uc010nql.2	+	1	507	c.452T>A	c.(451-453)GTT>GAT	p.V151D		NM_001105576	NP_001099046	A6NJG2	ANR58_HUMAN	ankyrin repeat domain 58	151	ANK 2.										0						GGCTACTCGGTTCTGCACTGG	0.692000													5	19					0	0	0.000602	0	0	
THOC2	57187	broad.mit.edu	37	X	122767892	122767892	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:122767892A>G	uc004etu.2	-	20	2080	c.2048T>C	c.(2047-2049)GTA>GCA	p.V683A	THOC2_uc011muh.1_Missense_Mutation_p.V608A	NM_001081550	NP_001075019	Q8NI27	THOC2_HUMAN	THO complex 2	683					intronless viral mRNA export from host nucleus|mRNA processing|RNA splicing	THO complex part of transcription export complex	protein binding|RNA binding			ovary(3)	3						CATTTTTTGTACCACTTCTTT	0.328000													3	112					0	0	0.009096	0	0	
BCORL1	63035	broad.mit.edu	37	X	129189854	129189854	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:129189854G>A	uc004evb.1	+	13	4993	c.4879G>A	c.(4879-4881)GAT>AAT	p.D1627N	BCORL1_uc004evc.1_Missense_Mutation_p.D463N	NM_021946	NP_068765	Q5H9F3	BCORL_HUMAN	BCL6 co-repressor-like 1	1627					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				ovary(4)|breast(2)|lung(1)	7						CCTCTTTTCCGATGTCTTGAA	0.562000													13	282					0	0	0.001855	0	0	
ENOX2	10495	broad.mit.edu	37	X	129801658	129801658	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:129801658C>A	uc004evw.2	-	9	1258	c.840G>T	c.(838-840)GAG>GAT	p.E280D	ENOX2_uc004evx.2_Missense_Mutation_p.E251D|ENOX2_uc004evy.2_Missense_Mutation_p.E251D|ENOX2_uc004evv.2_Missense_Mutation_p.E107D	NM_182314	NP_872114	Q16206	ENOX2_HUMAN	ecto-NOX disulfide-thiol exchanger 2 isoform b	280					cell growth|electron transport chain|regulation of growth|transport|ultradian rhythm	cytosol|external side of plasma membrane|extracellular space	nucleic acid binding|nucleotide binding|protein disulfide oxidoreductase activity			ovary(1)	1						GACGGTTGACCTCTCCTCGCT	0.448000													22	159					4.59853e-10	5.14717e-10	0.005443	1	0	
USP26	83844	broad.mit.edu	37	X	132160701	132160701	+	Silent	SNP	G	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:132160701G>A	uc010nrm.1	-	6	2018	c.1548C>T	c.(1546-1548)ATC>ATT	p.I516I	USP26_uc011mvf.1_Silent_p.I516I	NM_031907	NP_114113	Q9BXU7	UBP26_HUMAN	ubiquitin-specific protease 26	516					protein deubiquitination|ubiquitin-dependent protein catabolic process	nucleus	cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity			lung(3)|central_nervous_system(3)|kidney(1)|liver(1)	8	Acute lymphoblastic leukemia(192;0.000127)					GAACAATAAGGATTCTAGGTA	0.378000													69	217					0	0	0.014410	0	0	
ZNF449	203523	broad.mit.edu	37	X	134494827	134494827	+	Silent	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:134494827A>G	uc004eys.2	+	5	1548	c.1383A>G	c.(1381-1383)AGA>AGG	p.R461R	ZNF449_uc004eyt.2_Silent_p.R341R|ZNF449_uc004eyu.2_Silent_p.R267R	NM_152695	NP_689908	Q6P9G9	ZN449_HUMAN	zinc finger protein 449	461					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)					CTGAAGAGAGACCTTTTAAAT	0.393000													26	158					0	0	0.006320	0	0	
MAP7D3	79649	broad.mit.edu	37	X	135310894	135310894	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:135310894C>A	uc004ezt.2	-	11	1865	c.1774G>T	c.(1774-1776)GGT>TGT	p.G592C	MAP7D3_uc004ezs.2_Missense_Mutation_p.G556C|MAP7D3_uc011mwc.1_Missense_Mutation_p.G574C|MAP7D3_uc010nsa.1_Missense_Mutation_p.G550C	NM_024597	NP_078873	Q8IWC1	MA7D3_HUMAN	MAP7 domain containing 3	592	Potential.					cytoplasm|spindle				ovary(2)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;0.000127)					TTCATAATACCTGCAGTACTC	0.403000													15	64					1.3612e-06	1.48046e-06	0.003163	1	0	
MAGEC1	9947	broad.mit.edu	37	X	140995299	140995299	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:140995299C>A	uc004fbt.2	+	4	2395	c.2109C>A	c.(2107-2109)GAC>GAA	p.D703E	MAGEC1_uc010nsl.1_Intron	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	703							protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					AGGGAGAGGACTCCCTGTCTT	0.562000										HNSCC(15;0.026)			40	110					3.78316e-11	4.26169e-11	0.006230	1	0	
SPANXN2	494119	broad.mit.edu	37	X	142795423	142795423	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:142795423C>A	uc004fbz.2	-	2	1009	c.255G>T	c.(253-255)GAG>GAT	p.E85D		NM_001009615	NP_001009615	Q5MJ10	SPXN2_HUMAN	SPANX-N2 protein	85										ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)					GGCCTTCGTCCTCCTCCTCTT	0.478000													143	413					2.05974e-71	2.39945e-71	0.014410	1	0	
SLITRK2	84631	broad.mit.edu	37	X	144904104	144904104	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:144904104T>G	uc004fcd.2	+	5	1151	c.161T>G	c.(160-162)GTT>GGT	p.V54G	SLITRK2_uc010nsp.2_Missense_Mutation_p.V54G|SLITRK2_uc010nso.2_Missense_Mutation_p.V54G|SLITRK2_uc011mwq.1_Missense_Mutation_p.V54G|SLITRK2_uc011mwr.1_Missense_Mutation_p.V54G|SLITRK2_uc011mws.1_Missense_Mutation_p.V54G|SLITRK2_uc004fcg.2_Missense_Mutation_p.V54G|SLITRK2_uc011mwt.1_Missense_Mutation_p.V54G	NM_032539	NP_115928	Q9H156	SLIK2_HUMAN	SLIT and NTRK-like family, member 2 precursor	54	Extracellular (Potential).					integral to membrane				ovary(5)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(192;6.56e-05)					TTTACAACAGTTAGCCTGCTC	0.423000													11	66					0	0	0.010729	0	0	
AFF2	2334	broad.mit.edu	37	X	148038101	148038101	+	Silent	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:148038101A>G	uc004fcp.2	+	11	3005	c.2526A>G	c.(2524-2526)ACA>ACG	p.T842T	AFF2_uc004fcq.2_Silent_p.T832T|AFF2_uc004fcr.2_Silent_p.T803T|AFF2_uc011mxb.1_Silent_p.T807T|AFF2_uc004fcs.2_Silent_p.T809T|AFF2_uc011mxc.1_Silent_p.T483T	NM_002025	NP_002016	P51816	AFF2_HUMAN	fragile X mental retardation 2	842					brain development|mRNA processing|regulation of RNA splicing|RNA splicing	nuclear speck	G-quadruplex RNA binding|protein binding			ovary(3)|pancreas(2)	5	Acute lymphoblastic leukemia(192;6.56e-05)					CAGCTGTCACAGCTGTGGAGA	0.527000													9	107					0	0	0.006214	0	0	
MAGEA10	4109	broad.mit.edu	37	X	151303514	151303514	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:151303514T>A	uc004ffk.2	-	5	987	c.579A>T	c.(577-579)GAA>GAT	p.E193D	MAGEA10_uc004ffl.2_Missense_Mutation_p.E193D	NM_001011543	NP_001011543	P43363	MAGAA_HUMAN	melanoma antigen family A, 10	193	MAGE.										0	Acute lymphoblastic leukemia(192;6.56e-05)					TGGGATCCACTTCCTTTACAT	0.498000													26	94					0	0	0.003330	0	0	
PNMA5	114824	broad.mit.edu	37	X	152159455	152159455	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:152159455C>T	uc010ntw.2	-	3	1027	c.688G>A	c.(688-690)GCC>ACC	p.A230T	PNMA5_uc004fha.3_Missense_Mutation_p.A230T|PNMA5_uc010ntx.2_Missense_Mutation_p.A230T|PNMA5_uc004fgy.3_Missense_Mutation_p.A230T	NM_001103151	NP_001096621	Q96PV4	PNMA5_HUMAN	paraneoplastic antigen like 5	230					apoptosis					ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(192;6.56e-05)					TGCTTTAGGGCGTCAAGGCAC	0.522000													16	130					0	0	0.003163	0	0	
HAUS7	55559	broad.mit.edu	37	X	152721108	152721108	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:152721108T>G	uc004fho.1	-	8	1410	c.852A>C	c.(850-852)CAA>CAC	p.Q284H	HAUS7_uc004fhl.2_RNA|HAUS7_uc004fhm.2_Splice_Site|HAUS7_uc004fhn.1_Missense_Mutation_p.Q284H|HAUS7_uc004fhp.1_Splice_Site	NM_017518	NP_059988	Q99871	HAUS7_HUMAN	HAUS augmin-like complex subunit 7	284					cell division|centrosome organization|mitosis|spindle assembly	centrosome|HAUS complex|microtubule|nucleolus|plasma membrane|spindle	thioesterase binding				0						CGTCGTAGACTTGGAGAAAAG	0.627000													29	93					0	0	0.010818	0	0	
SLC6A8	6535	broad.mit.edu	37	X	152958537	152958537	+	Silent	SNP	C	T	T	rs143750068	byFrequency	TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:152958537C>T	uc004fib.3	+	5	1097	c.819C>T	c.(817-819)GTC>GTT	p.V273V	SLC6A8_uc004fic.3_Silent_p.V273V|SLC6A8_uc011myx.1_Silent_p.V158V|SLC6A8_uc010nuj.2_RNA	NM_005629	NP_005620	P48029	SC6A8_HUMAN	solute carrier family 6 member 8 isoform 1	273	Helical; (Potential).				creatine metabolic process|muscle contraction	integral to plasma membrane	creatine:sodium symporter activity|neurotransmitter:sodium symporter activity			pancreas(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)				Creatine(DB00148)	TGGTCCTGGTCGTGCTGCTGG	0.622000													11	48					0	0	0.008291	0	0	
ABCD1	215	broad.mit.edu	37	X	152991361	152991361	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:152991361A>G	uc004fif.2	+	1	1039	c.640A>G	c.(640-642)AAC>GAC	p.N214D	BCAP31_uc004fid.2_5'Flank|BCAP31_uc011myz.1_5'Flank|BCAP31_uc011mza.1_5'Flank|BCAP31_uc004fie.2_5'Flank	NM_000033	NP_000024	P33897	ABCD1_HUMAN	ATP-binding cassette, sub-family D (ALD), member	214	ABC transmembrane type-1.		N -> D (in X-ALD).		fatty acid beta-oxidation using acyl-CoA oxidase|peroxisomal membrane transport|peroxisome organization	cytosol|integral to peroxisomal membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|identical protein binding|peroxisomal fatty-acyl-CoA transporter activity				0	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CCTCTACTCCAACCTGACCAA	0.672000													19	84					0	0	0.010504	0	0	
PLXNA3	55558	broad.mit.edu	37	X	153696164	153696164	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chrX:153696164C>T	uc004flm.2	+	21	3813	c.3640C>T	c.(3640-3642)CGG>TGG	p.R1214W		NM_017514	NP_059984	P51805	PLXA3_HUMAN	plexin A3 precursor	1214	Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	transmembrane receptor activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					CTCGGCAGAGCGGGCGCTGAC	0.692000													4	43					0	0	0.009096	0	0	
SLC43A1	8501	broad.mit.edu	37	11	57281506	57281508	+	In_Frame_Del	DEL	AGA	-	-			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:57281506_57281508delAGA	uc001nkk.2	-	2	195_197	c.77_79delTCT	c.(76-81)TTCTCT>TCT	p.F26del	SLC43A1_uc001nkl.2_In_Frame_Del_p.F26del	NM_003627	NP_003618	O75387	LAT3_HUMAN	solute carrier family 43, member 1	26	Helical; (Potential).				cellular nitrogen compound metabolic process|ion transport	integral to plasma membrane	neutral amino acid transmembrane transporter activity				0						AGTACAGCAGAGAAGAAGAGGTT	0.611													5	8	---	---	---	---						.
PLCB3	5331	broad.mit.edu	37	11	64032517	64032517	+	Frame_Shift_Del	DEL	C	-	-			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:64032517delC	uc001nzb.2	+	23	2747	c.2747delC	c.(2746-2748)TCCfs	p.S916fs	PLCB3_uc009ypg.1_Frame_Shift_Del_p.S916fs|PLCB3_uc009yph.1_Frame_Shift_Del_p.S849fs|PLCB3_uc009ypi.2_Frame_Shift_Del_p.S916fs	NM_000932	NP_000923	Q01970	PLCB3_HUMAN	phospholipase C beta 3	916					intracellular signal transduction|lipid catabolic process|synaptic transmission	cytosol	calcium ion binding|calmodulin binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|pancreas(1)	2						CTGGATGCCTCCCCCCGCCGG	0.701													7	11	---	---	---	---						.
MALAT1	378938	broad.mit.edu	37	11	65269498	65269498	+	RNA	DEL	T	-	-			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr11:65269498delT	uc010roh.1	+	1		c.4266delT			uc001ody.2_RNA|MALAT1_uc001odz.2_5'Flank	NR_002819				Homo sapiens clone alpha1 mRNA sequence.												0						AATGATTTAGTTTTTTTCCCC	0.383													16	31	---	---	---	---						.
CCDC41	51134	broad.mit.edu	37	12	94729387	94729387	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr12:94729387delT	uc001tdd.2	-	12	1983	c.1397delA	c.(1396-1398)AATfs	p.N466fs	CCDC41_uc001tde.2_Frame_Shift_Del_p.N466fs|CCDC41_uc009zsw.1_RNA	NM_016122	NP_057206	Q9Y592	CCD41_HUMAN	NY-REN-58 antigen	458	Potential.										0						AGAATTTTCATTTTTTTCCTT	0.269													10	21	---	---	---	---						.
BCKDHA	593	broad.mit.edu	37	19	41929040	41929042	+	In_Frame_Del	DEL	AGG	-	-			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr19:41929040_41929042delAGG	uc002oqq.2	+	8	1162_1164	c.1133_1135delAGG	c.(1132-1137)CAGGAG>CAG	p.E379del	CYP2F1_uc010xvw.1_Intron|BCKDHA_uc002oqm.3_In_Frame_Del_p.E413del|BCKDHA_uc002oqr.2_In_Frame_Del_p.E378del|BCKDHA_uc010xvz.1_In_Frame_Del_p.E382del	NM_000709	NP_000700	P12694	ODBA_HUMAN	branched chain keto acid dehydrogenase E1, alpha	379					branched chain family amino acid catabolic process	mitochondrial alpha-ketoglutarate dehydrogenase complex	3-methyl-2-oxobutanoate dehydrogenase (2-methylpropanoyl-transferring) activity|alpha-ketoacid dehydrogenase activity|carboxy-lyase activity|metal ion binding|protein binding				0						GATGAGGAGCAGGAGAAGGCCTG	0.635													3	4	---	---	---	---						.
SMC6	79677	broad.mit.edu	37	2	17888597	17888597	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:17888597delT	uc002rco.2	-	18	2191	c.1895delA	c.(1894-1896)AATfs	p.N632fs	SMC6_uc010exo.2_Frame_Shift_Del_p.N632fs|SMC6_uc002rcn.2_Frame_Shift_Del_p.N632fs|SMC6_uc002rcp.1_Frame_Shift_Del_p.N658fs|SMC6_uc002rcq.2_Frame_Shift_Del_p.N658fs	NM_001142286	NP_001135758	Q96SB8	SMC6_HUMAN	SMC6 protein	632	Flexible hinge.				DNA recombination|DNA repair	chromosome|nucleus	ATP binding			breast(4)|upper_aerodigestive_tract(1)|kidney(1)	6	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					TTCTCTACAATTTTTGGGTGG	0.338													24	49	---	---	---	---						.
RTKN	6242	broad.mit.edu	37	2	74653450	74653450	+	Frame_Shift_Del	DEL	G	-	-			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:74653450delG	uc002sle.2	-	12	1729	c.1612delC	c.(1612-1614)CTCfs	p.L538fs	RTKN_uc002slc.2_Frame_Shift_Del_p.L525fs|RTKN_uc002sld.2_Frame_Shift_Del_p.L488fs	NM_001015055	NP_001015055	Q9BST9	RTKN_HUMAN	rhotekin isoform a	538	Pro-rich.				apoptosis|regulation of anti-apoptosis|Rho protein signal transduction	intracellular	GTP binding|GTP-Rho binding|GTPase inhibitor activity			skin(1)	1						TGAGGTGGGAGGGGGGCAACC	0.652													85	175	---	---	---	---						.
NCKAP5	344148	broad.mit.edu	37	2	133887625	133887625	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:133887625delT	uc002ttp.2	-	6	640	c.266delA	c.(265-267)AAGfs	p.K89fs	NCKAP5_uc002ttq.2_Frame_Shift_Del_p.K89fs|NCKAP5_uc002ttt.1_Frame_Shift_Del_p.K89fs|NCKAP5_uc002tts.1_Frame_Shift_Del_p.K64fs	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	89	Potential.						protein binding				0						CTGCAACCGCTTCTCGCTTTG	0.458													8	16	---	---	---	---						.
SP140L	93349	broad.mit.edu	37	2	231266129	231266129	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr2:231266129delT	uc010fxm.1	+	17	1562	c.1471delT	c.(1471-1473)TTTfs	p.F491fs	SP140L_uc010fxo.1_3'UTR	NM_138402	NP_612411	Q9H930	LY10L_HUMAN	SP140 nuclear body protein-like	Error:Variant_position_missing_in_Q9H930_after_alignment						nucleus	DNA binding|metal ion binding			central_nervous_system(1)	1						TGAGAGCTCCTTTTTTGCCAA	0.433													12	26	---	---	---	---						.
FAM83D	81610	broad.mit.edu	37	20	37555035	37555035	+	Frame_Shift_Del	DEL	C	-	-			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr20:37555035delC	uc002xjg.2	+	1	81	c.40delC	c.(40-42)CGGfs	p.R14fs	FAM83D_uc002xjf.2_Frame_Shift_Del_p.R14fs	NM_030919	NP_112181	Q9H4H8	FA83D_HUMAN	hypothetical protein LOC81610	Error:Variant_position_missing_in_Q9H4H8_after_alignment					cell division|mitosis	cytoplasm|spindle pole				ovary(3)	3		Myeloproliferative disorder(115;0.00878)				GCCTATAAAGCGGGACTGCAC	0.652													20	30	---	---	---	---						.
SIK1	150094	broad.mit.edu	37	21	44836942	44836942	+	Frame_Shift_Del	DEL	G	-	-			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr21:44836942delG	uc002zdf.2	-	14	2159	c.2032delC	c.(2032-2034)CAGfs	p.Q678fs		NM_173354	NP_775490	P57059	SIK1_HUMAN	salt-inducible kinase 1	678					anoikis|cell cycle|cell differentiation|intracellular protein kinase cascade|multicellular organismal development|regulation of cell differentiation|regulation of mitotic cell cycle	nucleus	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			lung(2)|testis(2)|ovary(1)|central_nervous_system(1)|skin(1)	7						GGGGCCGGCTGGGGGGCCTGG	0.736													6	7	---	---	---	---						.
ABCE1	6059	broad.mit.edu	37	4	146041224	146041224	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr4:146041224delA	uc003ijx.2	+	11	1503	c.1063delA	c.(1063-1065)AAAfs	p.K355fs	ABCE1_uc003ijy.2_Frame_Shift_Del_p.K355fs|ABCE1_uc010iot.2_RNA	NM_001040876	NP_001035809	P61221	ABCE1_HUMAN	ATP-binding cassette, sub-family E, member 1	355	ABC transporter 2.				interspecies interaction between organisms|response to virus|RNA catabolic process	mitochondrion	ATP binding|ATPase activity|electron carrier activity|iron-sulfur cluster binding|ribonuclease inhibitor activity			skin(1)	1	all_hematologic(180;0.151)					AGGAATGAAGAAAAAAATGGG	0.353													20	46	---	---	---	---						.
ACTB	60	broad.mit.edu	37	7	5568135	5568137	+	In_Frame_Del	DEL	GAG	-	-			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:5568135_5568137delGAG	uc003sos.3	-	3	613_615	c.577_579delCTC	c.(577-579)CTCdel	p.L193del	ACTB_uc003sor.3_In_Frame_Del_p.L71del|ACTB_uc003sot.3_In_Frame_Del_p.L193del|ACTB_uc003soq.3_In_Frame_Del_p.L71del|ACTB_uc010ksy.2_In_Frame_Del_p.L71del	NM_001101	NP_001092	P60709	ACTB_HUMAN	beta actin	193					'de novo' posttranslational protein folding|adherens junction organization|axon guidance|blood coagulation|cell junction assembly|cellular component movement	cytoskeleton|cytosol|MLL5-L complex|NuA4 histone acetyltransferase complex|ribonucleoprotein complex	ATP binding|kinesin binding|nitric-oxide synthase binding|structural constituent of cytoskeleton				0		Ovarian(82;0.0606)		UCEC - Uterine corpus endometrioid carcinoma (126;0.175)|OV - Ovarian serous cystadenocarcinoma(56;4.24e-37)		CGCGCTCGGTGAGGATCTTCATG	0.611													47	99	---	---	---	---						.
FAM133B	257415	broad.mit.edu	37	7	92208639	92208639	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-6566-01A-11D-1800-08	TCGA-BR-6566-11A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1711a24c-b7ae-4201-9f26-cf2403a84f40	60bdc713-b8ce-41be-adde-9fba371fee6e	g.chr7:92208639delT	uc003umc.2	-	3	294	c.193delA	c.(193-195)ATGfs	p.M65fs	FAM133B_uc003umb.2_Frame_Shift_Del_p.M55fs|FAM133B_uc003umd.2_RNA	NM_152789	NP_690002	Q5BKY9	F133B_HUMAN	hypothetical protein LOC257415 isoform 1	65	Lys-rich.									ovary(1)	1	all_cancers(62;7.39e-11)|all_epithelial(64;7.03e-10)|Breast(17;0.00201)|all_lung(186;0.0384)|Lung NSC(181;0.053)|all_hematologic(106;0.237)		STAD - Stomach adenocarcinoma(4;6.16e-07)|GBM - Glioblastoma multiforme(5;9.78e-06)|all cancers(6;1.67e-05)|Epithelial(20;0.113)|LUSC - Lung squamous cell carcinoma(200;0.225)|Lung(22;0.23)			ACCTCATTCATTTTTTCTTCA	0.204													22	38	---	---	---	---						.
