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	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	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	validation_status	validation_method	validation_tumor_sample	validation_alt_allele
MXRA8	54587	broad.mit.edu	37	1	1293803	1293803	+	Intron	DEL	C	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:1293803delC	uc001aew.2	-						MXRA8_uc001aex.3_Intron|MXRA8_uc001aey.3_Intron|MXRA8_uc010nyl.1_Intron|MXRA8_uc001aez.2_Intron|MXRA8_uc001afa.2_Intron	NM_032348	NP_115724			matrix-remodelling associated 8 precursor							integral to membrane					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;2.83e-35)|OV - Ovarian serous cystadenocarcinoma(86;3.77e-21)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.0025)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.145)														---	---	---	---
KIAA1751	85452	broad.mit.edu	37	1	1896229	1896229	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:1896229delA	uc001aim.1	-						KIAA1751_uc009vkz.1_Intron	NM_001080484	NP_001073953			hypothetical protein LOC85452											pancreas(1)	1	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;6.04e-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)|Medulloblastoma(700;0.151)|Lung SC(97;0.217)		Epithelial(90;8.79e-39)|OV - Ovarian serous cystadenocarcinoma(86;9.61e-25)|GBM - Glioblastoma multiforme(42;1.2e-07)|Colorectal(212;4.84e-05)|COAD - Colon adenocarcinoma(227;0.000214)|Kidney(185;0.00254)|BRCA - Breast invasive adenocarcinoma(365;0.00461)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.037)|Lung(427;0.205)														---	---	---	---
PANK4	55229	broad.mit.edu	37	1	2441467	2441467	+	Intron	DEL	C	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:2441467delC	uc001ajm.1	-						PANK4_uc010nza.1_Intron	NM_018216	NP_060686			pantothenate kinase 4						coenzyme A biosynthetic process	cytoplasm	ATP binding|pantothenate kinase activity			upper_aerodigestive_tract(1)|large_intestine(1)|ovary(1)	3	all_cancers(77;0.000158)|all_epithelial(69;8.01e-05)|all_lung(157;0.0212)|Lung NSC(156;0.0376)|Ovarian(185;0.0634)	all_epithelial(116;3.18e-20)|all_lung(118;1.67e-08)|Lung NSC(185;2.69e-06)|Breast(487;0.00147)|Renal(390;0.00183)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.0847)|Medulloblastoma(700;0.123)		Epithelial(90;1.54e-37)|OV - Ovarian serous cystadenocarcinoma(86;6.95e-23)|GBM - Glioblastoma multiforme(42;2.81e-08)|Colorectal(212;4.25e-05)|COAD - Colon adenocarcinoma(227;0.000196)|Kidney(185;0.000342)|BRCA - Breast invasive adenocarcinoma(365;0.00445)|KIRC - Kidney renal clear cell carcinoma(229;0.00549)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.201)														---	---	---	---
MMEL1	79258	broad.mit.edu	37	1	2525180	2525180	+	Intron	DEL	C	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:2525180delC	uc001ajy.2	-						MMEL1_uc009vlg.1_Intron	NM_033467	NP_258428			membrane metallo-endopeptidase-like 1						proteolysis	extracellular region|integral to membrane|intracellular membrane-bounded organelle	metal ion binding|metalloendopeptidase activity				0	all_cancers(77;0.000233)|all_epithelial(69;8.55e-05)|all_lung(157;0.0228)|Lung NSC(156;0.0402)|Ovarian(185;0.0634)	all_epithelial(116;1.03e-20)|all_lung(118;5.15e-09)|Lung NSC(185;9.02e-07)|Breast(487;0.00147)|Renal(390;0.00183)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.0847)|Medulloblastoma(700;0.123)		Epithelial(90;4.31e-38)|OV - Ovarian serous cystadenocarcinoma(86;8.52e-23)|GBM - Glioblastoma multiforme(42;1.49e-08)|Colorectal(212;4.79e-05)|COAD - Colon adenocarcinoma(227;0.000213)|Kidney(185;0.000371)|BRCA - Breast invasive adenocarcinoma(365;0.00219)|KIRC - Kidney renal clear cell carcinoma(229;0.00571)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.131)														---	---	---	---
CHD5	26038	broad.mit.edu	37	1	6184729	6184729	+	Intron	DEL	G	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:6184729delG	uc001amb.1	-						CHD5_uc001alz.1_Intron|CHD5_uc001ama.1_Intron|CHD5_uc001amc.1_Intron|CHD5_uc009vlx.1_Intron	NM_015557	NP_056372			chromodomain helicase DNA binding protein 5						chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding|zinc ion binding			central_nervous_system(3)|breast(3)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	12	Ovarian(185;0.0634)	all_cancers(23;5.36e-32)|all_epithelial(116;2.32e-17)|all_neural(13;3.68e-06)|all_lung(118;3.94e-06)|all_hematologic(16;2.39e-05)|Lung NSC(185;5.33e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00373)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;3.08e-37)|GBM - Glioblastoma multiforme(13;1.36e-31)|OV - Ovarian serous cystadenocarcinoma(86;7.7e-19)|Colorectal(212;9.97e-08)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(185;6.16e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.00109)|BRCA - Breast invasive adenocarcinoma(365;0.0012)|STAD - Stomach adenocarcinoma(132;0.00346)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.193)														---	---	---	---
CAMTA1	23261	broad.mit.edu	37	1	6894337	6894337	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:6894337delT	uc001aoi.2	+						CAMTA1_uc001aoh.2_Intron	NM_015215	NP_056030			calmodulin-binding transcription activator 1						regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calmodulin binding			ovary(5)|central_nervous_system(2)|breast(1)|pancreas(1)	9	Ovarian(185;0.0634)	all_epithelial(116;8.38e-23)|all_lung(118;5.87e-07)|Lung NSC(185;3.43e-06)|Renal(390;0.000219)|Breast(487;0.000307)|Colorectal(325;0.000615)|Hepatocellular(190;0.0088)|Myeloproliferative disorder(586;0.0303)|Ovarian(437;0.0388)		UCEC - Uterine corpus endometrioid carcinoma (279;0.101)|Colorectal(212;1.33e-05)|COAD - Colon adenocarcinoma(227;0.000235)|BRCA - Breast invasive adenocarcinoma(304;0.000864)|Kidney(185;0.00244)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0179)|READ - Rectum adenocarcinoma(331;0.133)														---	---	---	---
KIF1B	23095	broad.mit.edu	37	1	10412667	10412667	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:10412667delT	uc001aqx.3	+						KIF1B_uc001aqw.3_Intron|KIF1B_uc001aqy.2_Intron|KIF1B_uc001aqz.2_Intron|KIF1B_uc001ara.2_Intron|KIF1B_uc001arb.2_Intron	NM_015074	NP_055889			kinesin family member 1B isoform b						anterograde axon cargo transport|apoptosis|neuromuscular synaptic transmission|neuron-neuron synaptic transmission	cytoplasmic vesicle membrane|microtubule|microtubule associated complex|mitochondrion	ATP binding|ATPase activity|kinesin binding|microtubule motor activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	Ovarian(185;0.203)	all_lung(284;1.31e-05)|Lung NSC(185;2.2e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0259)|Colorectal(212;9.79e-07)|COAD - Colon adenocarcinoma(227;0.000143)|BRCA - Breast invasive adenocarcinoma(304;0.000413)|Kidney(185;0.00134)|KIRC - Kidney renal clear cell carcinoma(229;0.0037)|STAD - Stomach adenocarcinoma(132;0.0113)|READ - Rectum adenocarcinoma(331;0.0642)														---	---	---	---
EXOSC10	5394	broad.mit.edu	37	1	11147660	11147662	+	Intron	DEL	AGA	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:11147660_11147662delAGA	uc001asa.2	-						EXOSC10_uc001asb.2_Intron|EXOSC10_uc009vmy.1_Intron	NM_001001998	NP_001001998			exosome component 10 isoform 1						CUT catabolic process|histone mRNA catabolic process|maturation of 5.8S rRNA|nuclear polyadenylation-dependent rRNA catabolic process|nuclear retention of unspliced pre-mRNA at the site of transcription|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	cytoplasm|nuclear exosome (RNase complex)|nucleolus|transcriptionally active chromatin	3'-5' exonuclease activity|exoribonuclease activity|identical protein binding|nucleotide binding|protein serine/threonine kinase activity|RNA binding			upper_aerodigestive_tract(1)	1	Ovarian(185;0.249)	Lung NSC(185;1.74e-05)|all_lung(284;2.05e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00262)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;4.18e-07)|COAD - Colon adenocarcinoma(227;8.33e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000315)|Kidney(185;0.000832)|KIRC - Kidney renal clear cell carcinoma(229;0.00269)|READ - Rectum adenocarcinoma(331;0.0526)|STAD - Stomach adenocarcinoma(313;0.202)														---	---	---	---
AADACL4	343066	broad.mit.edu	37	1	12708366	12708369	+	Intron	DEL	TCCT	-	-	rs111237684	by1000genomes	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:12708366_12708369delTCCT	uc001auf.2	+							NM_001013630	NP_001013652			arylacetamide deacetylase-like 4							integral to membrane	carboxylesterase activity				0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.000937)|all_lung(284;0.00122)|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;6.81e-07)|COAD - Colon adenocarcinoma(227;0.000274)|BRCA - Breast invasive adenocarcinoma(304;0.000311)|Kidney(185;0.00217)|KIRC - Kidney renal clear cell carcinoma(229;0.00579)|STAD - Stomach adenocarcinoma(313;0.00743)|READ - Rectum adenocarcinoma(331;0.0384)														---	---	---	---
FBXO42	54455	broad.mit.edu	37	1	16632518	16632518	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:16632518delT	uc001ayg.2	-						FBXO42_uc001ayf.2_Intron|FBXO42_uc001ayh.2_Intron	NM_018994	NP_061867			F-box protein 42											upper_aerodigestive_tract(1)|skin(1)	2		Colorectal(325;0.000147)|Renal(390;0.00145)|Breast(348;0.00224)|Lung NSC(340;0.00475)|all_lung(284;0.00671)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0646)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0193)|Colorectal(212;3.16e-07)|COAD - Colon adenocarcinoma(227;1.46e-05)|BRCA - Breast invasive adenocarcinoma(304;4.37e-05)|Kidney(64;0.000246)|KIRC - Kidney renal clear cell carcinoma(64;0.00336)|STAD - Stomach adenocarcinoma(313;0.0139)|READ - Rectum adenocarcinoma(331;0.0693)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	18427690	18427692	+	IGR	DEL	TCC	-	-	rs141803945		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:18427690_18427692delTCC								ACTL8 (274134 upstream) : IGSF21 (6548 downstream)																																			---	---	---	---
AKR7A2	8574	broad.mit.edu	37	1	19634583	19634583	+	Intron	DEL	G	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:19634583delG	uc001bbw.2	-						AKR7A2_uc001bbx.2_Intron|AKR7A2_uc009vpi.1_Frame_Shift_Del_p.P220fs	NM_003689	NP_003680			aldo-keto reductase family 7, member A2						carbohydrate metabolic process|cellular aldehyde metabolic process	Golgi apparatus	alditol:NADP+ 1-oxidoreductase activity|electron carrier activity			central_nervous_system(1)	1		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000321)|Lung NSC(340;0.000398)|Breast(348;0.00049)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00461)|BRCA - Breast invasive adenocarcinoma(304;1.83e-05)|Kidney(64;0.000167)|GBM - Glioblastoma multiforme(114;0.00115)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)														---	---	---	---
USP48	84196	broad.mit.edu	37	1	22032188	22032188	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:22032188delA	uc001bfb.2	-						USP48_uc001bfa.2_Intron|USP48_uc010odq.1_Intron|USP48_uc009vqc.2_Intron|USP48_uc001bfc.2_Intron|USP48_uc001bfd.1_5'Flank	NM_032236	NP_115612			ubiquitin specific protease 48 isoform a						ubiquitin-dependent protein catabolic process	mitochondrion|nucleus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(1)|lung(1)	2		Colorectal(325;3.46e-05)|all_lung(284;4.29e-05)|Lung NSC(340;4.66e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|OV - Ovarian serous cystadenocarcinoma(117;4.74e-26)|COAD - Colon adenocarcinoma(152;1.3e-05)|GBM - Glioblastoma multiforme(114;1.86e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000614)|STAD - Stomach adenocarcinoma(196;0.00644)|KIRC - Kidney renal clear cell carcinoma(1967;0.00711)|Lung(427;0.0327)|READ - Rectum adenocarcinoma(331;0.0657)|LUSC - Lung squamous cell carcinoma(448;0.0753)														---	---	---	---
NIPAL3	57185	broad.mit.edu	37	1	24775823	24775823	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:24775823delT	uc001bjh.2	+						NIPAL3_uc010oek.1_Intron|NIPAL3_uc001bjg.2_Intron|NIPAL3_uc009vrc.2_Intron	NM_020448	NP_065181			NIPA-like domain containing 3							integral to membrane					0																		---	---	---	---
SYF2	25949	broad.mit.edu	37	1	25554441	25554441	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:25554441delT	uc001bjt.1	-						SYF2_uc001bju.1_Intron|SYF2_uc010oeo.1_Intron	NM_015484	NP_056299			SYF2 homolog, RNA splicing factor isoform 1							catalytic step 2 spliceosome					0		Colorectal(325;3.46e-05)|Lung NSC(340;0.000245)|all_lung(284;0.000335)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0101)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0936)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0416)|OV - Ovarian serous cystadenocarcinoma(117;1.5e-26)|Colorectal(126;2.54e-08)|COAD - Colon adenocarcinoma(152;9.31e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000455)|STAD - Stomach adenocarcinoma(196;0.000766)|KIRC - Kidney renal clear cell carcinoma(1967;0.00145)|GBM - Glioblastoma multiforme(114;0.00443)|READ - Rectum adenocarcinoma(331;0.0936)|Lung(427;0.201)														---	---	---	---
C1orf135	79000	broad.mit.edu	37	1	26186960	26186961	+	5'Flank	DEL	TT	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:26186960_26186961delTT	uc001bkw.1	-							NM_024037	NP_076942			aurora A-binding protein												0		Colorectal(325;0.000147)|Renal(390;0.00211)|Lung NSC(340;0.00521)|all_lung(284;0.00764)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.051)|Breast(348;0.0675)|all_neural(195;0.117)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0429)|OV - Ovarian serous cystadenocarcinoma(117;3.28e-25)|Colorectal(126;3.23e-08)|COAD - Colon adenocarcinoma(152;1.75e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000787)|BRCA - Breast invasive adenocarcinoma(304;0.00102)|STAD - Stomach adenocarcinoma(196;0.00154)|GBM - Glioblastoma multiforme(114;0.015)|READ - Rectum adenocarcinoma(331;0.0649)														---	---	---	---
PAFAH2	5051	broad.mit.edu	37	1	26314634	26314634	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:26314634delT	uc001bld.3	-						PAFAH2_uc001ble.3_Intron	NM_000437	NP_000428			platelet-activating factor acetylhydrolase 2						lipid catabolic process	cytoplasm	1-alkyl-2-acetylglycerophosphocholine esterase activity|phospholipid binding			ovary(2)	2		Colorectal(325;3.47e-05)|Lung NSC(340;6.23e-05)|all_lung(284;9.48e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0155)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0298)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;3.84e-25)|Colorectal(126;3.57e-08)|COAD - Colon adenocarcinoma(152;1.84e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|BRCA - Breast invasive adenocarcinoma(304;0.00105)|STAD - Stomach adenocarcinoma(196;0.00155)|GBM - Glioblastoma multiforme(114;0.00717)|READ - Rectum adenocarcinoma(331;0.0649)														---	---	---	---
PDIK1L	149420	broad.mit.edu	37	1	26449196	26449196	+	3'UTR	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:26449196delT	uc010oew.1	+	3					PDIK1L_uc001blj.3_3'UTR|PDIK1L_uc009vsb.2_3'UTR	NM_152835	NP_690048			PDLIM1 interacting kinase 1 like							nucleus	ATP binding|protein serine/threonine kinase activity				0		Colorectal(325;0.000147)|Renal(390;0.00211)|Lung NSC(340;0.00239)|all_lung(284;0.00366)|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;7.32e-26)|Colorectal(126;1.24e-08)|COAD - Colon adenocarcinoma(152;9.31e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.000735)|BRCA - Breast invasive adenocarcinoma(304;0.000973)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.015)|READ - Rectum adenocarcinoma(331;0.0649)														---	---	---	---
ARID1A	8289	broad.mit.edu	37	1	27088682	27088682	+	Frame_Shift_Del	DEL	C	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:27088682delC	uc001bmv.1	+	7	2664	c.2291delC	c.(2290-2292)TCCfs	p.S764fs	ARID1A_uc001bmt.1_Frame_Shift_Del_p.S764fs|ARID1A_uc001bmu.1_Frame_Shift_Del_p.S764fs|ARID1A_uc001bmw.1_Frame_Shift_Del_p.S381fs	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	764					androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding	p.Q766fs*67(1)|p.Q766fs*51(1)		ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)				Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								---	---	---	---
FAM76A	199870	broad.mit.edu	37	1	28085983	28085983	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:28085983delT	uc001boq.2	+						FAM76A_uc009vtb.2_Intron|FAM76A_uc001bor.2_Intron|FAM76A_uc001bos.2_Intron|FAM76A_uc001bot.2_Intron|FAM76A_uc010ofm.1_Intron	NM_152660	NP_689873			hypothetical protein LOC199870 isoform 3												0		Colorectal(325;0.000147)|all_lung(284;0.00181)|Lung NSC(340;0.00278)|Renal(390;0.00357)|Breast(348;0.0115)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0545)|all_neural(195;0.0966)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0429)|OV - Ovarian serous cystadenocarcinoma(117;3.52e-24)|Colorectal(126;3.23e-08)|COAD - Colon adenocarcinoma(152;1.75e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00253)|KIRC - Kidney renal clear cell carcinoma(1967;0.00292)|STAD - Stomach adenocarcinoma(196;0.00308)|READ - Rectum adenocarcinoma(331;0.0649)														---	---	---	---
PHACTR4	65979	broad.mit.edu	37	1	28817970	28817970	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:28817970delA	uc001bpw.2	+						PHACTR4_uc001bpv.1_Intron|PHACTR4_uc001bpx.2_Intron|PHACTR4_uc001bpy.2_Intron|PHACTR4_uc001bpz.2_5'Flank	NM_001048183	NP_001041648			phosphatase and actin regulator 4 isoform 1								actin binding|protein phosphatase inhibitor activity				0		Colorectal(325;3.46e-05)|Lung NSC(340;4.37e-05)|all_lung(284;7.01e-05)|Renal(390;0.00121)|Breast(348;0.00345)|all_neural(195;0.0208)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0261)		OV - Ovarian serous cystadenocarcinoma(117;1.35e-21)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00273)|STAD - Stomach adenocarcinoma(196;0.00299)|BRCA - Breast invasive adenocarcinoma(304;0.0144)|READ - Rectum adenocarcinoma(331;0.0649)														---	---	---	---
EPB41	2035	broad.mit.edu	37	1	29338368	29338368	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:29338368delT	uc001brm.1	+						EPB41_uc001brg.1_Intron|EPB41_uc001brh.1_Intron|EPB41_uc001bri.1_Intron|EPB41_uc001brj.1_Intron|EPB41_uc009vtk.1_Intron|EPB41_uc001brk.2_Intron|EPB41_uc001brl.1_Intron|EPB41_uc009vtl.1_Intron|EPB41_uc009vtm.1_Intron	NM_203342	NP_976217			erythrocyte membrane protein band 4.1						blood circulation|cortical actin cytoskeleton organization|positive regulation of protein binding	extrinsic to membrane|Golgi apparatus|nucleus|plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	1-phosphatidylinositol binding|actin binding|spectrin binding|structural constituent of cytoskeleton			ovary(1)	1		Colorectal(325;3.46e-05)|Prostate(1639;0.000244)|Lung NSC(340;0.00328)|all_lung(284;0.00412)|Breast(348;0.00765)|all_neural(195;0.0199)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)|Medulloblastoma(700;0.123)		Colorectal(126;3.12e-07)|COAD - Colon adenocarcinoma(152;1.21e-05)|STAD - Stomach adenocarcinoma(196;0.00395)|KIRC - Kidney renal clear cell carcinoma(1967;0.0249)|BRCA - Breast invasive adenocarcinoma(304;0.0289)|READ - Rectum adenocarcinoma(331;0.0757)														---	---	---	---
EPB41	2035	broad.mit.edu	37	1	29438821	29438821	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:29438821delT	uc001brm.1	+						EPB41_uc001brg.1_Intron|EPB41_uc001brh.1_Intron|EPB41_uc001bri.1_Intron|EPB41_uc001brj.1_Intron|EPB41_uc001brl.1_Intron|EPB41_uc009vtl.1_Intron|EPB41_uc009vtm.1_Intron|EPB41_uc009vtn.1_Intron	NM_203342	NP_976217			erythrocyte membrane protein band 4.1						blood circulation|cortical actin cytoskeleton organization|positive regulation of protein binding	extrinsic to membrane|Golgi apparatus|nucleus|plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	1-phosphatidylinositol binding|actin binding|spectrin binding|structural constituent of cytoskeleton			ovary(1)	1		Colorectal(325;3.46e-05)|Prostate(1639;0.000244)|Lung NSC(340;0.00328)|all_lung(284;0.00412)|Breast(348;0.00765)|all_neural(195;0.0199)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)|Medulloblastoma(700;0.123)		Colorectal(126;3.12e-07)|COAD - Colon adenocarcinoma(152;1.21e-05)|STAD - Stomach adenocarcinoma(196;0.00395)|KIRC - Kidney renal clear cell carcinoma(1967;0.0249)|BRCA - Breast invasive adenocarcinoma(304;0.0289)|READ - Rectum adenocarcinoma(331;0.0757)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	31580928	31580928	+	IGR	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:31580928delT								PUM1 (42165 upstream) : NKAIN1 (71665 downstream)																																			---	---	---	---
SFPQ	6421	broad.mit.edu	37	1	35656888	35656888	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:35656888delA	uc001bys.2	-						SFPQ_uc001byr.2_5'Flank	NM_005066	NP_005057			splicing factor proline/glutamine rich						alternative nuclear mRNA splicing, via spliceosome|DNA recombination|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear matrix|paraspeckles	DNA binding|nucleotide binding|protein binding|protein binding|RNA binding		SFPQ/TFE3(6)	kidney(4)|soft_tissue(2)|ovary(1)|skin(1)	8		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.196)						T	TFE3	papillary renal cell								---	---	---	---
Unknown	0	broad.mit.edu	37	1	36586349	36586350	+	IGR	DEL	AA	-	-	rs146743730		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:36586349_36586350delAA								COL8A2 (20499 upstream) : TRAPPC3 (15825 downstream)																																			---	---	---	---
RHBDL2	54933	broad.mit.edu	37	1	39352117	39352117	+	3'UTR	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:39352117delT	uc001ccu.1	-	8					RHBDL2_uc010oin.1_3'UTR|RHBDL2_uc010oio.1_3'UTR	NM_017821	NP_060291			rhomboid protease 2						proteolysis	integral to membrane|plasma membrane	serine-type endopeptidase activity				0	Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;8.23e-17)															---	---	---	---
MYCL1	4610	broad.mit.edu	37	1	40366987	40366987	+	Frame_Shift_Del	DEL	G	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:40366987delG	uc001cer.1	-	2	337	c.120delC	c.(118-120)CCCfs	p.P40fs	MYCL1_uc001ces.1_Frame_Shift_Del_p.P40fs|MYCL1_uc001cet.1_Frame_Shift_Del_p.P40fs	NM_001033082	NP_001028254	P12524	MYCL1_HUMAN	l-myc-1 proto-oncogene isoform 1	40						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			lung(1)|liver(1)	2	all_cancers(7;1.73e-14)|all_lung(5;2.77e-17)|all_epithelial(6;6.81e-17)|Lung SC(1;2.85e-13)|Lung NSC(20;7.03e-07)|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;1.51e-19)|Epithelial(16;3.36e-18)|all cancers(16;8.43e-17)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)					A		small cell lung 								---	---	---	---
TESK2	10420	broad.mit.edu	37	1	45821219	45821220	+	Intron	INS	-	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:45821219_45821220insT	uc001cns.1	-						TESK2_uc009vxr.1_Intron|TESK2_uc010olo.1_Intron|TESK2_uc009vxs.1_Intron	NM_007170	NP_009101			testis-specific protein kinase 2						actin cytoskeleton organization|focal adhesion assembly|spermatogenesis	nucleus	ATP binding|metal ion binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(2)|breast(2)|pancreas(1)	5	Acute lymphoblastic leukemia(166;0.155)																	---	---	---	---
FAF1	11124	broad.mit.edu	37	1	51061719	51061719	+	Intron	DEL	A	-	-	rs74080024	by1000genomes	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:51061719delA	uc009vyx.1	-						FAF1_uc009vyw.1_Intron|FAF1_uc001cse.1_Intron|FAF1_uc010onc.1_Intron	NM_007051	NP_008982			FAS-associated factor 1						apoptosis|cytoplasmic sequestering of NF-kappaB|positive regulation of apoptosis|positive regulation of protein complex assembly|proteasomal ubiquitin-dependent protein catabolic process|regulation of protein catabolic process	CD95 death-inducing signaling complex|cytosol|perinuclear region of cytoplasm	heat shock protein binding|NF-kappaB binding|protein kinase binding|protein kinase regulator activity			ovary(1)|pancreas(1)	2				GBM - Glioblastoma multiforme(3;3.18e-11)|all cancers(3;0.00526)														---	---	---	---
USP24	23358	broad.mit.edu	37	1	55604693	55604693	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:55604693delA	uc001cyg.3	-							NM_015306	NP_056121			ubiquitin specific protease 24						ubiquitin-dependent protein catabolic process		binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(6)|kidney(6)|breast(1)	13																		---	---	---	---
TM2D1	83941	broad.mit.edu	37	1	62189461	62189461	+	Intron	DEL	A	-	-	rs147863719		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:62189461delA	uc001czz.1	-							NM_032027	NP_114416			beta-amyloid binding protein precursor						apoptosis					ovary(1)	1																		---	---	---	---
WDR78	79819	broad.mit.edu	37	1	67371117	67371119	+	Intron	DEL	CAA	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:67371117_67371119delCAA	uc001dcx.2	-						WDR78_uc001dcy.2_Intron|WDR78_uc001dcz.2_Intron	NM_024763	NP_079039			WD repeat domain 78 isoform 1											ovary(2)	2																		---	---	---	---
SLC35D1	23169	broad.mit.edu	37	1	67487406	67487407	+	Intron	DEL	AG	-	-	rs71711790		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:67487406_67487407delAG	uc001ddk.2	-						SLC35D1_uc010oph.1_Intron	NM_015139	NP_055954			solute carrier family 35 (UDP-glucuronic						chondroitin sulfate biosynthetic process|UDP-glucuronate biosynthetic process|xenobiotic metabolic process	integral to endoplasmic reticulum membrane	UDP-glucuronic acid transmembrane transporter activity|UDP-N-acetylgalactosamine transmembrane transporter activity				0					Lorazepam(DB00186)													---	---	---	---
IL23R	149233	broad.mit.edu	37	1	67702536	67702536	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:67702536delT	uc001ddo.2	+						IL23R_uc009waz.2_Intron|IL23R_uc001ddp.2_Intron|IL23R_uc010opi.1_Intron|IL23R_uc010opj.1_Intron|IL23R_uc010opk.1_Intron|IL23R_uc010opl.1_Intron|IL23R_uc010opm.1_Intron|IL23R_uc001ddq.2_Intron|IL23R_uc010opn.1_Intron|IL23R_uc001ddr.2_Intron|IL23R_uc010opo.1_Intron|IL23R_uc010opp.1_Intron|IL23R_uc010opq.1_Intron|IL23R_uc010opr.1_Intron|IL23R_uc010ops.1_Intron|IL23R_uc010opt.1_Intron|IL23R_uc010opu.1_Intron|IL23R_uc010opv.1_Intron|IL23R_uc010opw.1_Intron|IL23R_uc010opx.1_Intron|IL23R_uc010opy.1_Intron|IL23R_uc010opz.1_Intron|IL23R_uc010oqa.1_Intron|IL23R_uc010oqb.1_Intron|IL23R_uc010oqc.1_Intron|IL23R_uc010oqd.1_Intron|IL23R_uc010oqe.1_Intron|IL23R_uc010oqf.1_Intron|IL23R_uc010oqg.1_Intron|IL23R_uc010oqh.1_Intron|IL23R_uc001dds.2_Intron|IL23R_uc001ddt.2_Intron	NM_144701	NP_653302			interleukin 23 receptor precursor						inflammatory response|negative regulation of interleukin-10 production|positive regulation of defense response to virus by host|positive regulation of interferon-gamma production|positive regulation of interleukin-12 production|positive regulation of memory T cell differentiation|positive regulation of T cell mediated cytotoxicity|positive regulation of T-helper 1 type immune response|positive regulation of T-helper 17 cell lineage commitment|positive regulation of T-helper 17 type immune response|response to interferon-gamma|response to lipopolysaccharide	interleukin-23 receptor complex	receptor activity				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	1	68708081	68708082	+	IGR	DEL	GT	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:68708081_68708082delGT								WLS (9828 upstream) : RPE65 (186425 downstream)																																			---	---	---	---
PRKACB	5567	broad.mit.edu	37	1	84662507	84662507	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:84662507delT	uc001djj.2	+						PRKACB_uc001djl.2_Intron|PRKACB_uc010ort.1_Intron|PRKACB_uc001djn.2_Intron|PRKACB_uc010oru.1_Intron|PRKACB_uc001djp.2_Intron|PRKACB_uc001djq.2_Intron|PRKACB_uc010orv.1_Intron|PRKACB_uc001dji.2_Intron|PRKACB_uc001djk.2_Intron|PRKACB_uc009wcf.1_Intron	NM_002731	NP_002722			cAMP-dependent protein kinase catalytic subunit						activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|G-protein signaling, coupled to cAMP nucleotide second messenger|gluconeogenesis|intracellular protein kinase cascade|nerve growth factor receptor signaling pathway|regulation of insulin secretion|synaptic transmission|transmembrane transport|triglyceride catabolic process|water transport	cAMP-dependent protein kinase complex|centrosome|cytosol|nucleoplasm|plasma membrane	ATP binding|cAMP-dependent protein kinase activity|magnesium ion binding|protein binding			lung(2)|ovary(1)	3				all cancers(265;0.00536)|Epithelial(280;0.0161)|OV - Ovarian serous cystadenocarcinoma(397;0.141)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	89569985	89569985	+	IGR	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:89569985delT								GBP1 (38942 upstream) : GBP2 (1858 downstream)																																			---	---	---	---
CDC7	8317	broad.mit.edu	37	1	91979487	91979487	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:91979487delT	uc001doe.2	+						CDC7_uc001dof.2_Intron|CDC7_uc010osw.1_Intron|CDC7_uc009wdc.2_Intron|CDC7_uc009wdd.2_5'Flank	NM_003503	NP_003494			cell division cycle 7						cell cycle checkpoint|cell division|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|positive regulation of cell proliferation|regulation of S phase	cytoplasm|nucleoplasm	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			stomach(2)|large_intestine(1)|ovary(1)|central_nervous_system(1)	5		all_lung(203;0.0165)|Lung NSC(277;0.0562)		all cancers(265;0.00108)|Epithelial(280;0.0184)|KIRC - Kidney renal clear cell carcinoma(1967;0.124)														---	---	---	---
DBT	1629	broad.mit.edu	37	1	100696362	100696362	+	Frame_Shift_Del	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:100696362delT	uc001dta.2	-	4	393	c.360delA	c.(358-360)AAAfs	p.K120fs	DBT_uc010oug.1_5'UTR	NM_001918	NP_001909	P11182	ODB2_HUMAN	dihydrolipoamide branched chain transacylase	120	Lipoyl-binding.				branched chain family amino acid catabolic process|fatty-acyl-CoA biosynthetic process	microtubule cytoskeleton|mitochondrial alpha-ketoglutarate dehydrogenase complex|mitochondrial nucleoid	acyltransferase activity|cofactor binding|dihydrolipoyllysine-residue (2-methylpropanoyl)transferase activity|protein binding			pancreas(1)	1		all_epithelial(167;5.4e-06)|all_lung(203;0.00125)|Lung NSC(277;0.00131)		Epithelial(280;0.0739)|all cancers(265;0.123)|COAD - Colon adenocarcinoma(174;0.154)|Lung(183;0.199)														---	---	---	---
SLC30A7	148867	broad.mit.edu	37	1	101372571	101372571	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:101372571delA	uc001dtn.2	+						SLC30A7_uc001dto.2_Intron	NM_001144884	NP_001138356			zinc transporter like 2						zinc ion transport	Golgi apparatus|integral to membrane	cation transmembrane transporter activity|protein binding				0		all_epithelial(167;0.000445)|all_lung(203;0.00645)|Lung NSC(277;0.0119)		Epithelial(280;0.0437)|all cancers(265;0.0498)|COAD - Colon adenocarcinoma(174;0.162)|Colorectal(144;0.19)|Lung(183;0.201)														---	---	---	---
COL11A1	1301	broad.mit.edu	37	1	103473926	103473926	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:103473926delA	uc001dul.2	-						COL11A1_uc001duk.2_Intron|COL11A1_uc001dum.2_Intron|COL11A1_uc001dun.2_Intron|COL11A1_uc009weh.2_Intron	NM_001854	NP_001845			alpha 1 type XI collagen isoform A						collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)														---	---	---	---
PSMA5	5686	broad.mit.edu	37	1	109944524	109944524	+	3'UTR	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:109944524delA	uc001dxn.2	-	9					PSMA5_uc010ovj.1_3'UTR	NM_002790	NP_002781			proteasome alpha 5 subunit						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 core complex, alpha-subunit complex	protein binding|threonine-type endopeptidase activity				0		all_epithelial(167;2.83e-05)|all_lung(203;0.00016)|Lung NSC(277;0.000318)|Breast(1374;0.244)		Lung(183;0.045)|Colorectal(144;0.116)|Epithelial(280;0.187)|all cancers(265;0.196)|LUSC - Lung squamous cell carcinoma(189;0.235)														---	---	---	---
AHCYL1	10768	broad.mit.edu	37	1	110555139	110555140	+	Intron	DEL	TT	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:110555139_110555140delTT	uc001dyx.2	+						AHCYL1_uc010ovw.1_Intron|AHCYL1_uc001dyy.2_Intron|AHCYL1_uc010ovx.1_Intron	NM_006621	NP_006612			S-adenosylhomocysteine hydrolase-like 1						one-carbon metabolic process	endoplasmic reticulum	adenosylhomocysteinase activity			ovary(1)	1		all_epithelial(167;3.58e-05)|all_lung(203;0.000116)|Lung NSC(277;0.000233)		Lung(183;0.0259)|Colorectal(144;0.123)|all cancers(265;0.134)|Epithelial(280;0.141)|LUSC - Lung squamous cell carcinoma(189;0.143)														---	---	---	---
ST7L	54879	broad.mit.edu	37	1	113126864	113126864	+	Intron	DEL	A	-	-	rs76579294		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:113126864delA	uc001ecd.2	-						ST7L_uc009wgh.2_Intron|ST7L_uc001ecc.2_Intron|ST7L_uc010owg.1_Intron|ST7L_uc010owh.1_Intron|ST7L_uc001ece.2_Intron|ST7L_uc001ecf.2_Intron|ST7L_uc001ecg.2_Intron|ST7L_uc010owi.1_Intron|ST7L_uc001ech.2_Intron|ST7L_uc001eci.2_Intron|ST7L_uc009wgi.1_Intron|ST7L_uc010owj.1_Intron	NM_017744	NP_060214			suppression of tumorigenicity 7-like isoform 1						negative regulation of cell growth	integral to membrane	binding				0	Lung SC(450;0.246)	all_cancers(81;1.44e-07)|all_epithelial(167;7.64e-07)|all_lung(203;2.16e-05)|Lung NSC(69;3.86e-05)		Lung(183;0.0234)|all cancers(265;0.0246)|Epithelial(280;0.0342)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	113433616	113433617	+	IGR	DEL	TT	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:113433616_113433617delTT								FAM19A3 (163762 upstream) : SLC16A1 (20855 downstream)																																			---	---	---	---
PHTF1	10745	broad.mit.edu	37	1	114281008	114281008	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:114281008delA	uc009wgp.1	-						PHTF1_uc001edn.2_Intron|PHTF1_uc010own.1_Intron|PHTF1_uc001edp.2_Intron	NM_006608	NP_006599			putative homeodomain transcription factor 1							nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1	Lung SC(450;0.184)	all_cancers(81;3.78e-08)|all_epithelial(167;5.56e-08)|all_lung(203;6.97e-06)|Lung NSC(69;1.18e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)														---	---	---	---
AMPD1	270	broad.mit.edu	37	1	115215729	115215729	+	3'UTR	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:115215729delT	uc001efe.1	-	16					DENND2C_uc001eez.2_5'Flank|DENND2C_uc001efc.1_5'Flank|DENND2C_uc001efd.1_5'Flank|AMPD1_uc001eff.1_3'UTR	NM_000036	NP_000027			adenosine monophosphate deaminase 1 (isoform M)						purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			ovary(2)|large_intestine(1)|skin(1)	4	all_epithelial(7;7.83e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;4.64e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)	Adenosine monophosphate(DB00131)													---	---	---	---
CSDE1	7812	broad.mit.edu	37	1	115279333	115279333	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:115279333delA	uc001efk.2	-						CSDE1_uc001efi.2_Intron|CSDE1_uc001efj.2_Intron|CSDE1_uc001efl.2_Intron|CSDE1_uc001efm.2_Intron|CSDE1_uc009wgv.2_Intron|CSDE1_uc001efn.2_Intron	NM_001007553	NP_001007554			upstream of NRAS isoform 1						male gonad development|regulation of transcription, DNA-dependent	cytoplasm	DNA binding|protein binding|RNA binding			ovary(1)	1	all_epithelial(7;5.11e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;2.21e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)														---	---	---	---
Unknown	0	broad.mit.edu	37	1	120429699	120429699	+	IGR	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:120429699delT								NBPF7 (41920 upstream) : ADAM30 (6458 downstream)																																			---	---	---	---
LOC647121	647121	broad.mit.edu	37	1	121306722	121306722	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:121306722delT	uc009wht.1	+						LOC647121_uc001eiu.1_Intron					Homo sapiens cDNA FLJ46881 fis, clone UTERU3015647, moderately similar to Embigin precursor.												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	1	146791946	146791946	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:146791946delA	uc001epp.2	-											Homo sapiens cDNA clone IMAGE:5266739.																														---	---	---	---
SF3B4	10262	broad.mit.edu	37	1	149899306	149899307	+	Intron	DEL	AA	-	-	rs75973795		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:149899306_149899307delAA	uc001etj.1	-						SF3B4_uc001eti.1_5'Flank|SF3B4_uc001etk.1_Intron|SF3B4_uc009wll.1_Intron	NM_005850	NP_005841			splicing factor 3b, subunit 4							nucleoplasm|U12-type spliceosomal complex	nucleotide binding|protein binding|RNA binding			ovary(1)	1	Breast(34;0.0009)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.221)|STAD - Stomach adenocarcinoma(528;0.247)															---	---	---	---
ENSA	2029	broad.mit.edu	37	1	150595355	150595355	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:150595355delA	uc001eve.2	-						ENSA_uc001evd.2_Intron|ENSA_uc001evb.2_Intron|ENSA_uc001evc.2_Intron	NM_004436	NP_004427			endosulfine alpha isoform 3						cell division|G2/M transition of mitotic cell cycle|mitosis|response to nutrient|transport	cytoplasm	ion channel inhibitor activity|protein phosphatase 2A binding|protein phosphatase inhibitor activity|protein phosphatase type 2A regulator activity|receptor binding			central_nervous_system(1)	1	all_cancers(9;3.09e-52)|all_epithelial(9;4.47e-43)|all_lung(15;1.09e-34)|Lung NSC(24;4.04e-31)|Breast(34;0.000615)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0241)|Epithelial(6;9.85e-23)|all cancers(9;5.06e-22)|OV - Ovarian serous cystadenocarcinoma(6;1.67e-14)|BRCA - Breast invasive adenocarcinoma(12;0.000701)|LUSC - Lung squamous cell carcinoma(543;0.171)															---	---	---	---
UBAP2L	9898	broad.mit.edu	37	1	154207835	154207835	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:154207835delT	uc001fep.3	+						UBAP2L_uc009wot.2_Intron|UBAP2L_uc010pek.1_Intron|UBAP2L_uc010pel.1_Intron|UBAP2L_uc001fen.1_Intron|UBAP2L_uc010pen.1_Intron	NM_014847	NP_055662			ubiquitin associated protein 2-like isoform a						binding of sperm to zona pellucida		protein binding			ovary(1)|central_nervous_system(1)	2	all_lung(78;1.09e-30)|Lung NSC(65;1.66e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)															---	---	---	---
UBAP2L	9898	broad.mit.edu	37	1	154215938	154215938	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:154215938delT	uc001fep.3	+						UBAP2L_uc009wot.2_Intron|UBAP2L_uc010pek.1_Intron|UBAP2L_uc010pel.1_Intron|UBAP2L_uc010pen.1_Intron	NM_014847	NP_055662			ubiquitin associated protein 2-like isoform a						binding of sperm to zona pellucida		protein binding			ovary(1)|central_nervous_system(1)	2	all_lung(78;1.09e-30)|Lung NSC(65;1.66e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)															---	---	---	---
NTRK1	4914	broad.mit.edu	37	1	156834265	156834265	+	Intron	DEL	G	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:156834265delG	uc001fqh.1	+						NTRK1_uc001fqf.1_Intron|NTRK1_uc009wsi.1_Intron|NTRK1_uc001fqi.1_Intron|NTRK1_uc009wsk.1_Intron	NM_002529	NP_002520			neurotrophic tyrosine kinase, receptor, type 1						activation of adenylate cyclase activity|activation of MAPKK activity|activation of phospholipase C activity|cell differentiation|nerve growth factor receptor signaling pathway|nervous system development|phosphatidylinositol-mediated signaling|Ras protein signal transduction	endosome|integral to plasma membrane	ATP binding|neurotrophin receptor activity|transmembrane receptor protein serine/threonine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(9)|ovary(6)|stomach(1)|central_nervous_system(1)	17	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)				Imatinib(DB00619)			T	TPM3|TPR|TFG	papillary thyroid					TSP Lung(10;0.080)			---	---	---	---
C1orf92	149499	broad.mit.edu	37	1	156902575	156902575	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:156902575delT	uc001fqm.2	+						C1orf92_uc001fql.2_Intron	NM_144702	NP_653303			hypothetical protein LOC149499												0	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)																	---	---	---	---
FCRL5	83416	broad.mit.edu	37	1	157519226	157519226	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:157519226delA	uc001fqu.2	-						FCRL5_uc009wsm.2_Intron|FCRL5_uc010phv.1_Intron|FCRL5_uc010phw.1_Intron|FCRL5_uc001fqv.1_Intron|FCRL5_uc010phx.1_Intron	NM_031281	NP_112571			Fc receptor-like 5							integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(2)|central_nervous_system(1)	6	all_hematologic(112;0.0378)|Hepatocellular(266;0.178)	Prostate(1639;0.231)																---	---	---	---
RGS5	8490	broad.mit.edu	37	1	163137887	163137887	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:163137887delA	uc001gcn.2	-						RGS5_uc009wvb.2_Intron	NM_003617	NP_003608			regulator of G-protein signalling 5						negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity				0			LUSC - Lung squamous cell carcinoma(543;0.187)															---	---	---	---
RABGAP1L	9910	broad.mit.edu	37	1	174721308	174721308	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:174721308delA	uc001gjx.2	+						RABGAP1L_uc001gkb.3_Intron|RABGAP1L_uc001gkc.3_Intron|RABGAP1L_uc001gkd.3_Intron	NM_014857	NP_055672			RAB GTPase activating protein 1-like isoform A						regulation of protein localization	early endosome|Golgi apparatus|nucleus	Rab GTPase activator activity			ovary(2)|lung(1)|kidney(1)	4																		---	---	---	---
FAM5B	57795	broad.mit.edu	37	1	177250855	177250856	+	3'UTR	INS	-	AC	AC	rs144473187	by1000genomes	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:177250855_177250856insAC	uc001glf.2	+	8					FAM5B_uc001glg.2_3'UTR	NM_021165	NP_066988			family with sequence similarity 5, member B							extracellular region				skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6																		---	---	---	---
ABL2	27	broad.mit.edu	37	1	179095896	179095896	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:179095896delA	uc001gmj.3	-						ABL2_uc010pnf.1_Intron|ABL2_uc010png.1_Intron|ABL2_uc010pnh.1_Intron|ABL2_uc009wxe.2_Intron|ABL2_uc001gmg.3_Intron|ABL2_uc001gmi.3_Intron|ABL2_uc001gmh.3_Intron|ABL2_uc010pne.1_Intron|ABL2_uc009wxf.1_Intron|ABL2_uc001gmk.2_Intron	NM_007314	NP_009298			arg tyrosine kinase isoform b						axon guidance|cell adhesion|peptidyl-tyrosine phosphorylation|positive regulation of oxidoreductase activity|signal transduction	cytoskeleton|cytosol	ATP binding|magnesium ion binding|manganese ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(8)|breast(3)|ovary(2)|central_nervous_system(1)	14					Adenosine triphosphate(DB00171)|Dasatinib(DB01254)			T	ETV6	AML								---	---	---	---
SOAT1	6646	broad.mit.edu	37	1	179304653	179304653	+	Frame_Shift_Del	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:179304653delT	uc001gml.2	+	4	253	c.190delT	c.(190-192)TTTfs	p.F64fs	SOAT1_uc010pni.1_5'UTR|SOAT1_uc001gmm.2_Frame_Shift_Del_p.F6fs|SOAT1_uc010pnj.1_5'UTR|SOAT1_uc010pnk.1_5'UTR	NM_003101	NP_003092	P35610	SOAT1_HUMAN	sterol O-acyltransferase 1	64					cholesterol efflux|cholesterol esterification|cholesterol homeostasis|cholesterol metabolic process|cholesterol storage|macrophage derived foam cell differentiation|positive regulation of amyloid precursor protein biosynthetic process|very-low-density lipoprotein particle assembly	endoplasmic reticulum membrane|integral to membrane|microsome	cholesterol binding|cholesterol O-acyltransferase activity|fatty-acyl-CoA binding			central_nervous_system(1)|skin(1)	2					Ezetimibe(DB00973)|Hesperetin(DB01094)													---	---	---	---
CEP350	9857	broad.mit.edu	37	1	179961369	179961369	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:179961369delA	uc001gnt.2	+						CEP350_uc001gnr.1_Intron|CEP350_uc009wxl.2_Intron	NM_014810	NP_055625			centrosome-associated protein 350							centrosome|nucleus|spindle				ovary(4)	4																		---	---	---	---
CEP350	9857	broad.mit.edu	37	1	180063485	180063486	+	Frame_Shift_Ins	INS	-	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:180063485_180063486insA	uc001gnt.2	+	34	8628_8629	c.8245_8246insA	c.(8245-8247)GAAfs	p.E2749fs	CEP350_uc009wxl.2_Frame_Shift_Ins_p.E2748fs|CEP350_uc001gnv.2_Frame_Shift_Ins_p.E884fs|CEP350_uc001gnw.1_Frame_Shift_Ins_p.E506fs|CEP350_uc001gnx.1_Frame_Shift_Ins_p.E506fs	NM_014810	NP_055625	Q5VT06	CE350_HUMAN	centrosome-associated protein 350	2749	Potential.					centrosome|nucleus|spindle				ovary(4)	4																		---	---	---	---
TEDDM1	127670	broad.mit.edu	37	1	182368631	182368631	+	3'UTR	DEL	A	-	-	rs36049878		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:182368631delA	uc001gpe.2	-	1						NM_172000	NP_741997			putative membrane protein HE9							integral to membrane				ovary(2)	2																		---	---	---	---
DHX9	1660	broad.mit.edu	37	1	182836342	182836342	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:182836342delT	uc001gpr.2	+						DHX9_uc001gps.2_Intron	NM_001357	NP_001348			DEAH (Asp-Glu-Ala-His) box polypeptide 9						CRD-mediated mRNA stabilization|nuclear mRNA splicing, via spliceosome	centrosome|CRD-mediated mRNA stability complex|nucleolus|nucleoplasm|ribonucleoprotein complex	ATP binding|ATP-dependent DNA helicase activity|ATP-dependent RNA helicase activity|DNA binding|double-stranded RNA binding|protein binding			ovary(2)	2																		---	---	---	---
HMCN1	83872	broad.mit.edu	37	1	186076225	186076225	+	Intron	DEL	T	-	-	rs79076408		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:186076225delT	uc001grq.1	+							NM_031935	NP_114141			hemicentin 1 precursor						response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23																		---	---	---	---
HMCN1	83872	broad.mit.edu	37	1	186077432	186077432	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:186077432delA	uc001grq.1	+							NM_031935	NP_114141			hemicentin 1 precursor						response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23																		---	---	---	---
TPR	7175	broad.mit.edu	37	1	186307132	186307132	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:186307132delT	uc001grv.2	-							NM_003292	NP_003283			nuclear pore complex-associated protein TPR						carbohydrate metabolic process|glucose transport|mitotic cell cycle spindle assembly checkpoint|mRNA transport|protein import into nucleus|regulation of glucose transport|seryl-tRNA aminoacylation|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytoplasm|nuclear membrane|nuclear pore|nucleoplasm	ATP binding|protein binding|serine-tRNA ligase activity			ovary(2)|lung(2)|urinary_tract(1)|central_nervous_system(1)|skin(1)	7		Breast(1374;0.000659)|Lung SC(1967;0.0262)|Prostate(1639;0.157)		Colorectal(1306;1.12e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00553)				T	NTRK1	papillary thyroid								---	---	---	---
FAM5C	339479	broad.mit.edu	37	1	190234231	190234231	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:190234231delT	uc001gse.1	-						FAM5C_uc010pot.1_Intron	NM_199051	NP_950252			family with sequence similarity 5, member C							extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)																	---	---	---	---
RGS18	64407	broad.mit.edu	37	1	192128012	192128012	+	Intron	DEL	A	-	-	rs28417375		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:192128012delA	uc001gsg.2	+							NM_130782	NP_570138			regulator of G-protein signalling 18						negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity			ovary(3)	3																		---	---	---	---
CFHR4	10877	broad.mit.edu	37	1	196879302	196879302	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:196879302delA	uc001gto.2	+						CFHR4_uc009wyy.2_Intron|CFHR4_uc001gtp.2_Intron	NM_006684	NP_006675			complement factor H-related 4 precursor							extracellular region	lipid transporter activity			ovary(1)|pancreas(1)|skin(1)	3																		---	---	---	---
CAMSAP1L1	23271	broad.mit.edu	37	1	200816521	200816521	+	Intron	DEL	G	-	-	rs2172666		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:200816521delG	uc001gvl.2	+						CAMSAP1L1_uc001gvk.2_Intron|CAMSAP1L1_uc001gvm.2_Intron	NM_203459	NP_982284			calmodulin regulated spectrin-associated protein							cytoplasm|microtubule	protein binding			ovary(2)|large_intestine(1)|pancreas(1)	4																		---	---	---	---
CR1	1378	broad.mit.edu	37	1	207749206	207749206	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:207749206delT	uc001hfy.2	+						CR1_uc009xcl.1_Intron|CR1_uc001hfx.2_Intron	NM_000573	NP_000564			complement receptor 1 isoform F precursor						complement activation, classical pathway|innate immune response	integral to plasma membrane	complement receptor activity			ovary(3)	3																		---	---	---	---
USH2A	7399	broad.mit.edu	37	1	215814143	215814143	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:215814143delA	uc001hku.1	-							NM_206933	NP_996816			usherin isoform B						maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)											HNSCC(13;0.011)			---	---	---	---
OBSCN	84033	broad.mit.edu	37	1	228466696	228466696	+	Intron	DEL	G	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:228466696delG	uc009xez.1	+						OBSCN_uc001hsn.2_Intron|OBSCN_uc001hsp.1_Intron|OBSCN_uc001hsq.1_5'Flank	NM_001098623	NP_001092093			obscurin, cytoskeletal calmodulin and						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)																---	---	---	---
KIAA1804	84451	broad.mit.edu	37	1	233511655	233511655	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:233511655delT	uc001hvt.3	+						KIAA1804_uc001hvu.3_Frame_Shift_Del_p.F3fs	NM_032435	NP_115811			mixed lineage kinase 4						activation of JUN kinase activity|protein autophosphorylation		ATP binding|MAP kinase kinase kinase activity|protein homodimerization activity			lung(5)|central_nervous_system(2)|skin(1)	8		all_cancers(173;0.000405)|all_epithelial(177;0.0345)|Prostate(94;0.122)																---	---	---	---
ERO1LB	56605	broad.mit.edu	37	1	236399233	236399233	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:236399233delT	uc001hxt.2	-							NM_019891	NP_063944			endoplasmic reticulum oxidoreductin 1-Lbeta						electron transport chain|protein thiol-disulfide exchange|transport	endoplasmic reticulum membrane	flavin adenine dinucleotide binding|oxidoreductase activity, acting on a sulfur group of donors, disulfide as acceptor|unfolded protein binding				0	Ovarian(103;0.0634)|Breast(184;0.247)	all_cancers(173;0.123)|Acute lymphoblastic leukemia(190;0.205)|Prostate(94;0.219)	OV - Ovarian serous cystadenocarcinoma(106;0.00162)															---	---	---	---
RYR2	6262	broad.mit.edu	37	1	237819091	237819091	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:237819091delT	uc001hyl.1	+							NM_001035	NP_001026			cardiac muscle ryanodine receptor						cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)															---	---	---	---
HNRNPU	3192	broad.mit.edu	37	1	245017628	245017629	+	3'UTR	INS	-	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:245017628_245017629insA	uc001iaz.1	-	14					HNRNPU_uc001iaw.1_RNA|HNRNPU_uc001iax.1_RNA|HNRNPU_uc001iay.1_3'UTR|HNRNPU_uc001iba.1_3'UTR	NM_031844	NP_114032			heterogeneous nuclear ribonucleoprotein U						CRD-mediated mRNA stabilization	catalytic step 2 spliceosome|cell surface|CRD-mediated mRNA stability complex|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	ATP binding|DNA binding|protein binding|RNA binding				0	all_cancers(71;6.97e-06)|all_epithelial(71;0.000104)|all_neural(11;0.0269)|Breast(184;0.0545)|Glioma(6;0.0724)|Ovarian(71;0.0761)|all_lung(81;0.0989)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.00868)															---	---	---	---
SMYD3	64754	broad.mit.edu	37	1	246091340	246091340	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:246091340delA	uc001ibl.2	-						SMYD3_uc001ibk.2_Intron|SMYD3_uc001ibi.2_Intron|SMYD3_uc001ibj.2_Intron	NM_022743	NP_073580			SET and MYND domain containing 3							cytoplasm|nucleus	histone-lysine N-methyltransferase activity|protein binding|zinc ion binding				0	all_cancers(71;0.000291)|all_epithelial(71;0.000174)|Ovarian(71;0.0377)|all_lung(81;0.0568)|Lung NSC(105;0.0804)|Breast(184;0.173)|Melanoma(84;0.242)	all_cancers(173;0.0496)|Acute lymphoblastic leukemia(190;0.164)	OV - Ovarian serous cystadenocarcinoma(106;0.0129)	all cancers(4;0.028)|GBM - Glioblastoma multiforme(49;0.0537)														---	---	---	---
TTC15	51112	broad.mit.edu	37	2	3427093	3427094	+	Intron	INS	-	TG	TG	rs138309219	by1000genomes	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:3427093_3427094insTG	uc002qxm.1	+						TTC15_uc002qxn.1_Intron|TTC15_uc010ewm.1_Intron	NM_016030	NP_057114			tetratricopeptide repeat domain 15								binding			ovary(2)|breast(1)|pancreas(1)	4	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.093)	all_cancers(51;0.214)		OV - Ovarian serous cystadenocarcinoma(76;0.0402)|Epithelial(75;0.0986)|all cancers(51;0.149)														---	---	---	---
KIDINS220	57498	broad.mit.edu	37	2	8887029	8887029	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:8887029delA	uc002qzc.2	-						KIDINS220_uc010yiv.1_Intron|KIDINS220_uc002qzd.2_Intron|KIDINS220_uc010yiw.1_Intron|KIDINS220_uc002qzb.2_Intron|KIDINS220_uc002qze.2_3'UTR	NM_020738	NP_065789			kinase D-interacting substrate of 220 kDa						activation of MAPKK activity|nerve growth factor receptor signaling pathway	cytosol|integral to membrane				ovary(3)|central_nervous_system(1)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)																	---	---	---	---
ITGB1BP1	9270	broad.mit.edu	37	2	9554563	9554563	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:9554563delA	uc002qzj.2	-						ITGB1BP1_uc002qzk.2_Intron|ITGB1BP1_uc002qzl.2_Intron|ITGB1BP1_uc002qzm.2_Intron|ITGB1BP1_uc010yiy.1_Intron|ITGB1BP1_uc002qzn.1_Intron	NM_004763	NP_004754			integrin cytoplasmic domain-associated protein 1						cell migration|cell-matrix adhesion|intracellular protein kinase cascade	cytosol|lamellipodium|membrane|ruffle	protein binding|protein binding				0	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.23)														---	---	---	---
TAF1B	9014	broad.mit.edu	37	2	9989571	9989571	+	Frame_Shift_Del	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:9989571delA	uc002qzz.2	+	3	287	c.187delA	c.(187-189)AAAfs	p.K63fs	TAF1B_uc010exc.2_Frame_Shift_Del_p.K63fs|TAF1B_uc002qzy.3_Frame_Shift_Del_p.K63fs|TAF1B_uc010yja.1_5'UTR|TAF1B_uc010exd.2_5'UTR	NM_005680	NP_005671	Q53T94	TAF1B_HUMAN	TBP-associated factor 1B	63					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	nucleoplasm	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|breast(1)|pancreas(1)	3	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)																	---	---	---	---
ATAD2B	54454	broad.mit.edu	37	2	23974968	23974968	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:23974968delA	uc002rek.3	-						ATAD2B_uc010yki.1_Intron|ATAD2B_uc002rei.3_Intron|ATAD2B_uc002rej.3_Intron	NM_017552	NP_060022			ATPase family, AAA domain containing 2B								ATP binding|nucleoside-triphosphatase activity			central_nervous_system(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)																	---	---	---	---
PLB1	151056	broad.mit.edu	37	2	28773038	28773039	+	Intron	DEL	TT	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:28773038_28773039delTT	uc002rmb.1	+						PLB1_uc010ezj.1_Intron|PLB1_uc002rmc.2_Intron	NM_153021	NP_694566			phospholipase B1 precursor						lipid catabolic process|retinoid metabolic process|steroid metabolic process	apical plasma membrane|integral to membrane	lysophospholipase activity|phospholipase A2 activity|retinyl-palmitate esterase activity			ovary(4)|large_intestine(2)|skin(2)|breast(1)	9	Acute lymphoblastic leukemia(172;0.155)																	---	---	---	---
PLB1	151056	broad.mit.edu	37	2	28802606	28802606	+	Intron	DEL	C	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:28802606delC	uc002rmb.1	+						PLB1_uc010ezj.1_Intron|PLB1_uc002rmc.2_Intron|PLB1_uc002rmd.1_Intron	NM_153021	NP_694566			phospholipase B1 precursor						lipid catabolic process|retinoid metabolic process|steroid metabolic process	apical plasma membrane|integral to membrane	lysophospholipase activity|phospholipase A2 activity|retinyl-palmitate esterase activity			ovary(4)|large_intestine(2)|skin(2)|breast(1)	9	Acute lymphoblastic leukemia(172;0.155)																	---	---	---	---
LCLAT1	253558	broad.mit.edu	37	2	30755839	30755840	+	Intron	INS	-	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:30755839_30755840insT	uc002rnj.2	+						LCLAT1_uc010ymp.1_Intron|LCLAT1_uc002rnk.1_Intron|LCLAT1_uc002rnl.2_Intron|LCLAT1_uc010ymq.1_Intron	NM_182551	NP_872357			lysocardiolipin acyltransferase 1 isoform 1						multicellular organismal development|phospholipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	1-acylglycerol-3-phosphate O-acyltransferase activity			ovary(2)	2																		---	---	---	---
BIRC6	57448	broad.mit.edu	37	2	32690110	32690111	+	Intron	DEL	TT	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:32690110_32690111delTT	uc010ezu.2	+							NM_016252	NP_057336			baculoviral IAP repeat-containing 6						anti-apoptosis|apoptosis	intracellular	acid-amino acid ligase activity|cysteine-type endopeptidase inhibitor activity|protein binding			ovary(5)|skin(4)|lung(2)|central_nervous_system(1)|breast(1)|pancreas(1)	14	Acute lymphoblastic leukemia(172;0.155)																	---	---	---	---
PRKD3	23683	broad.mit.edu	37	2	37516691	37516691	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:37516691delA	uc002rqd.2	-						PRKD3_uc002rqf.1_Intron	NM_005813	NP_005804			protein kinase D3						activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction	cytoplasm|membrane|nucleus	ATP binding|metal ion binding|protein binding|protein kinase C activity			lung(2)|ovary(1)|central_nervous_system(1)	4		all_hematologic(82;0.21)																---	---	---	---
SFRS7	6432	broad.mit.edu	37	2	38975943	38975943	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:38975943delT	uc002rqz.2	-						SFRS7_uc002rra.2_Intron|SFRS7_uc010ynp.1_Intron|GEMIN6_uc002rrb.2_5'Flank	NM_001031684	NP_001026854			splicing factor, arginine/serine-rich 7						mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	nucleoplasm	nucleotide binding|protein binding|RNA binding|zinc ion binding				0		all_hematologic(82;0.248)																---	---	---	---
THADA	63892	broad.mit.edu	37	2	43768645	43768645	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:43768645delT	uc002rsw.3	-						THADA_uc010far.2_Intron|THADA_uc002rsx.3_Intron|THADA_uc002rsy.3_Intron|THADA_uc010fas.1_Intron|THADA_uc002rsz.2_Intron|THADA_uc010fat.1_Intron|THADA_uc002rta.2_Intron	NM_001083953	NP_001077422			thyroid adenoma associated								binding			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(82;0.00361)|all_hematologic(82;0.00837)																---	---	---	---
CALM2	805	broad.mit.edu	37	2	47403406	47403406	+	Intron	DEL	G	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:47403406delG	uc002rvt.2	-						C2orf61_uc010fbd.2_Intron|CALM2_uc010fbe.2_Intron	NM_001743	NP_001734			calmodulin 2						activation of phospholipase C activity|G-protein coupled receptor protein signaling pathway|glucose metabolic process|glycogen catabolic process|muscle contraction|negative regulation of ryanodine-sensitive calcium-release channel activity|nerve growth factor receptor signaling pathway|nitric oxide metabolic process|platelet activation|platelet degranulation|positive regulation of ryanodine-sensitive calcium-release channel activity|regulation of cytokinesis|regulation of nitric-oxide synthase activity|regulation of release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to calcium ion|synaptic transmission	centrosome|cytosol|extracellular region|nucleoplasm|plasma membrane|spindle microtubule|spindle pole	calcium ion binding|N-terminal myristoylation domain binding|phospholipase binding|protein domain specific binding|thioesterase binding|titin binding	p.0?(2)			0		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)	Lung(47;0.0792)|LUSC - Lung squamous cell carcinoma(58;0.114)		Aprindine(DB01429)|Bepridil(DB01244)|Dibucaine(DB00527)|Felodipine(DB01023)|Flunarizine(DB04841)|Fluphenazine(DB00623)|Isoflurane(DB00753)|Loperamide(DB00836)|Miconazole(DB01110)|Perphenazine(DB00850)|Phenoxybenzamine(DB00925)|Pimozide(DB01100)|Promethazine(DB01069)													---	---	---	---
STON1-GTF2A1L	286749	broad.mit.edu	37	2	48807594	48807594	+	5'Flank	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:48807594delT	uc010yol.1	+						STON1_uc002rwo.3_Intron|STON1_uc010fbm.2_Intron|STON1-GTF2A1L_uc002rwp.1_Intron|STON1_uc002rwr.2_5'Flank|STON1_uc002rwq.2_5'Flank	NM_006873	NP_006864			stonin 1						endocytosis|intracellular protein transport|transcription initiation from RNA polymerase II promoter	clathrin adaptor complex|transcription factor TFIIA complex				ovary(3)|pancreas(1)|skin(1)	5		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)															---	---	---	---
ASB3	51130	broad.mit.edu	37	2	54041564	54041564	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:54041564delT	uc002rxi.3	-						ERLEC1_uc002rxl.2_Intron|ERLEC1_uc002rxm.2_Intron|ERLEC1_uc002rxn.2_Intron	NM_001164165	NP_001157637			hypothetical protein LOC100302652						intracellular signal transduction					ovary(1)|kidney(1)	2			Lung(47;0.125)|LUSC - Lung squamous cell carcinoma(58;0.181)															---	---	---	---
PSME4	23198	broad.mit.edu	37	2	54093534	54093534	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:54093534delA	uc002rxp.2	-						PSME4_uc010yop.1_Intron|PSME4_uc010yoq.1_Intron|PSME4_uc010fbu.1_Intron|PSME4_uc010fbv.1_Intron|PSME4_uc010fbt.1_Intron	NM_014614	NP_055429			proteasome (prosome, macropain) activator						anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|cell differentiation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|M/G1 transition of mitotic cell cycle|mRNA metabolic process|multicellular organismal development|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|spermatogenesis|viral reproduction	nuclear speck|proteasome complex	binding			ovary(2)|breast(2)|pancreas(1)	5			Lung(47;0.125)|LUSC - Lung squamous cell carcinoma(58;0.181)															---	---	---	---
BCL11A	53335	broad.mit.edu	37	2	60694268	60694268	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:60694268delT	uc002sae.1	-						BCL11A_uc002sab.2_Intron|BCL11A_uc002sac.2_Intron|BCL11A_uc010ypi.1_Intron|BCL11A_uc010ypj.1_Intron|BCL11A_uc002sad.1_Intron|BCL11A_uc002saf.1_Intron	NM_022893	NP_075044			B-cell CLL/lymphoma 11A isoform 1						negative regulation of axon extension|negative regulation of collateral sprouting|negative regulation of dendrite development|positive regulation of collateral sprouting|positive regulation of neuron projection development|positive regulation of transcription from RNA polymerase II promoter|protein sumoylation|regulation of dendrite development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|cytoplasm|nucleus|nucleus	nucleic acid binding|protein heterodimerization activity|protein homodimerization activity|zinc ion binding			central_nervous_system(6)|breast(3)|ovary(2)|skin(2)	13			LUSC - Lung squamous cell carcinoma(5;9.29e-08)|Lung(5;1.34e-06)|Epithelial(17;0.0562)|all cancers(80;0.199)					T	IGH@	B-CLL								---	---	---	---
USP34	9736	broad.mit.edu	37	2	61505425	61505425	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:61505425delA	uc002sbe.2	-						USP34_uc002sbf.2_Intron	NM_014709	NP_055524			ubiquitin specific protease 34						positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)															---	---	---	---
USP34	9736	broad.mit.edu	37	2	61577527	61577527	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:61577527delA	uc002sbe.2	-							NM_014709	NP_055524			ubiquitin specific protease 34						positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)															---	---	---	---
ANTXR1	84168	broad.mit.edu	37	2	69297735	69297735	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:69297735delA	uc002sfg.2	+						ANTXR1_uc002sfe.2_Intron|ANTXR1_uc002sff.2_Intron|ANTXR1_uc002sfd.2_Intron	NM_032208	NP_115584			anthrax toxin receptor 1 isoform 1 precursor						actin cytoskeleton reorganization|substrate adhesion-dependent cell spreading	filopodium membrane|integral to membrane|lamellipodium membrane	actin filament binding|collagen binding|metal ion binding|protein binding|transmembrane receptor activity			ovary(2)|skin(2)	4														Familial_Infantile_Hemangioma				---	---	---	---
EXOC6B	23233	broad.mit.edu	37	2	72516285	72516285	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:72516285delA	uc010fep.2	-							NM_015189	NP_056004			SEC15-like 2						protein transport|vesicle docking involved in exocytosis	exocyst				central_nervous_system(2)	2																		---	---	---	---
TTC31	64427	broad.mit.edu	37	2	74718259	74718259	+	Frame_Shift_Del	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:74718259delA	uc002slt.2	+	6	574	c.551delA	c.(550-552)CAAfs	p.Q184fs	TTC31_uc002sls.2_Frame_Shift_Del_p.Q113fs|TTC31_uc010yrv.1_Frame_Shift_Del_p.Q40fs|TTC31_uc002slu.2_Frame_Shift_Del_p.Q40fs	NM_022492	NP_071937	Q49AM3	TTC31_HUMAN	tetratricopeptide repeat domain 31	184	Potential.						binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	90475354	90475355	+	IGR	INS	-	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:90475354_90475355insT								None (None upstream) : None (None downstream)																																			---	---	---	---
STARD7	56910	broad.mit.edu	37	2	96852843	96852843	+	Intron	DEL	A	-	-	rs79652198		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:96852843delA	uc002svm.3	-						STARD7_uc002svl.2_Intron	NM_020151	NP_064536			START domain containing 7 precursor							mitochondrion					0																		---	---	---	---
SNRNP200	23020	broad.mit.edu	37	2	96955213	96955213	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:96955213delT	uc002svu.2	-						SNRNP200_uc002svw.1_Intron	NM_014014	NP_054733			activating signal cointegrator 1 complex subunit							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																		---	---	---	---
SEMA4C	54910	broad.mit.edu	37	2	97526589	97526589	+	Frame_Shift_Del	DEL	G	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:97526589delG	uc002sxh.3	-	15	2436	c.2276delC	c.(2275-2277)CCTfs	p.P759fs	ANKRD39_uc002sxd.3_5'Flank|SEMA4C_uc002sxf.3_Frame_Shift_Del_p.P259fs|SEMA4C_uc002sxe.2_Frame_Shift_Del_p.P300fs|SEMA4C_uc002sxg.3_Frame_Shift_Del_p.P812fs	NM_017789	NP_060259	Q9C0C4	SEM4C_HUMAN	semaphorin 4C precursor	759	Pro-rich.|Cytoplasmic (Potential).				muscle cell differentiation|nervous system development|positive regulation of stress-activated MAPK cascade	cell junction|integral to membrane|postsynaptic density|postsynaptic membrane|synaptic vesicle membrane	receptor activity			skin(2)	2																		---	---	---	---
MGAT4A	11320	broad.mit.edu	37	2	99241956	99241956	+	3'UTR	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:99241956delA	uc002sze.2	-	16					C2orf64_uc002sza.2_Intron|MGAT4A_uc010yvm.1_Intron|MGAT4A_uc010fil.2_3'UTR	NM_012214	NP_036346			alpha-1,3-mannosyl-glycoprotein						N-glycan processing|post-translational protein modification|protein N-linked glycosylation via asparagine	extracellular region|Golgi membrane|integral to membrane	alpha-1,3-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity|metal ion binding			skin(1)	1																		---	---	---	---
C2orf55	343990	broad.mit.edu	37	2	99443770	99443770	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:99443770delT	uc002szf.1	-							NM_207362	NP_997245			hypothetical protein LOC343990												0																		---	---	---	---
MRPL30	51263	broad.mit.edu	37	2	99779612	99779612	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:99779612delA	uc002szr.2	+						MRPL30_uc002szl.1_Intron	NM_145213	NP_660214			SubName: Full=HCG1989457, isoform CRA_a; SubName: Full=Putative uncharacterized protein MRPL30;						translation	mitochondrion|ribosome	structural constituent of ribosome			ovary(1)	1																		---	---	---	---
TXNDC9	10190	broad.mit.edu	37	2	99944234	99944234	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:99944234delT	uc002szz.2	-						TXNDC9_uc010yvp.1_Intron|TXNDC9_uc002taa.1_Intron	NM_005783	NP_005774			thioredoxin domain containing 9						cell redox homeostasis		protein binding				0																		---	---	---	---
IL1RL2	8808	broad.mit.edu	37	2	102851247	102851247	+	Intron	DEL	A	-	-	rs72526182		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:102851247delA	uc002tbs.2	+						IL1RL2_uc002tbt.2_Intron	NM_003854	NP_003845			interleukin 1 receptor-like 2 precursor						cellular defense response|innate immune response	integral to plasma membrane	interleukin-1, Type I, activating receptor activity			ovary(2)	2																		---	---	---	---
EDAR	10913	broad.mit.edu	37	2	109524139	109524139	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:109524139delT	uc002teq.3	-						EDAR_uc010fjn.2_Intron|EDAR_uc010yws.1_Intron	NM_022336	NP_071731			ectodysplasin A receptor precursor						apoptosis|cell differentiation	integral to membrane	protein binding|transmembrane receptor activity			skin(1)	1																		---	---	---	---
EDAR	10913	broad.mit.edu	37	2	109524511	109524512	+	Intron	INS	-	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:109524511_109524512insG	uc002teq.3	-						EDAR_uc010fjn.2_Intron|EDAR_uc010yws.1_Intron	NM_022336	NP_071731			ectodysplasin A receptor precursor						apoptosis|cell differentiation	integral to membrane	protein binding|transmembrane receptor activity			skin(1)	1																		---	---	---	---
ANAPC1	64682	broad.mit.edu	37	2	112541679	112541680	+	Intron	INS	-	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:112541679_112541680insA	uc002thi.2	-							NM_022662	NP_073153			anaphase promoting complex subunit 1						anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|cytosol|nucleoplasm				skin(2)	2																		---	---	---	---
RGPD5	84220	broad.mit.edu	37	2	113127926	113127927	+	Intron	DEL	GG	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:113127926_113127927delGG	uc002ths.1	-						RGPD8_uc010fkk.1_Intron	NM_005054	NP_005045			RANBP2-like and GRIP domain containing 5 isoform						intracellular transport	cytoplasm	binding				0																		---	---	---	---
CNTNAP5	129684	broad.mit.edu	37	2	125671917	125671917	+	3'UTR	DEL	C	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:125671917delC	uc002tno.2	+	24					CNTNAP5_uc010flu.2_3'UTR	NM_130773	NP_570129			contactin associated protein-like 5 precursor						cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)														---	---	---	---
Unknown	0	broad.mit.edu	37	2	129393430	129393437	+	IGR	DEL	CCTTCCTT	-	-	rs72091728		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:129393430_129393437delCCTTCCTT								HS6ST1 (317259 upstream) : None (None downstream)																																			---	---	---	---
NCKAP5	344148	broad.mit.edu	37	2	133489260	133489260	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:133489260delT	uc002ttp.2	-						NCKAP5_uc002ttq.2_Intron	NM_207363	NP_997246			Nck-associated protein 5 isoform 1								protein binding				0																		---	---	---	---
RIF1	55183	broad.mit.edu	37	2	152330451	152330451	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:152330451delT	uc002txm.2	+						RIF1_uc002txl.2_Intron|RIF1_uc002txn.2_Intron|RIF1_uc002txo.2_Intron|RIF1_uc002txp.2_Intron|uc010fnw.1_5'Flank	NM_018151	NP_060621			RAP1 interacting factor 1						cell cycle|response to DNA damage stimulus	chromosome, telomeric region|cytoplasm|nucleus|spindle	binding			ovary(5)|breast(4)|skin(3)|lung(2)|kidney(1)	15				BRCA - Breast invasive adenocarcinoma(221;0.0429)														---	---	---	---
NEB	4703	broad.mit.edu	37	2	152524209	152524209	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:152524209delT	uc010fnx.2	-							NM_004543	NP_004534			nebulin isoform 3						muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)														---	---	---	---
Unknown	0	broad.mit.edu	37	2	156889928	156889928	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:156889928delT	uc002tyw.2	-											Homo sapiens cDNA clone IMAGE:5209417.																														---	---	---	---
GPD2	2820	broad.mit.edu	37	2	157435842	157435843	+	Intron	DEL	TT	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:157435842_157435843delTT	uc002tzf.3	+						GPD2_uc010zch.1_Intron|GPD2_uc002tzd.3_Intron|GPD2_uc002tze.1_Intron	NM_001083112	NP_001076581			glycerol-3-phosphate dehydrogenase 2,						cellular lipid metabolic process	glycerol-3-phosphate dehydrogenase complex|mitochondrial inner membrane	calcium ion binding|sn-glycerol-3-phosphate:ubiquinone-8 oxidoreductase activity			ovary(1)	1																		---	---	---	---
SCN2A	6326	broad.mit.edu	37	2	166201016	166201016	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:166201016delT	uc002udc.2	+						SCN2A_uc002udd.2_Intron|SCN2A_uc002ude.2_Intron	NM_001040142	NP_001035232			sodium channel, voltage-gated, type II, alpha						myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)													---	---	---	---
STK39	27347	broad.mit.edu	37	2	168997278	168997278	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:168997278delA	uc002uea.2	-							NM_013233	NP_037365			serine threonine kinase 39 (STE20/SPS1 homolog,						response to stress	cytoplasm|nucleus	ATP binding|protein binding|receptor signaling protein serine/threonine kinase activity			central_nervous_system(1)|skin(1)	2																		---	---	---	---
KLHL23	151230	broad.mit.edu	37	2	170605897	170605897	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:170605897delA	uc002ufh.1	+						KLHL23_uc002ufi.1_Intron|uc002ufj.3_5'Flank	NM_144711	NP_653312			kelch-like 23												0																		---	---	---	---
MYO3B	140469	broad.mit.edu	37	2	171248018	171248018	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:171248018delT	uc002ufy.2	+						MYO3B_uc002ufv.2_Intron|MYO3B_uc010fqb.1_Intron|MYO3B_uc002ufz.2_Intron|MYO3B_uc002ufw.2_Intron|MYO3B_uc002ufx.2_Intron|MYO3B_uc002ugb.2_Intron	NM_138995	NP_620482			myosin IIIB isoform 2						response to stimulus|visual perception	cytoplasm|myosin complex	actin binding|ATP binding|motor activity|protein serine/threonine kinase activity			lung(8)|ovary(6)|skin(4)|central_nervous_system(1)	19																		---	---	---	---
METTL8	79828	broad.mit.edu	37	2	172195604	172195604	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:172195604delA	uc010zdo.1	-						METTL8_uc002ugu.3_Intron|METTL8_uc002ugv.3_Intron|METTL8_uc002ugt.3_Intron|METTL8_uc002ugs.3_Intron|METTL8_uc010zdp.1_Intron	NM_024770	NP_079046			methyltransferase like 8								methyltransferase activity			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	2	175164718	175164719	+	IGR	INS	-	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:175164718_175164719insA								OLA1 (51353 upstream) : SP9 (35102 downstream)																																			---	---	---	---
OSGEPL1	64172	broad.mit.edu	37	2	190619775	190619775	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:190619775delT	uc002uqz.1	-						OSGEPL1_uc002ura.1_Intron|OSGEPL1_uc010zfy.1_3'UTR	NM_022353	NP_071748			O-sialoglycoprotein endopeptidase-like 1						proteolysis|tRNA processing		metalloendopeptidase activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.00156)|Epithelial(96;0.0293)|all cancers(119;0.0831)															---	---	---	---
DNAH7	56171	broad.mit.edu	37	2	196738264	196738264	+	Intron	DEL	A	-	-	rs116198228	by1000genomes	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:196738264delA	uc002utj.3	-							NM_018897	NP_061720			dynein, axonemal, heavy chain 7						ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12																		---	---	---	---
DNAH7	56171	broad.mit.edu	37	2	196788374	196788374	+	Frame_Shift_Del	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:196788374delT	uc002utj.3	-	23	3871	c.3770delA	c.(3769-3771)AATfs	p.N1257fs		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	1257	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12																		---	---	---	---
DNAH7	56171	broad.mit.edu	37	2	196791120	196791120	+	Intron	DEL	A	-	-	rs114374868	by1000genomes	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:196791120delA	uc002utj.3	-							NM_018897	NP_061720			dynein, axonemal, heavy chain 7						ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12																		---	---	---	---
HSPD1	3329	broad.mit.edu	37	2	198360213	198360215	+	Intron	DEL	ATT	-	-	rs13432424		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:198360213_198360215delATT	uc002uui.2	-						HSPD1_uc002uuj.2_Intron|HSPD1_uc010zgx.1_Intron|HSPD1_uc010fsm.2_5'UTR|HSPD1_uc002uuk.2_Intron	NM_002156	NP_002147			chaperonin						'de novo' protein folding|activation of caspase activity|B cell cytokine production|B cell proliferation|chaperone-mediated protein complex assembly|interspecies interaction between organisms|isotype switching to IgG isotypes|MyD88-dependent toll-like receptor signaling pathway|negative regulation of apoptosis|positive regulation of apoptosis|positive regulation of interferon-alpha production|positive regulation of interferon-gamma production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of macrophage activation|positive regulation of T cell activation|positive regulation of T cell mediated immune response to tumor cell|protein maturation|protein refolding|protein stabilization|response to unfolded protein|T cell activation	cell surface|coated pit|coated vesicle|cytosol|early endosome|extracellular space|lipopolysaccharide receptor complex|mitochondrial inner membrane|mitochondrial matrix|stored secretory granule	ATP binding|ATPase activity|cell surface binding|chaperone binding|DNA replication origin binding|lipopolysaccharide binding|p53 binding|single-stranded DNA binding				0			Epithelial(96;0.225)															---	---	---	---
SATB2	23314	broad.mit.edu	37	2	200233219	200233219	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:200233219delA	uc002uuy.1	-						SATB2_uc010fsq.1_Intron|SATB2_uc002uuz.1_Intron|SATB2_uc002uva.1_Intron	NM_015265	NP_056080			SATB homeobox 2							cytoplasm|nuclear matrix	sequence-specific DNA binding transcription factor activity			ovary(1)	1																		---	---	---	---
CLK1	1195	broad.mit.edu	37	2	201719893	201719893	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:201719893delA	uc002uwe.2	-						CLK1_uc002uwd.2_Intron|CLK1_uc010zhi.1_Intron|CLK1_uc002uwf.2_Intron|CLK1_uc002uwg.2_Intron|CLK1_uc010fsv.2_Intron	NM_004071	NP_004062			CDC-like kinase 1 isoform 1						cell proliferation	nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein serine/threonine kinase activity			pancreas(2)	2																		---	---	---	---
WDR12	55759	broad.mit.edu	37	2	203764221	203764221	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:203764221delA	uc002uzl.2	-						WDR12_uc010ftt.2_Intron	NM_018256	NP_060726			WD repeat domain 12 protein						cell proliferation|maturation of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	nucleoplasm|PeBoW complex|preribosome, large subunit precursor	protein binding				0																		---	---	---	---
NBEAL1	65065	broad.mit.edu	37	2	204030777	204030777	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:204030777delA	uc002uzt.3	+						NBEAL1_uc002uzs.3_Intron	NM_001114132	NP_001107604			neurobeachin-like 1 isoform 3								binding			ovary(1)|skin(1)	2																		---	---	---	---
NDUFS1	4719	broad.mit.edu	37	2	206997836	206997836	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:206997836delA	uc002vbe.2	-						NDUFS1_uc010ziq.1_Intron|NDUFS1_uc010zir.1_Intron|NDUFS1_uc010zis.1_Intron|NDUFS1_uc010zit.1_Intron|NDUFS1_uc010ziu.1_Intron	NM_005006	NP_004997			NADH dehydrogenase (ubiquinone) Fe-S protein 1,						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)													---	---	---	---
KLF7	8609	broad.mit.edu	37	2	208030440	208030440	+	5'UTR	DEL	A	-	-	rs71412410		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:208030440delA	uc002vbz.1	-	1					KLF7_uc002vca.1_Intron	NM_003709	NP_003700			Kruppel-like factor 7 (ubiquitous)						regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|zinc ion binding			central_nervous_system(1)|skin(1)	2				LUSC - Lung squamous cell carcinoma(261;0.0856)|Lung(261;0.166)|Epithelial(149;0.173)														---	---	---	---
WNT10A	80326	broad.mit.edu	37	2	219746841	219746842	+	Intron	INS	-	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:219746841_219746842insC	uc002vjd.1	+							NM_025216	NP_079492			wingless-type MMTV integration site family,						anterior/posterior pattern formation|axis specification|canonical Wnt receptor signaling pathway|cellular response to transforming growth factor beta stimulus|female gonad development|hair follicle morphogenesis|odontogenesis|regulation of odontogenesis of dentine-containing tooth|sebaceous gland development|skin development|tongue development|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	G-protein-coupled receptor binding|signal transducer activity			lung(1)|skin(1)	2		Renal(207;0.0474)		Epithelial(149;4.26e-07)|all cancers(144;8.8e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)														---	---	---	---
ACSL3	2181	broad.mit.edu	37	2	223773360	223773360	+	Intron	DEL	A	-	-	rs80016908		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:223773360delA	uc002vni.2	+						ACSL3_uc002vnj.2_Intron	NM_004457	NP_004448			acyl-CoA synthetase long-chain family member 3						long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial outer membrane|peroxisomal membrane	ATP binding|fatty-acyl-CoA synthase activity|long-chain fatty acid-CoA ligase activity|protein binding			ovary(2)	2		Renal(207;0.0183)		Epithelial(121;1.28e-10)|all cancers(144;8.06e-08)|Lung(261;0.00834)|LUSC - Lung squamous cell carcinoma(224;0.00864)	Icosapent(DB00159)			T	ETV1	prostate								---	---	---	---
DOCK10	55619	broad.mit.edu	37	2	225706624	225706624	+	Intron	DEL	A	-	-	rs80175418		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:225706624delA	uc010fwz.1	-						DOCK10_uc002vob.2_Intron	NM_014689	NP_055504			dedicator of cytokinesis 10								GTP binding			ovary(2)	2		Renal(207;0.0113)|all_lung(227;0.0486)|Lung NSC(271;0.0653)|all_hematologic(139;0.14)		Epithelial(121;2.37e-10)|all cancers(144;2.26e-07)|Lung(261;0.0143)|LUSC - Lung squamous cell carcinoma(224;0.0178)														---	---	---	---
COL4A4	1286	broad.mit.edu	37	2	227985652	227985652	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:227985652delA	uc010zlt.1	-							NM_000092	NP_000083			alpha 4 type IV collagen precursor						axon guidance|glomerular basement membrane development	basal lamina|collagen type IV	extracellular matrix structural constituent|protein binding			ovary(5)|central_nervous_system(3)|pancreas(1)|breast(1)|skin(1)	11		Renal(207;0.00844)|all_lung(227;0.0187)|Lung NSC(271;0.0879)|all_hematologic(139;0.21)|Esophageal squamous(248;0.242)		Epithelial(121;6.7e-11)|all cancers(144;5.39e-08)|Lung(261;0.0132)|LUSC - Lung squamous cell carcinoma(224;0.0181)														---	---	---	---
PTMA	5757	broad.mit.edu	37	2	232577586	232577587	+	3'UTR	INS	-	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:232577586_232577587insA	uc002vsc.3	+	5					PTMA_uc002vsb.3_3'UTR|PTMA_uc010zmf.1_RNA|MIR1244_hsa-mir-1244-1|MI0006379_5'Flank	NM_001099285	NP_001092755			prothymosin, alpha isoform 1						transcription, DNA-dependent	nucleus					0		Renal(207;0.0112)|all_hematologic(139;0.0315)|Acute lymphoblastic leukemia(138;0.0921)|all_lung(227;0.142)		Epithelial(121;1.75e-12)|BRCA - Breast invasive adenocarcinoma(100;0.00221)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.0139)														---	---	---	---
DGKD	8527	broad.mit.edu	37	2	234359852	234359853	+	Intron	DEL	TT	-	-	rs3214825		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:234359852_234359853delTT	uc002vui.1	+						DGKD_uc002vuj.1_Intron|DGKD_uc010fyh.1_Intron|DGKD_uc010fyi.1_Intron	NM_152879	NP_690618			diacylglycerol kinase, delta 130kDa isoform 2						activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|cell growth|diacylglycerol metabolic process|endocytosis|epidermal growth factor receptor signaling pathway|multicellular organismal development|platelet activation|protein homooligomerization|protein transport|response to organic substance|second-messenger-mediated signaling	cytoplasm|cytoplasmic membrane-bounded vesicle|plasma membrane|plasma membrane	ATP binding|diacylglycerol binding|diacylglycerol kinase activity|metal ion binding|protein heterodimerization activity|protein homodimerization activity			central_nervous_system(2)|pancreas(1)|lung(1)|skin(1)	5		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0179)|Acute lymphoblastic leukemia(138;0.0326)|Lung NSC(271;0.0538)		Epithelial(121;1.31e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000416)|Lung(119;0.00285)|LUSC - Lung squamous cell carcinoma(224;0.00655)	Phosphatidylserine(DB00144)													---	---	---	---
LRRFIP1	9208	broad.mit.edu	37	2	238667502	238667502	+	Intron	DEL	A	-	-	rs34645684		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:238667502delA	uc002vxe.2	+						LRRFIP1_uc002vxc.2_Intron|LRRFIP1_uc010znm.1_Intron|LRRFIP1_uc002vxd.2_Intron|LRRFIP1_uc002vxf.2_Intron	NM_001137552	NP_001131024			leucine rich repeat (in FLII) interacting						negative regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|cytoskeleton|nucleus	DNA binding|double-stranded RNA binding|protein binding			breast(3)	3		Breast(86;0.00257)|Renal(207;0.00571)|Ovarian(221;0.17)|all_hematologic(139;0.182)		Epithelial(121;9.75e-23)|OV - Ovarian serous cystadenocarcinoma(60;1.01e-10)|Kidney(56;4.85e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.31e-07)|BRCA - Breast invasive adenocarcinoma(100;0.000151)|Lung(119;0.0137)|LUSC - Lung squamous cell carcinoma(224;0.0325)|COAD - Colon adenocarcinoma(134;0.228)														---	---	---	---
HDAC4	9759	broad.mit.edu	37	2	239976659	239976659	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:239976659delA	uc002vyk.3	-						HDAC4_uc010fyy.2_Intron	NM_006037	NP_006028			histone deacetylase 4						B cell differentiation|cardiac muscle hypertrophy in response to stress|chromatin remodeling|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of glycolysis|negative regulation of myotube differentiation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|nervous system development|peptidyl-lysine deacetylation|positive regulation of cell proliferation|positive regulation of protein sumoylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of protein binding|response to denervation involved in regulation of muscle adaptation|response to interleukin-1|transcription, DNA-dependent	histone deacetylase complex|transcriptional repressor complex	activating transcription factor binding|histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|potassium ion binding|repressing transcription factor binding|zinc ion binding			breast(3)|skin(2)|ovary(1)	6		all_epithelial(40;1.45e-17)|Breast(86;1.53e-05)|Renal(207;0.000355)|all_lung(227;0.0121)|Ovarian(221;0.0183)|Lung NSC(271;0.0413)|Melanoma(123;0.0749)|all_hematologic(139;0.159)		Epithelial(121;6.38e-25)|OV - Ovarian serous cystadenocarcinoma(60;2.48e-12)|Kidney(56;6.04e-08)|KIRC - Kidney renal clear cell carcinoma(57;1.18e-06)|BRCA - Breast invasive adenocarcinoma(100;3.99e-05)|Lung(119;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.04)														---	---	---	---
D2HGDH	728294	broad.mit.edu	37	2	242680356	242680356	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:242680356delA	uc002wce.1	+						D2HGDH_uc010zpc.1_Intron|D2HGDH_uc010fzq.1_Intron|D2HGDH_uc002wcg.1_Intron	NM_152783	NP_689996			D-2-hydroxyglutarate dehydrogenase precursor						2-oxoglutarate metabolic process|cellular protein metabolic process|response to cobalt ion|response to manganese ion|response to zinc ion	mitochondrial matrix	(R)-2-hydroxyglutarate dehydrogenase activity|flavin adenine dinucleotide binding|protein binding				0		all_cancers(19;1.09e-40)|all_epithelial(40;2.03e-18)|Breast(86;1.53e-05)|all_lung(227;0.00338)|Renal(207;0.00502)|Ovarian(221;0.00716)|Lung NSC(271;0.012)|Esophageal squamous(248;0.129)|Melanoma(123;0.144)|all_hematologic(139;0.158)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;4.59e-33)|all cancers(36;9.89e-31)|OV - Ovarian serous cystadenocarcinoma(60;7.89e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.63e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00154)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0833)														---	---	---	---
D2HGDH	728294	broad.mit.edu	37	2	242680409	242680409	+	Intron	DEL	C	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:242680409delC	uc002wce.1	+						D2HGDH_uc010zpc.1_Intron|D2HGDH_uc010fzq.1_Intron|D2HGDH_uc002wcg.1_Intron	NM_152783	NP_689996			D-2-hydroxyglutarate dehydrogenase precursor						2-oxoglutarate metabolic process|cellular protein metabolic process|response to cobalt ion|response to manganese ion|response to zinc ion	mitochondrial matrix	(R)-2-hydroxyglutarate dehydrogenase activity|flavin adenine dinucleotide binding|protein binding				0		all_cancers(19;1.09e-40)|all_epithelial(40;2.03e-18)|Breast(86;1.53e-05)|all_lung(227;0.00338)|Renal(207;0.00502)|Ovarian(221;0.00716)|Lung NSC(271;0.012)|Esophageal squamous(248;0.129)|Melanoma(123;0.144)|all_hematologic(139;0.158)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;4.59e-33)|all cancers(36;9.89e-31)|OV - Ovarian serous cystadenocarcinoma(60;7.89e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.63e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00154)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0833)														---	---	---	---
CNTN4	152330	broad.mit.edu	37	3	3085265	3085265	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:3085265delT	uc003bpc.2	+						CNTN4_uc003bpe.2_Intron|CNTN4_uc003bpf.2_Intron|CNTN4_uc003bpg.2_Intron	NM_175607	NP_783200			contactin 4 isoform a precursor						axon guidance|axonal fasciculation|brain development|negative regulation of neuron differentiation|neuron cell-cell adhesion|regulation of synaptic plasticity	anchored to membrane|axon|extracellular region|plasma membrane	protein binding			large_intestine(2)|ovary(2)|lung(1)|central_nervous_system(1)|pancreas(1)	7		Ovarian(110;0.156)		Epithelial(13;0.000695)|all cancers(10;0.0047)|OV - Ovarian serous cystadenocarcinoma(96;0.01)														---	---	---	---
ARL8B	55207	broad.mit.edu	37	3	5212424	5212424	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:5212424delT	uc003bqg.2	+						ARL8B_uc011asx.1_Intron|ARL8B_uc011asy.1_Intron	NM_018184	NP_060654			ADP-ribosylation factor-like 10C						cell cycle|cell division|chromosome segregation|small GTPase mediated signal transduction	late endosome membrane|lysosomal membrane|midbody|spindle midzone	alpha-tubulin binding|beta-tubulin binding|GDP binding|GTP binding|GTPase activity				0				OV - Ovarian serous cystadenocarcinoma(96;0.0717)|Epithelial(13;0.0777)														---	---	---	---
C3orf10	55845	broad.mit.edu	37	3	10167449	10167449	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:10167449delA	uc003bvb.2	+							NM_018462	NP_060932			chromosome 3 open reading frame 10							cytoplasm|cytoskeleton					0																		---	---	---	---
IQSEC1	9922	broad.mit.edu	37	3	12953044	12953045	+	Intron	INS	-	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:12953044_12953045insT	uc003bxt.2	-						IQSEC1_uc003bxu.3_Intron|IQSEC1_uc011auw.1_Intron	NM_014869	NP_055684			IQ motif and Sec7 domain 1 isoform b						regulation of ARF protein signal transduction	cytoplasm|nucleus	ARF guanyl-nucleotide exchange factor activity			ovary(1)	1																		---	---	---	---
HDAC11	79885	broad.mit.edu	37	3	13540122	13540122	+	Intron	DEL	G	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:13540122delG	uc003bxy.2	+						HDAC11_uc010heb.2_Intron|HDAC11_uc011aux.1_Intron|HDAC11_uc003bxz.2_Intron|HDAC11_uc011auy.1_Intron	NM_024827	NP_079103			histone deacetylase 11 isoform 1						regulation of transcription, DNA-dependent|transcription, DNA-dependent	histone deacetylase complex|plasma membrane	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)|transcription factor binding			ovary(2)	2																		---	---	---	---
KCNH8	131096	broad.mit.edu	37	3	19431956	19431956	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:19431956delT	uc003cbk.1	+						KCNH8_uc011awe.1_Intron|KCNH8_uc010hex.1_Intron|KCNH8_uc011awf.1_5'Flank	NM_144633	NP_653234			potassium voltage-gated channel, subfamily H,							integral to membrane	two-component sensor activity			lung(4)|ovary(1)	5																		---	---	---	---
Unknown	0	broad.mit.edu	37	3	23033133	23033133	+	IGR	DEL	A	-	-	rs34093728		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:23033133delA								ZNF385D (619010 upstream) : UBE2E2 (211520 downstream)																																			---	---	---	---
GOLGA4	2803	broad.mit.edu	37	3	37367468	37367468	+	Frame_Shift_Del	DEL	A	-	-	rs141697743		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:37367468delA	uc003cgv.2	+	14	4395	c.4091delA	c.(4090-4092)GAAfs	p.E1364fs	GOLGA4_uc010hgr.1_Frame_Shift_Del_p.E925fs|GOLGA4_uc003cgw.2_Frame_Shift_Del_p.E1386fs|GOLGA4_uc010hgs.2_Intron|GOLGA4_uc003cgx.2_Frame_Shift_Del_p.E1245fs	NM_002078	NP_002069	Q13439	GOGA4_HUMAN	golgi autoantigen, golgin subfamily a, 4	1364	Potential.|Glu-rich.				Golgi to plasma membrane protein transport	Golgi membrane|trans-Golgi network	protein binding			ovary(2)|breast(1)|central_nervous_system(1)	4																		---	---	---	---
GOLGA4	2803	broad.mit.edu	37	3	37370690	37370690	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:37370690delT	uc003cgv.2	+						GOLGA4_uc003cgw.2_Intron|GOLGA4_uc010hgs.2_Intron|GOLGA4_uc003cgx.2_Intron	NM_002078	NP_002069			golgi autoantigen, golgin subfamily a, 4						Golgi to plasma membrane protein transport	Golgi membrane|trans-Golgi network	protein binding			ovary(2)|breast(1)|central_nervous_system(1)	4																		---	---	---	---
VIPR1	7433	broad.mit.edu	37	3	42569093	42569093	+	Intron	DEL	C	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:42569093delC	uc003clf.2	+						VIPR1_uc011azl.1_Intron|VIPR1_uc011azm.1_Intron|VIPR1_uc011azn.1_Intron	NM_004624	NP_004615			vasoactive intestinal peptide receptor 1						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)														---	---	---	---
ZBTB47	92999	broad.mit.edu	37	3	42705882	42705884	+	In_Frame_Del	DEL	AGG	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:42705882_42705884delAGG	uc003clu.1	+	5	1010_1012	c.908_910delAGG	c.(907-912)AAGGAG>AAG	p.E304del		NM_145166	NP_660149	Q9UFB7	ZBT47_HUMAN	zinc finger protein 651	304	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				KIRC - Kidney renal clear cell carcinoma(284;0.216)														---	---	---	---
SNRK	54861	broad.mit.edu	37	3	43388801	43388801	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:43388801delT	uc003cms.3	+						SNRK_uc003cmt.3_Intron|SNRK_uc010hik.2_Intron|SNRK_uc011azr.1_Intron	NM_017719	NP_060189			SNF related kinase						myeloid cell differentiation	nucleus	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			ovary(3)|stomach(1)|breast(1)|skin(1)	6				KIRC - Kidney renal clear cell carcinoma(284;0.0636)|Kidney(284;0.0792)														---	---	---	---
SMARCC1	6599	broad.mit.edu	37	3	47777371	47777373	+	Intron	DEL	AAA	-	-	rs111950490		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:47777371_47777373delAAA	uc003crq.2	-						SMARCC1_uc011bbd.1_Intron	NM_003074	NP_003065			SWI/SNF-related matrix-associated						chromatin remodeling|nervous system development|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleoplasm|SWI/SNF complex|WINAC complex	DNA binding|protein N-terminus binding|transcription coactivator activity			skin(2)|lung(1)	3				BRCA - Breast invasive adenocarcinoma(193;7.47e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00862)|Kidney(197;0.01)														---	---	---	---
SMARCC1	6599	broad.mit.edu	37	3	47779603	47779603	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:47779603delA	uc003crq.2	-						SMARCC1_uc011bbd.1_Intron	NM_003074	NP_003065			SWI/SNF-related matrix-associated						chromatin remodeling|nervous system development|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleoplasm|SWI/SNF complex|WINAC complex	DNA binding|protein N-terminus binding|transcription coactivator activity			skin(2)|lung(1)	3				BRCA - Breast invasive adenocarcinoma(193;7.47e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00862)|Kidney(197;0.01)														---	---	---	---
APEH	327	broad.mit.edu	37	3	49719319	49719319	+	Splice_Site	DEL	G	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:49719319delG	uc003cxf.2	+	17	1923	c.1523_splice	c.e17-1	p.G508_splice	APEH_uc010hkw.1_Splice_Site_p.G508_splice	NM_001640	NP_001631			N-acylaminoacyl-peptide hydrolase						proteolysis	cytoplasm|nuclear membrane	serine-type endopeptidase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;4.53e-05)|Kidney(197;0.00218)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)														---	---	---	---
POC1A	25886	broad.mit.edu	37	3	52181250	52181252	+	Intron	DEL	TTT	-	-	rs78047346		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:52181250_52181252delTTT	uc003dcu.2	-						POC1A_uc003dcv.2_Intron|POC1A_uc003dcw.2_Intron	NM_015426	NP_056241			WD repeat domain 51A isoform 1							centriole|microtubule basal body					0																		---	---	---	---
NEK4	6787	broad.mit.edu	37	3	52768925	52768925	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:52768925delA	uc003dfq.3	-						NEK4_uc011bej.1_Intron	NM_003157	NP_003148			NIMA-related kinase 4						cell division|mitosis	nucleus	ATP binding|metal ion binding|protein serine/threonine kinase activity			large_intestine(1)	1				BRCA - Breast invasive adenocarcinoma(193;7.44e-05)|Kidney(197;0.000711)|KIRC - Kidney renal clear cell carcinoma(197;0.00086)|OV - Ovarian serous cystadenocarcinoma(275;0.0513)														---	---	---	---
HESX1	8820	broad.mit.edu	37	3	57232526	57232526	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:57232526delA	uc003din.3	-							NM_003865	NP_003856			HESX homeobox 1							nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0109)|Kidney(284;0.0126)														---	---	---	---
APPL1	26060	broad.mit.edu	37	3	57293836	57293836	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:57293836delA	uc003dio.2	+						APPL1_uc010hnb.2_Intron|APPL1_uc011bey.1_Intron	NM_012096	NP_036228			adaptor protein, phosphotyrosine interaction, PH						apoptosis|cell cycle|cell proliferation|insulin receptor signaling pathway|regulation of apoptosis|regulation of establishment of protein localization in plasma membrane|regulation of glucose import	cytosol|early endosome membrane|microsome|nucleus|vesicle membrane	protein kinase B binding			breast(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0124)|Kidney(284;0.0144)														---	---	---	---
ASB14	142686	broad.mit.edu	37	3	57310796	57310796	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:57310796delT	uc003diq.2	-						ASB14_uc003dip.1_Intron	NM_001142733	NP_001136205			ankyrin repeat and SOCS box-containing 14						intracellular signal transduction						0				KIRC - Kidney renal clear cell carcinoma(284;0.011)|Kidney(284;0.0127)														---	---	---	---
DNAH12	201625	broad.mit.edu	37	3	57494742	57494742	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:57494742delT	uc003dit.2	-						DNAH12_uc003diu.2_Intron	NM_178504	NP_848599			dynein heavy chain domain 2 isoform 1						microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			pancreas(1)|skin(1)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	3	80006686	80006686	+	IGR	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:80006686delA								ROBO1 (189627 upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	3	87543497	87543498	+	IGR	DEL	AG	-	-	rs146116458		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:87543497_87543498delAG								POU1F1 (217760 upstream) : HTR1F (488228 downstream)																																			---	---	---	---
ABI3BP	25890	broad.mit.edu	37	3	100581262	100581262	+	Intron	DEL	T	-	-	rs111307036		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:100581262delT	uc003dun.2	-						ABI3BP_uc003duo.2_Intron	NM_015429	NP_056244			ABI gene family, member 3 (NESH) binding protein							extracellular space				ovary(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)	4																		---	---	---	---
ABI3BP	25890	broad.mit.edu	37	3	100583652	100583652	+	Intron	DEL	A	-	-	rs10711419		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:100583652delA	uc003dun.2	-						ABI3BP_uc003duo.2_Intron|ABI3BP_uc003dup.3_Frame_Shift_Del_p.F363fs	NM_015429	NP_056244			ABI gene family, member 3 (NESH) binding protein							extracellular space				ovary(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)	4																		---	---	---	---
ABI3BP	25890	broad.mit.edu	37	3	100595246	100595247	+	Intron	INS	-	A	A	rs113298939		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:100595246_100595247insA	uc003dun.2	-						ABI3BP_uc003duo.2_Intron|ABI3BP_uc003dup.3_Intron	NM_015429	NP_056244			ABI gene family, member 3 (NESH) binding protein							extracellular space				ovary(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)	4																		---	---	---	---
ZBTB11	27107	broad.mit.edu	37	3	101378457	101378457	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:101378457delA	uc003dve.3	-							NM_014415	NP_055230			zinc finger protein ZNF-U69274						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1																		---	---	---	---
NAA50	80218	broad.mit.edu	37	3	113440807	113440807	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:113440807delA	uc003ean.1	-						NAA50_uc010hqm.1_Intron|NAA50_uc011bij.1_Intron	NM_025146	NP_079422			N-acetyltransferase 13						N-terminal protein amino acid acetylation	cytoplasm	N-acetyltransferase activity|protein binding				0																		---	---	---	---
GRAMD1C	54762	broad.mit.edu	37	3	113569031	113569031	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:113569031delT	uc003eaq.3	+						GRAMD1C_uc011bil.1_Intron|GRAMD1C_uc011bim.1_Intron	NM_017577	NP_060047			GRAM domain containing 1C							integral to membrane				ovary(2)|skin(1)	3																		---	---	---	---
ZBTB20	26137	broad.mit.edu	37	3	114057967	114057967	+	Frame_Shift_Del	DEL	G	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:114057967delG	uc003ebi.2	-	5	2291	c.2111delC	c.(2110-2112)CCAfs	p.P704fs	ZBTB20_uc003ebj.2_Frame_Shift_Del_p.P631fs|ZBTB20_uc010hqp.2_Frame_Shift_Del_p.P631fs|ZBTB20_uc003ebk.2_Frame_Shift_Del_p.P631fs|ZBTB20_uc003ebl.2_Frame_Shift_Del_p.P631fs|ZBTB20_uc003ebm.2_Frame_Shift_Del_p.P631fs|ZBTB20_uc003ebn.2_Frame_Shift_Del_p.P631fs	NM_015642	NP_056457	Q9HC78	ZBT20_HUMAN	zinc finger and BTB domain containing 20 isoform	704					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(1)	5				LUSC - Lung squamous cell carcinoma(41;0.0581)|Lung(219;0.191)														---	---	---	---
KALRN	8997	broad.mit.edu	37	3	124175366	124175366	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:124175366delT	uc003ehg.2	+						KALRN_uc010hrv.1_Intron|KALRN_uc003ehf.1_Intron|KALRN_uc011bjy.1_Intron|KALRN_uc003ehh.1_Intron	NM_001024660	NP_001019831			kalirin, RhoGEF kinase isoform 1						apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|nervous system development|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|vesicle-mediated transport	actin cytoskeleton|cytosol	ATP binding|GTPase activator activity|metal ion binding|protein binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			large_intestine(2)|ovary(2)|central_nervous_system(1)|skin(1)	6																		---	---	---	---
COL6A6	131873	broad.mit.edu	37	3	130360601	130360601	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:130360601delA	uc010htl.2	+						COL6A6_uc003eni.3_Intron	NM_001102608	NP_001096078			collagen type VI alpha 6 precursor						axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8																		---	---	---	---
NEK11	79858	broad.mit.edu	37	3	130799251	130799251	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:130799251delT	uc003eny.2	+						NEK11_uc003enx.2_Intron|NEK11_uc003eoa.2_Intron|NEK11_uc003enz.2_Intron|NEK11_uc010htn.2_Intron|NEK11_uc011blk.1_Intron|NEK11_uc011bll.1_Intron|NEK11_uc003enw.1_Intron|NEK11_uc011blm.1_Intron|NEK11_uc010hto.1_5'Flank	NM_024800	NP_079076			NIMA-related kinase 11 isoform 1						cell cycle|intra-S DNA damage checkpoint|intracellular protein kinase cascade	nucleolus	ATP binding|identical protein binding|metal ion binding|protein serine/threonine kinase activity			large_intestine(4)|stomach(1)|central_nervous_system(1)	6																		---	---	---	---
SRPRB	58477	broad.mit.edu	37	3	133526578	133526578	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:133526578delT	uc003epx.1	+							NM_021203	NP_067026			signal recognition particle receptor, beta							endoplasmic reticulum membrane|integral to membrane	GTP binding|protein binding|receptor activity			ovary(1)	1																		---	---	---	---
ARMC8	25852	broad.mit.edu	37	3	137988856	137988856	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:137988856delT	uc003esa.1	+						TXNDC6_uc003esd.1_Intron|TXNDC6_uc010huf.1_Intron|TXNDC6_uc003ese.1_Intron|ARMC8_uc011bmf.1_Intron|ARMC8_uc011bmg.1_Intron|ARMC8_uc011bmh.1_Intron|ARMC8_uc003esb.1_Intron|ARMC8_uc003esc.1_Intron|ARMC8_uc003esf.1_Intron	NM_015396	NP_056211			armadillo repeat containing 8 isoform 2								binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	3	142895155	142895155	+	IGR	DEL	C	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:142895155delC								CHST2 (53345 upstream) : SLC9A9 (88910 downstream)																																			---	---	---	---
PLSCR1	5359	broad.mit.edu	37	3	146234963	146234963	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:146234963delA	uc003evx.3	-						PLSCR1_uc003evy.3_Intron|PLSCR1_uc011bnn.1_Intron|PLSCR1_uc003evz.3_Intron	NM_021105	NP_066928			phospholipid scramblase 1						phospholipid scrambling|platelet activation|response to virus	integral to membrane|plasma membrane	calcium ion binding|phospholipid scramblase activity|SH3 domain binding			ovary(2)	2																		---	---	---	---
PLSCR5	389158	broad.mit.edu	37	3	146309456	146309456	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:146309456delA	uc003ewb.2	-						PLSCR5_uc010hvb.2_Intron|PLSCR5_uc010hvc.2_Intron	NM_001085420	NP_001078889			phospholipid scramblase family, member 5												0																		---	---	---	---
CPA3	1359	broad.mit.edu	37	3	148582960	148582960	+	5'Flank	DEL	A	-	-	rs143382113		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:148582960delA	uc003ewm.2	+							NM_001870	NP_001861			carboxypeptidase A3 precursor						proteolysis	stored secretory granule|transport vesicle	metallocarboxypeptidase activity|zinc ion binding			breast(1)|skin(1)	2			LUSC - Lung squamous cell carcinoma(72;0.0934)|Lung(72;0.115)															---	---	---	---
RNF13	11342	broad.mit.edu	37	3	149678568	149678568	+	Frame_Shift_Del	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:149678568delA	uc003exn.3	+	11	1607	c.823delA	c.(823-825)AAAfs	p.K275fs	RNF13_uc003exp.3_Frame_Shift_Del_p.K275fs|RNF13_uc010hvh.2_Frame_Shift_Del_p.K156fs	NM_007282	NP_009213	O43567	RNF13_HUMAN	ring finger protein 13	275	Cytoplasmic (Potential).|RING-type; atypical.				protein autoubiquitination	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|late endosome membrane|lysosomal membrane|nuclear inner membrane	ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1		all_neural(597;0.0138)|Myeloproliferative disorder(1037;0.0255)	LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)															---	---	---	---
MBNL1	4154	broad.mit.edu	37	3	152173844	152173844	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:152173844delT	uc003ezm.2	+						MBNL1_uc003ezh.2_Intron|MBNL1_uc003ezi.2_Intron|MBNL1_uc003ezj.2_Intron|MBNL1_uc003ezl.2_Intron|MBNL1_uc003ezp.2_Intron|MBNL1_uc003ezn.2_Intron|MBNL1_uc003ezo.2_Intron|MBNL1_uc010hvp.2_Intron	NM_207293	NP_997176			muscleblind-like 1 isoform c						embryonic limb morphogenesis|in utero embryonic development|myoblast differentiation|nervous system development	nucleus|stress granule	double-stranded RNA binding|protein binding|zinc ion binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0813)															---	---	---	---
Unknown	0	broad.mit.edu	37	3	155829897	155829897	+	IGR	DEL	T	-	-	rs28406457		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:155829897delT								GMPS (174379 upstream) : KCNAB1 (8440 downstream)																																			---	---	---	---
SAMD7	344658	broad.mit.edu	37	3	169642738	169642738	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:169642738delT	uc003fgd.2	+						SAMD7_uc003fge.2_Intron|SAMD7_uc011bpo.1_Intron	NM_182610	NP_872416			sterile alpha motif domain containing 7											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)															---	---	---	---
SKIL	6498	broad.mit.edu	37	3	170107957	170107957	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:170107957delT	uc003fgu.2	+						SKIL_uc011bps.1_Intron|SKIL_uc003fgv.2_Intron|SKIL_uc003fgw.2_Intron	NM_005414	NP_005405			SKI-like isoform 1						cell cycle arrest|negative regulation of cell differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of axonogenesis|protein heterotrimerization|protein homotrimerization|regulation of apoptosis|regulation of apoptosis|response to antibiotic|response to growth factor stimulus|skeletal muscle tissue development	cytoplasm|PML body	chromatin binding|nucleotide binding|protein complex binding|protein domain specific binding|SMAD binding|transcription corepressor activity|transcription repressor activity			ovary(2)|skin(1)	3	all_cancers(22;7.13e-23)|all_epithelial(15;9.95e-28)|all_lung(20;1.23e-16)|Lung NSC(18;5.15e-16)|Ovarian(172;0.000337)|Breast(254;0.137)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.197)															---	---	---	---
PIK3CA	5290	broad.mit.edu	37	3	178922167	178922167	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:178922167delA	uc003fjk.2	+							NM_006218	NP_006209			phosphoinositide-3-kinase, catalytic, alpha						epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity			breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)				57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			---	---	---	---
MCF2L2	23101	broad.mit.edu	37	3	183027758	183027758	+	Intron	DEL	T	-	-	rs79706532		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:183027758delT	uc003fli.1	-						MCF2L2_uc003flj.1_Intron|MCF2L2_uc003flp.1_Intron|MCF2L2_uc011bqs.1_Intron	NM_015078	NP_055893			Rho family guanine-nucleotide exchange factor						regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)|large_intestine(2)|breast(1)	5	all_cancers(143;1.26e-12)|Ovarian(172;0.0355)		all cancers(12;3.35e-44)|Epithelial(37;6.48e-38)|LUSC - Lung squamous cell carcinoma(7;7.12e-25)|Lung(8;6.39e-23)|OV - Ovarian serous cystadenocarcinoma(80;6.75e-21)															---	---	---	---
YEATS2	55689	broad.mit.edu	37	3	183521660	183521661	+	Intron	DEL	AA	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:183521660_183521661delAA	uc003fly.2	+							NM_018023	NP_060493			YEATS domain containing 2						histone H3 acetylation|negative regulation of transcription from RNA polymerase II promoter	Ada2/Gcn5/Ada3 transcription activator complex	TBP-class protein binding			ovary(3)|large_intestine(1)	4	all_cancers(143;6.55e-10)|Ovarian(172;0.0303)		all cancers(12;2.38e-42)|Epithelial(37;1.9e-36)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)															---	---	---	---
Unknown	0	broad.mit.edu	37	3	187141216	187141216	+	IGR	DEL	A	-	-	rs80024997		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:187141216delA								RTP4 (51849 upstream) : SST (245480 downstream)																																			---	---	---	---
ATP13A5	344905	broad.mit.edu	37	3	193028483	193028483	+	Frame_Shift_Del	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:193028483delA	uc011bsq.1	-	21	2469	c.2469delT	c.(2467-2469)TTTfs	p.F823fs		NM_198505	NP_940907	Q4VNC0	AT135_HUMAN	ATPase type 13A5	823					ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(5)|skin(4)|large_intestine(2)	11	all_cancers(143;1.08e-08)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;5.56e-18)|LUSC - Lung squamous cell carcinoma(58;6.08e-06)|Lung(62;6.49e-06)	GBM - Glioblastoma multiforme(46;0.000307)														---	---	---	---
ATP13A3	79572	broad.mit.edu	37	3	194126979	194126979	+	Intron	DEL	A	-	-	rs74992469	byFrequency;by1000genomes	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:194126979delA	uc003fty.3	-						ATP13A3_uc003ftx.3_Intron	NM_024524	NP_078800			ATPase type 13A3						ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(1)	1	all_cancers(143;6.01e-09)|Ovarian(172;0.0634)	Melanoma(1037;0.211)	OV - Ovarian serous cystadenocarcinoma(49;3.83e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;5.98e-05)														---	---	---	---
TFRC	7037	broad.mit.edu	37	3	195792273	195792273	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:195792273delA	uc003fvz.3	-						TFRC_uc003fwa.3_Intron|TFRC_uc010hzy.2_Intron|TFRC_uc011btr.1_Intron	NM_003234	NP_003225			transferrin receptor						cellular iron ion homeostasis|endocytosis|interspecies interaction between organisms|proteolysis|transferrin transport|transmembrane transport	coated pit|endosome|integral to plasma membrane|melanosome	peptidase activity|transferrin receptor activity			ovary(3)	3	all_cancers(143;1.94e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;1.36e-24)|all cancers(36;3.34e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.17e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00233)				T	BCL6	NHL								---	---	---	---
SENP5	205564	broad.mit.edu	37	3	196611927	196611928	+	Intron	INS	-	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:196611927_196611928insT	uc003fwz.3	+						SENP5_uc011bty.1_Intron	NM_152699	NP_689912			SUMO1/sentrin specific peptidase 5						cell cycle|cell division|proteolysis	nucleolus	cysteine-type peptidase activity			breast(2)|lung(1)	3	all_cancers(143;1.8e-08)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;3.14e-24)|all cancers(36;2.1e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.03e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.004)														---	---	---	---
KIAA0226	9711	broad.mit.edu	37	3	197444827	197444827	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:197444827delA	uc003fyc.2	-						KIAA0226_uc003fyd.3_Intron|KIAA0226_uc003fyf.2_Intron|KIAA0226_uc003fyg.2_Intron	NM_014687	NP_055502			hypothetical protein LOC9711 isoform 2.						autophagy|endocytosis|negative regulation of autophagy|negative regulation of endocytosis	early endosome|late endosome|lysosome	protein binding				0	all_cancers(143;8.26e-10)|Ovarian(172;0.0418)|Breast(254;0.0976)		Epithelial(36;2.19e-23)|all cancers(36;1.39e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.21e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(93;0.0446)														---	---	---	---
PIGG	54872	broad.mit.edu	37	4	502486	502486	+	Intron	DEL	A	-	-	rs79053875		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:502486delA	uc003gak.3	+						PIGG_uc003gaj.3_Intron|PIGG_uc011bux.1_Intron|PIGG_uc010ibf.2_Intron|PIGG_uc003gal.3_Intron|PIGG_uc003gai.2_Intron|PIGG_uc011buw.1_Intron|PIGG_uc003gam.2_Intron|PIGG_uc003gan.2_Intron	NM_001127178	NP_001120650			phosphatidylinositol glycan anchor biosynthesis,						C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	CP2 mannose-ethanolamine phosphotransferase activity			central_nervous_system(2)|ovary(1)|skin(1)	4																		---	---	---	---
POLN	353497	broad.mit.edu	37	4	2240173	2240173	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:2240173delA	uc011bvi.1	-						HAUS3_uc011bvj.1_Intron|HAUS3_uc003ges.1_Intron|HAUS3_uc003get.1_Intron	NM_181808	NP_861524			DNA-directed DNA polymerase nu						DNA repair|DNA replication	nucleus	DNA binding|DNA-directed DNA polymerase activity			kidney(2)|ovary(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(23;0.0955)										DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					---	---	---	---
NOP14	8602	broad.mit.edu	37	4	2956407	2956407	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:2956407delA	uc003ggj.1	-						C4orf10_uc003ggi.1_Intron|NOP14_uc010icp.2_5'Flank|NOP14_uc003ggk.3_Intron|NOP14_uc003ggl.2_Intron|NOP14_uc010icq.1_Intron	NM_003703	NP_003694			probable nucleolar complex protein 14						endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	mitochondrion|Noc4p-Nop14p complex|small-subunit processome	snoRNA binding			pancreas(1)	1																		---	---	---	---
C4orf50	389197	broad.mit.edu	37	4	5981743	5981743	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:5981743delT	uc003git.1	-							NM_207405	NP_997288			hypothetical protein LOC389197											pancreas(2)|breast(1)	3																		---	---	---	---
MAN2B2	23324	broad.mit.edu	37	4	6611894	6611894	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:6611894delT	uc003gjf.1	+						MAN2B2_uc003gje.1_Intron|MAN2B2_uc011bwf.1_Intron	NM_015274	NP_056089			mannosidase, alpha, class 2B, member 2						mannose metabolic process	extracellular region	alpha-mannosidase activity|carbohydrate binding|zinc ion binding			ovary(2)	2																		---	---	---	---
AFAP1	60312	broad.mit.edu	37	4	7787904	7787904	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:7787904delA	uc003gkg.1	-						AFAP1_uc011bwk.1_Intron	NM_198595	NP_940997			actin filament associated protein 1							actin cytoskeleton|cytoplasm|focal adhesion	actin binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	4	19087669	19087670	+	IGR	DEL	CA	-	-	rs113651134		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:19087669_19087670delCA								None (None upstream) : None (None downstream)																																			---	---	---	---
SLIT2	9353	broad.mit.edu	37	4	20611618	20611618	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:20611618delT	uc003gpr.1	+						SLIT2_uc003gps.1_Intron	NM_004787	NP_004778			slit homolog 2 precursor						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																		---	---	---	---
ARAP2	116984	broad.mit.edu	37	4	36126599	36126599	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:36126599delA	uc003gsq.1	-							NM_015230	NP_056045			ArfGAP with RhoGAP domain, ankyrin repeat and PH						regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytosol	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3																		---	---	---	---
C4orf19	55286	broad.mit.edu	37	4	37590393	37590393	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:37590393delA	uc003gsw.3	+						C4orf19_uc003gsy.3_Intron	NM_001104629	NP_001098099			hypothetical protein LOC55286												0																		---	---	---	---
RELL1	768211	broad.mit.edu	37	4	37636845	37636845	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:37636845delA	uc003gsz.2	-						RELL1_uc010ifc.2_Intron	NM_001085399	NP_001078868			receptor expressed in lymphoid tissues like 1							cytoplasm|integral to membrane|microtubule cytoskeleton|plasma membrane					0																		---	---	---	---
TLR10	81793	broad.mit.edu	37	4	38777276	38777276	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:38777276delA	uc003gti.2	-						TLR10_uc003gtj.2_Intron|TLR10_uc003gtk.2_Intron	NM_030956	NP_112218			toll-like receptor 10 precursor						inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway	integral to membrane|plasma membrane	transmembrane receptor activity			lung(1)|breast(1)	2																		---	---	---	---
FAM114A1	92689	broad.mit.edu	37	4	38937442	38937442	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:38937442delT	uc003gtn.2	+						FAM114A1_uc011byh.1_Intron|FAM114A1_uc010ifi.2_Intron	NM_138389	NP_612398			hypothetical protein LOC92689							cytoplasm				ovary(1)	1																		---	---	---	---
GUF1	60558	broad.mit.edu	37	4	44682662	44682662	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:44682662delT	uc003gww.3	+						GUF1_uc010ifz.1_Intron	NM_021927	NP_068746			GUF1 GTPase homolog						translation	mitochondrial inner membrane	GTP binding|GTPase activity			upper_aerodigestive_tract(1)	1																		---	---	---	---
PDGFRA	5156	broad.mit.edu	37	4	54348115	54348115	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:54348115delT	uc003haa.2	+						LNX1_uc003haf.3_Intron|LNX1_uc003hag.3_Intron|LNX1_uc003hah.3_Intron	NM_006206	NP_006197			platelet-derived growth factor receptor alpha						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)			Mis|O|T	FIP1L1	GIST|idiopathic hypereosinophilic syndrome				Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Intestinal_Neurofibromatosis	TSP Lung(21;0.16)			---	---	---	---
TMPRSS11F	389208	broad.mit.edu	37	4	68929077	68929077	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:68929077delT	uc003hdt.1	-						LOC550112_uc003hdl.3_Intron|uc011cak.1_Intron|SYT14L_uc010ihn.2_5'Flank	NM_207407	NP_997290			transmembrane protease, serine 11F						proteolysis	extracellular region|integral to plasma membrane	serine-type endopeptidase activity			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	4	69444612	69444612	+	IGR	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:69444612delT								YTHDC1 (228788 upstream) : UGT2B15 (67704 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	4	69481586	69481586	+	IGR	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:69481586delT								YTHDC1 (265762 upstream) : UGT2B15 (30730 downstream)																																			---	---	---	---
RUFY3	22902	broad.mit.edu	37	4	71660543	71660546	+	Frame_Shift_Del	DEL	AAAG	-	-	rs148897085		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:71660543_71660546delAAAG	uc003hfr.2	+	14	2084_2087	c.1489_1492delAAAG	c.(1489-1494)AAAGAAfs	p.K497fs	RUFY3_uc011cay.1_Frame_Shift_Del_p.K433fs	NM_001037442	NP_001032519	Q7L099	RUFY3_HUMAN	RUN and FYVE domain containing 3 isoform 1	332_Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					negative regulation of axonogenesis	filopodium|growth cone					0		all_hematologic(202;0.248)	Lung(101;0.235)															---	---	---	---
SLC4A4	8671	broad.mit.edu	37	4	72166718	72166718	+	Intron	DEL	C	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:72166718delC	uc003hfy.2	+						SLC4A4_uc010iic.2_Intron|SLC4A4_uc010iib.2_Intron|SLC4A4_uc003hfz.2_Intron|SLC4A4_uc003hga.2_Intron	NM_001098484	NP_001091954			solute carrier family 4, sodium bicarbonate							basolateral plasma membrane|integral to plasma membrane	inorganic anion exchanger activity|protein binding|sodium:bicarbonate symporter activity			ovary(3)|kidney(1)|skin(1)	5			Lung(101;0.0739)|LUSC - Lung squamous cell carcinoma(112;0.225)															---	---	---	---
USO1	8615	broad.mit.edu	37	4	76734267	76734267	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:76734267delA	uc003hiu.2	+						USO1_uc003hiv.2_Intron|USO1_uc003hiw.2_Intron	NM_003715	NP_003706			USO1 homolog, vesicle docking protein						intracellular protein transport|vesicle fusion with Golgi apparatus	cytosol|Golgi membrane	protein binding|protein transporter activity			ovary(2)|central_nervous_system(1)	3			Lung(101;0.0809)|LUSC - Lung squamous cell carcinoma(112;0.0934)															---	---	---	---
PRKG2	5593	broad.mit.edu	37	4	82013426	82013427	+	Intron	INS	-	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:82013426_82013427insA	uc003hmh.2	-						PRKG2_uc011ccf.1_Intron|PRKG2_uc011ccg.1_Intron|PRKG2_uc011cch.1_Intron	NM_006259	NP_006250			protein kinase, cGMP-dependent, type II						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																		---	---	---	---
RASGEF1B	153020	broad.mit.edu	37	4	82363549	82363549	+	Intron	DEL	G	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:82363549delG	uc003hmi.1	-						RASGEF1B_uc003hmj.1_Intron|RASGEF1B_uc010ijq.1_Intron	NM_152545	NP_689758			RasGEF domain family, member 1B						regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular	Ras guanyl-nucleotide exchange factor activity				0																		---	---	---	---
WDFY3	23001	broad.mit.edu	37	4	85634184	85634185	+	Intron	INS	-	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:85634184_85634185insT	uc003hpd.2	-						WDFY3_uc003hpe.1_Intron	NM_014991	NP_055806			WD repeat and FYVE domain containing 3 isoform							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)														---	---	---	---
SPARCL1	8404	broad.mit.edu	37	4	88394960	88394960	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:88394960delA	uc010ikm.2	-						SPARCL1_uc011cdc.1_Intron|SPARCL1_uc003hqs.3_Intron|SPARCL1_uc011cdd.1_Intron	NM_001128310	NP_001121782			SPARC-like 1 precursor						signal transduction	extracellular space|proteinaceous extracellular matrix	calcium ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(123;0.00118)														---	---	---	---
HERC6	55008	broad.mit.edu	37	4	89358213	89358213	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:89358213delT	uc011cdi.1	+						HERC6_uc011cdj.1_Intron|HERC6_uc011cdk.1_Intron|HERC6_uc011cdl.1_Intron	NM_017912	NP_060382			hect domain and RLD 6 isoform 1						protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytosol	ubiquitin-protein ligase activity			lung(3)|ovary(1)|kidney(1)	5		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000222)														---	---	---	---
BANK1	55024	broad.mit.edu	37	4	102839362	102839362	+	Intron	DEL	A	-	-	rs3733198	by1000genomes	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:102839362delA	uc003hvy.3	+						BANK1_uc003hvx.3_Intron|BANK1_uc010ill.2_Intron|BANK1_uc003hvz.3_Intron	NM_017935	NP_060405			B-cell scaffold protein with ankyrin repeats 1						B cell activation					ovary(2)|skin(1)	3		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;2.7e-07)														---	---	---	---
EGF	1950	broad.mit.edu	37	4	110901376	110901376	+	Intron	DEL	G	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:110901376delG	uc003hzy.3	+						EGF_uc011cfu.1_Intron|EGF_uc011cfv.1_Intron|EGF_uc010imk.2_5'Flank	NM_001963	NP_001954			epidermal growth factor precursor						angiogenesis|DNA replication|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of secretion|platelet activation|platelet degranulation|positive regulation of catenin import into nucleus|positive regulation of epidermal growth factor receptor activity|positive regulation of MAP kinase activity|positive regulation of mitosis|regulation of calcium ion import|regulation of protein localization at cell surface	integral to membrane|plasma membrane|platelet alpha granule lumen	calcium ion binding|epidermal growth factor receptor binding|growth factor activity|transmembrane receptor protein tyrosine kinase activator activity			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4		Hepatocellular(203;0.0893)		OV - Ovarian serous cystadenocarcinoma(123;9.87e-06)	Sulindac(DB00605)													---	---	---	---
ELOVL6	79071	broad.mit.edu	37	4	111119231	111119234	+	Intron	DEL	CCCC	-	-	rs71791255		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:111119231_111119234delCCCC	uc003hzz.2	-						ELOVL6_uc003iaa.2_Intron	NM_001130721	NP_001124193			elongation of very long chain fatty acids-like						fatty acid elongation, saturated fatty acid|long-chain fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process		fatty acid elongase activity|protein binding			haematopoietic_and_lymphoid_tissue(1)	1				OV - Ovarian serous cystadenocarcinoma(123;0.00462)														---	---	---	---
PRDM5	11107	broad.mit.edu	37	4	121616101	121616101	+	3'UTR	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:121616101delT	uc003idn.2	-	16					PRDM5_uc003ido.2_3'UTR|PRDM5_uc010ine.2_3'UTR	NM_018699	NP_061169			PR domain containing 5						histone deacetylation|histone H3-K9 methylation|mitotic cell cycle|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	repressing transcription factor binding|sequence-specific DNA binding|transcription regulatory region DNA binding|zinc ion binding			central_nervous_system(1)|pancreas(1)	2																		---	---	---	---
QRFPR	84109	broad.mit.edu	37	4	122250740	122250740	+	Frame_Shift_Del	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:122250740delT	uc010inj.1	-	6	1404	c.1025delA	c.(1024-1026)AATfs	p.N342fs	QRFPR_uc010ink.1_RNA|QRFPR_uc003ids.2_3'UTR	NM_198179	NP_937822	Q96P65	QRFPR_HUMAN	G protein-coupled receptor 103	342	Cytoplasmic (Potential).					plasma membrane	neuropeptide Y receptor activity				0																		---	---	---	---
KIAA1109	84162	broad.mit.edu	37	4	123111049	123111049	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:123111049delT	uc003ieh.2	+						KIAA1109_uc003iei.1_Intron	NM_015312	NP_056127			fragile site-associated protein						regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12																		---	---	---	---
KIAA1109	84162	broad.mit.edu	37	4	123274943	123274943	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:123274943delA	uc003ieh.2	+						KIAA1109_uc003iem.2_Intron	NM_015312	NP_056127			fragile site-associated protein						regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12																		---	---	---	---
PLK4	10733	broad.mit.edu	37	4	128807987	128807987	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:128807987delA	uc003ifo.2	+						PLK4_uc011cgs.1_Intron|PLK4_uc011cgt.1_Intron	NM_014264	NP_055079			polo-like kinase 4						G2/M transition of mitotic cell cycle|positive regulation of centriole replication|trophoblast giant cell differentiation	centriole|cleavage furrow|cytosol|nucleolus	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	4	138369697	138369698	+	IGR	DEL	AA	-	-	rs74420997		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:138369697_138369698delAA								None (None upstream) : PCDH18 (70378 downstream)																																			---	---	---	---
USP38	84640	broad.mit.edu	37	4	144108896	144108896	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:144108896delT	uc003ijb.2	+						USP38_uc003ija.3_Intron|USP38_uc003ijc.2_Intron	NM_032557	NP_115946			ubiquitin specific peptidase 38						ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|ovary(1)|breast(1)|pancreas(1)	5	all_hematologic(180;0.158)																	---	---	---	---
FBXW7	55294	broad.mit.edu	37	4	153247487	153247487	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:153247487delT	uc003ims.2	-						FBXW7_uc011cii.1_Intron|FBXW7_uc003imt.2_Intron|FBXW7_uc011cih.1_Intron|FBXW7_uc003imq.2_Intron|FBXW7_uc003imr.2_Intron	NM_033632	NP_361014			F-box and WD repeat domain containing 7 isoform						interspecies interaction between organisms|lipid homeostasis|negative regulation of DNA endoreduplication|negative regulation of hepatocyte proliferation|negative regulation of Notch signaling pathway|negative regulation of triglyceride biosynthetic process|positive regulation of epidermal growth factor receptor activity|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|protein stabilization|protein ubiquitination|regulation of lipid storage|regulation of protein localization|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|sister chromatid cohesion|vasculature development	nucleolus|nucleolus|nucleoplasm|nucleoplasm|SCF ubiquitin ligase complex	protein binding|protein binding			haematopoietic_and_lymphoid_tissue(125)|large_intestine(99)|stomach(16)|lung(14)|endometrium(13)|ovary(9)|biliary_tract(8)|upper_aerodigestive_tract(5)|central_nervous_system(3)|kidney(3)|skin(3)|pancreas(3)|breast(2)|prostate(2)|cervix(1)|NS(1)|bone(1)	308	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.000629)|all_hematologic(8;0.067)						Mis|N|D|F		colorectal|endometrial|T-ALL								---	---	---	---
PLRG1	5356	broad.mit.edu	37	4	155457782	155457782	+	3'UTR	DEL	T	-	-	rs71970519		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:155457782delT	uc003iny.2	-	15					PLRG1_uc003inz.2_3'UTR	NM_002669	NP_002660			pleiotropic regulator 1 (PRL1 homolog,							catalytic step 2 spliceosome|nuclear speck	protein binding|signal transducer activity|transcription corepressor activity				0	all_hematologic(180;0.215)	Renal(120;0.0854)																---	---	---	---
ACCN5	51802	broad.mit.edu	37	4	156784973	156784973	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:156784973delA	uc003ipe.1	-							NM_017419	NP_059115			amiloride-sensitive cation channel 5,							integral to membrane|plasma membrane				ovary(2)|skin(1)	3	all_hematologic(180;0.24)	Renal(120;0.0458)		KIRC - Kidney renal clear cell carcinoma(143;0.0464)|Kidney(143;0.058)|COAD - Colon adenocarcinoma(41;0.141)														---	---	---	---
TDO2	6999	broad.mit.edu	37	4	156824974	156824974	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:156824974delT	uc003ipf.1	+							NM_005651	NP_005642			tryptophan 2,3-dioxygenase						tryptophan catabolic process to kynurenine	cytosol	tryptophan 2,3-dioxygenase activity				0	all_hematologic(180;0.24)	Renal(120;0.0854)		KIRC - Kidney renal clear cell carcinoma(143;0.0455)|Kidney(143;0.0568)|COAD - Colon adenocarcinoma(41;0.141)	L-Tryptophan(DB00150)													---	---	---	---
DDX60	55601	broad.mit.edu	37	4	169145281	169145281	+	Intron	DEL	T	-	-	rs76603259		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:169145281delT	uc003irp.2	-						DDX60_uc003iro.2_Intron	NM_017631	NP_060101			DEAD (Asp-Glu-Ala-Asp) box polypeptide 60								ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.0485)														---	---	---	---
NEK1	4750	broad.mit.edu	37	4	170428349	170428352	+	Intron	DEL	TTTG	-	-	rs11335570		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:170428349_170428352delTTTG	uc003isb.1	-						NEK1_uc003isc.1_Intron|NEK1_uc003isd.1_Intron|NEK1_uc003ise.1_Intron|NEK1_uc003isf.1_Intron	NM_012224	NP_036356			NIMA-related kinase 1						cell division|cilium assembly|mitosis	nucleus|pericentriolar material	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(3)|ovary(2)|large_intestine(1)	6		Prostate(90;0.00601)|Renal(120;0.0183)		GBM - Glioblastoma multiforme(119;0.0287)|KIRC - Kidney renal clear cell carcinoma(143;0.0325)|Kidney(143;0.0385)|LUSC - Lung squamous cell carcinoma(193;0.14)														---	---	---	---
ODZ3	55714	broad.mit.edu	37	4	183673077	183673077	+	Frame_Shift_Del	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:183673077delA	uc003ivd.1	+	19	3791	c.3754delA	c.(3754-3756)AAAfs	p.K1252fs	ODZ3_uc003ive.1_Frame_Shift_Del_p.K665fs	NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	1252	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)														---	---	---	---
MTRR	4552	broad.mit.edu	37	5	7885676	7885676	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:7885676delT	uc003jed.2	+						MTRR_uc010itn.1_Intron|MTRR_uc003jee.3_Intron|MTRR_uc003jef.3_Intron|MTRR_uc003jeg.3_Intron|MTRR_uc010ito.2_Intron	NM_024010	NP_076915			methionine synthase reductase isoform 2						methionine biosynthetic process	cytosol	[methionine synthase] reductase activity|flavin adenine dinucleotide binding|FMN binding|iron ion binding|NADP binding			ovary(1)	1					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)|L-Methionine(DB00134)													---	---	---	---
CTNND2	1501	broad.mit.edu	37	5	11365081	11365081	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:11365081delT	uc003jfa.1	-						CTNND2_uc010itt.2_Intron|CTNND2_uc011cmy.1_Intron|CTNND2_uc011cmz.1_Intron|CTNND2_uc010itu.1_Intron|CTNND2_uc011cmx.1_Intron	NM_001332	NP_001323			catenin (cadherin-associated protein), delta 2						multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8																		---	---	---	---
TRIO	7204	broad.mit.edu	37	5	14304552	14304552	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:14304552delT	uc003jff.2	+						TRIO_uc003jfg.2_Intron|TRIO_uc011cna.1_Intron|TRIO_uc003jfh.1_Intron	NM_007118	NP_009049			triple functional domain (PTPRF interacting)						apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine phosphatase signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			skin(4)|central_nervous_system(3)|ovary(3)|large_intestine(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|kidney(1)	18	Lung NSC(4;0.000742)																	---	---	---	---
MYO10	4651	broad.mit.edu	37	5	16763726	16763726	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:16763726delA	uc003jft.3	-						MYO10_uc010itx.2_Intron	NM_012334	NP_036466			myosin X						axon guidance|signal transduction	myosin complex	actin binding|ATP binding|motor activity			ovary(2)|pancreas(1)	3																		---	---	---	---
GUSBP1	728411	broad.mit.edu	37	5	21462041	21462042	+	Intron	INS	-	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:21462041_21462042insA	uc010iub.2	+						GUSBP1_uc011cnn.1_Intron|GUSBP1_uc003jgh.3_Intron|GUSBP1_uc003jgf.3_Intron|GUSBP1_uc003jgg.3_Intron	NR_027028				SubName: Full=Putative uncharacterized protein GUSBL2;												0																		---	---	---	---
CDH6	1004	broad.mit.edu	37	5	31267935	31267935	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:31267935delT	uc003jhe.1	+						CDH6_uc003jhd.1_Intron	NM_004932	NP_004923			cadherin 6, type 2 preproprotein						adherens junction organization|cell junction assembly|homophilic cell adhesion	cytoplasm|integral to membrane|nucleus|plasma membrane	calcium ion binding			ovary(4)|skin(2)|large_intestine(1)	7																		---	---	---	---
ZFR	51663	broad.mit.edu	37	5	32355672	32355672	+	3'UTR	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:32355672delT	uc003jhr.1	-	20					ZFR_uc010ium.1_3'UTR|ZFR_uc011cny.1_RNA	NM_016107	NP_057191			zinc finger RNA binding protein						multicellular organismal development	chromosome|cytoplasm|nucleus	DNA binding|RNA binding|zinc ion binding				0				STAD - Stomach adenocarcinoma(35;0.19)														---	---	---	---
ZFR	51663	broad.mit.edu	37	5	32397564	32397564	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:32397564delT	uc003jhr.1	-						MIR579_hsa-mir-579|MI0003586_5'Flank	NM_016107	NP_057191			zinc finger RNA binding protein						multicellular organismal development	chromosome|cytoplasm|nucleus	DNA binding|RNA binding|zinc ion binding				0				STAD - Stomach adenocarcinoma(35;0.19)														---	---	---	---
SKP2	6502	broad.mit.edu	37	5	36183774	36183774	+	Intron	DEL	T	-	-	rs141292010		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:36183774delT	uc003jkd.2	+							NM_032637	NP_116026			S-phase kinase-associated protein 2 isoform 2						anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell proliferation|G1/S transition of mitotic cell cycle|S phase of mitotic cell cycle	nucleoplasm|SCF ubiquitin ligase complex	protein binding			central_nervous_system(2)|ovary(1)|breast(1)	4	all_lung(31;5.63e-05)		Epithelial(62;0.0396)|Lung(74;0.111)|all cancers(62;0.115)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)															---	---	---	---
RANBP3L	202151	broad.mit.edu	37	5	36255458	36255458	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:36255458delT	uc003jkh.2	-						RANBP3L_uc011cow.1_Intron	NM_145000	NP_659437			RAN binding protein 3-like isoform 2						intracellular transport					ovary(1)	1	all_lung(31;4.52e-05)		Epithelial(62;0.0543)|Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.149)|Colorectal(62;0.202)															---	---	---	---
C5orf42	65250	broad.mit.edu	37	5	37180363	37180363	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:37180363delT	uc011cpa.1	-						C5orf42_uc011coy.1_Intron|C5orf42_uc003jks.2_Intron|C5orf42_uc011coz.1_Intron	NM_023073	NP_075561			hypothetical protein LOC65250											ovary(4)|breast(2)|skin(1)	7	all_lung(31;0.000616)		COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.177)|Colorectal(62;0.202)															---	---	---	---
RICTOR	253260	broad.mit.edu	37	5	38958957	38958957	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:38958957delA	uc003jlp.2	-						RICTOR_uc003jlo.2_Intron|RICTOR_uc010ivf.2_Intron	NM_152756	NP_689969			rapamycin-insensitive companion of mTOR						actin cytoskeleton reorganization|embryo development|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of TOR signaling cascade|regulation of protein kinase B signaling cascade|T cell costimulation	cytosol|TORC2 complex	protein binding			ovary(3)|lung(3)|skin(2)|kidney(1)|central_nervous_system(1)	10	all_lung(31;0.000396)																	---	---	---	---
Unknown	0	broad.mit.edu	37	5	51711206	51711213	+	IGR	DEL	AAGGAAGG	-	-	rs147600992		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:51711206_51711213delAAGGAAGG								None (None upstream) : ITGA1 (372561 downstream)																																			---	---	---	---
MIER3	166968	broad.mit.edu	37	5	56233480	56233481	+	Frame_Shift_Del	DEL	GA	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:56233480_56233481delGA	uc003jrd.1	-	5	385_386	c.360_361delTC	c.(358-363)ACTCAGfs	p.T120fs	MIER3_uc003jqz.1_Frame_Shift_Del_p.T57fs|MIER3_uc003jra.1_Frame_Shift_Del_p.T120fs|MIER3_uc003jrb.1_5'UTR|MIER3_uc003jrc.1_Frame_Shift_Del_p.T125fs	NM_152622	NP_689835	Q7Z3K6	MIER3_HUMAN	mesoderm induction early response 1, family	120_121					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)														---	---	---	---
PLK2	10769	broad.mit.edu	37	5	57754160	57754160	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:57754160delA	uc003jrn.2	-						PLK2_uc011cql.1_Frame_Shift_Del_p.Y133fs	NM_006622	NP_006613			polo-like kinase 2						positive regulation of I-kappaB kinase/NF-kappaB cascade		ATP binding|protein binding|protein serine/threonine kinase activity|signal transducer activity			ovary(2)|lung(1)|skin(1)	4		all_cancers(5;1.76e-12)|all_epithelial(5;2.09e-13)|all_lung(5;6.64e-05)|Lung NSC(5;0.000127)|Prostate(74;0.055)|Breast(144;0.0602)|Ovarian(174;0.182)		OV - Ovarian serous cystadenocarcinoma(10;7.03e-37)														---	---	---	---
SFRS12	140890	broad.mit.edu	37	5	65458491	65458491	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:65458491delT	uc003juo.2	+						SFRS12_uc003jun.2_Intron|SFRS12_uc010iwy.2_Intron	NM_139168	NP_631907			splicing factor, arginine/serine-rich 12 isoform						mRNA processing|RNA splicing	spliceosomal complex	nucleic acid binding|nucleotide binding|protein binding				0		Lung NSC(167;9.34e-06)|Prostate(74;0.00187)|Ovarian(174;0.0545)|Breast(144;0.0928)|Colorectal(97;0.234)		Lung(70;0.00449)														---	---	---	---
SLC30A5	64924	broad.mit.edu	37	5	68417499	68417499	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:68417499delT	uc003jvh.2	+						SLC30A5_uc003jvj.2_Intron|SLC30A5_uc003jvk.2_Intron|SLC30A5_uc003jvi.2_Intron	NM_022902	NP_075053			solute carrier family 30 (zinc transporter),						cellular zinc ion homeostasis|cobalt ion transport|regulation of proton transport|response to zinc ion	apical plasma membrane|Golgi apparatus|integral to plasma membrane|membrane fraction|secretory granule membrane	zinc ion binding|zinc ion transmembrane transporter activity			central_nervous_system(1)	1		Lung NSC(167;0.000986)|Prostate(74;0.00809)|Colorectal(97;0.0508)|Ovarian(174;0.16)		OV - Ovarian serous cystadenocarcinoma(47;1.24e-56)|Epithelial(20;1.12e-52)|all cancers(19;2.63e-48)|Lung(70;0.0177)														---	---	---	---
BDP1	55814	broad.mit.edu	37	5	70819742	70819744	+	Intron	DEL	TTG	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:70819742_70819744delTTG	uc003kbp.1	+						BDP1_uc003kbo.2_Intron|BDP1_uc003kbq.1_Intron	NM_018429	NP_060899			transcription factor-like nuclear regulator						regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding			skin(2)	2		Lung NSC(167;0.000422)|Prostate(74;0.00815)|Ovarian(174;0.0176)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;5.28e-56)|Epithelial(20;2.31e-50)														---	---	---	---
RGNEF	64283	broad.mit.edu	37	5	73141989	73141989	+	Intron	DEL	C	-	-	rs72772523	by1000genomes	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:73141989delC	uc011csq.1	+						RGNEF_uc003kcx.2_Intron|RGNEF_uc003kcy.1_Intron|RGNEF_uc010izf.2_Intron|RGNEF_uc011csr.1_Intron	NM_001080479	NP_001073948			Rho-guanine nucleotide exchange factor						cell differentiation|intracellular signal transduction|regulation of Rho protein signal transduction	cytoplasm|plasma membrane	metal ion binding|Rho guanyl-nucleotide exchange factor activity|RNA binding				0		Lung NSC(167;0.0378)|all_lung(232;0.04)|Ovarian(174;0.0798)		OV - Ovarian serous cystadenocarcinoma(47;1.25e-51)														---	---	---	---
JMY	133746	broad.mit.edu	37	5	78602321	78602321	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:78602321delT	uc003kfx.3	+						JMY_uc003kfw.1_Intron	NM_152405	NP_689618			junction-mediating and regulatory protein						'de novo' actin filament nucleation|actin polymerization-dependent cell motility|Arp2/3 complex-mediated actin nucleation|cell cycle arrest|DNA repair|induction of apoptosis|positive regulation of sequence-specific DNA binding transcription factor activity|regulation of transcription from RNA polymerase II promoter	cell leading edge|cytoplasm|cytoskeleton|nucleus	actin binding|transcription coactivator activity				0		all_lung(232;0.00051)|Lung NSC(167;0.00131)|Ovarian(174;0.0261)|Prostate(461;0.191)		OV - Ovarian serous cystadenocarcinoma(54;4.45e-45)|Epithelial(54;5.85e-40)|all cancers(79;2.89e-35)														---	---	---	---
ZFYVE16	9765	broad.mit.edu	37	5	79751468	79751468	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:79751468delT	uc003kgr.3	+						ZFYVE16_uc003kgq.3_Intron|ZFYVE16_uc003kgs.3_Intron|ZFYVE16_uc003kgt.3_Intron|ZFYVE16_uc003kgu.3_5'UTR	NM_001105251	NP_001098721			zinc finger, FYVE domain containing 16						BMP signaling pathway|endosome transport|protein targeting to lysosome|regulation of endocytosis|vesicle organization	early endosome membrane	1-phosphatidylinositol binding|metal ion binding|phosphatidylinositol-3,4,5-trisphosphate binding|protein binding|protein transporter activity				0		Lung NSC(167;0.00428)|all_lung(232;0.00455)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;1.6e-46)|Epithelial(54;2.02e-41)|all cancers(79;5.05e-36)														---	---	---	---
ZFYVE16	9765	broad.mit.edu	37	5	79752753	79752753	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:79752753delT	uc003kgr.3	+						ZFYVE16_uc003kgq.3_Intron|ZFYVE16_uc003kgs.3_Intron|ZFYVE16_uc003kgt.3_Intron|ZFYVE16_uc003kgu.3_Intron	NM_001105251	NP_001098721			zinc finger, FYVE domain containing 16						BMP signaling pathway|endosome transport|protein targeting to lysosome|regulation of endocytosis|vesicle organization	early endosome membrane	1-phosphatidylinositol binding|metal ion binding|phosphatidylinositol-3,4,5-trisphosphate binding|protein binding|protein transporter activity				0		Lung NSC(167;0.00428)|all_lung(232;0.00455)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;1.6e-46)|Epithelial(54;2.02e-41)|all cancers(79;5.05e-36)														---	---	---	---
CKMT2	1160	broad.mit.edu	37	5	80538123	80538123	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:80538123delT	uc003khc.3	+						RNU5E_uc011cto.1_Intron|CKMT2_uc010jaq.2_Intron|CKMT2_uc003khd.3_Intron|uc003khe.1_Intron|uc003khf.1_Intron|uc003khg.1_Intron	NM_001825	NP_001816			sarcomeric mitochondrial creatine kinase						creatine metabolic process|muscle contraction	mitochondrial inner membrane	ATP binding|creatine kinase activity				0		Lung NSC(167;0.00475)|all_lung(232;0.00502)|Ovarian(174;0.0336)		OV - Ovarian serous cystadenocarcinoma(54;2.29e-44)|Epithelial(54;1.05e-38)|all cancers(79;4.15e-34)	Creatine(DB00148)													---	---	---	---
TMEM167A	153339	broad.mit.edu	37	5	82372898	82372898	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:82372898delT	uc003khx.3	-						XRCC4_uc003kia.1_5'Flank|XRCC4_uc003kib.2_5'Flank|XRCC4_uc003kid.2_5'Flank|XRCC4_uc003kic.2_5'Flank|XRCC4_uc003kie.2_5'Flank	NM_174909	NP_777569			transmembrane protein 167A precursor							Golgi membrane|integral to membrane					0																		---	---	---	---
RASA1	5921	broad.mit.edu	37	5	86644899	86644899	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:86644899delA	uc003kiw.2	+						RASA1_uc010jav.2_Intron|RASA1_uc003kix.2_Intron|RASA1_uc011ctv.1_Intron|RASA1_uc011ctw.1_Intron|RASA1_uc010jaw.2_Intron	NM_002890	NP_002881			RAS p21 protein activator 1 isoform 1						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)														---	---	---	---
LYSMD3	116068	broad.mit.edu	37	5	89821125	89821125	+	Intron	DEL	A	-	-	rs13361350	by1000genomes	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:89821125delA	uc003kjr.2	-						LYSMD3_uc010jaz.1_Intron|LYSMD3_uc003kjs.1_Intron	NM_198273	NP_938014			LysM, putative peptidoglycan-binding, domain						cell wall macromolecule catabolic process	integral to membrane					0		all_cancers(142;5.03e-09)|all_epithelial(76;1.23e-11)|Lung NSC(167;2.46e-05)|all_lung(232;3.25e-05)|Ovarian(174;0.00832)|Colorectal(57;0.122)|Breast(839;0.198)		OV - Ovarian serous cystadenocarcinoma(54;1.94e-31)|Epithelial(54;5.22e-26)|all cancers(79;2.42e-22)														---	---	---	---
Unknown	0	broad.mit.edu	37	5	96392019	96392019	+	IGR	DEL	G	-	-	rs78977991		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:96392019delG								LNPEP (26904 upstream) : LIX1 (35556 downstream)																																			---	---	---	---
YTHDC2	64848	broad.mit.edu	37	5	112927900	112927900	+	Intron	DEL	A	-	-	rs73242858	byFrequency;by1000genomes	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:112927900delA	uc003kqn.2	+							NM_022828	NP_073739			YTH domain containing 2								ATP binding|ATP-dependent helicase activity|nucleic acid binding			skin(2)|central_nervous_system(1)	3		all_cancers(142;7.69e-05)|all_epithelial(76;6.42e-07)|Colorectal(10;0.00278)|Prostate(80;0.00955)|Ovarian(225;0.0444)|Lung NSC(810;0.143)|all_lung(232;0.163)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;7.2e-08)|Epithelial(69;8.83e-08)|all cancers(49;6.9e-06)|COAD - Colon adenocarcinoma(37;0.0458)|Colorectal(14;0.0594)														---	---	---	---
Unknown	0	broad.mit.edu	37	5	120952552	120952552	+	IGR	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:120952552delA								PRR16 (929590 upstream) : FTMT (235098 downstream)																																			---	---	---	---
SRFBP1	153443	broad.mit.edu	37	5	121362853	121362853	+	3'UTR	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:121362853delA	uc003kst.1	+	8						NM_152546	NP_689759			serum response factor binding protein 1						regulation of transcription, DNA-dependent|transcription, DNA-dependent	perinuclear region of cytoplasm					0		all_cancers(142;0.0124)|Prostate(80;0.0322)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	OV - Ovarian serous cystadenocarcinoma(64;0.000227)|Epithelial(69;0.000365)|all cancers(49;0.00517)														---	---	---	---
Unknown	0	broad.mit.edu	37	5	126847110	126847110	+	IGR	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:126847110delA								MEGF10 (50202 upstream) : PRRC1 (6199 downstream)																																			---	---	---	---
RAPGEF6	51735	broad.mit.edu	37	5	130987787	130987787	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:130987787delA	uc003kvp.1	-						FNIP1_uc003kvs.1_Intron|FNIP1_uc003kvt.1_Intron	NM_016340	NP_057424			PDZ domain-containing guanine nucleotide						Ras protein signal transduction|regulation of GTPase activity|regulation of small GTPase mediated signal transduction	cytoplasm|plasma membrane	GTP-dependent protein binding|guanyl-nucleotide exchange factor activity|Ras GTPase binding			ovary(1)|lung(1)|central_nervous_system(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	Lung(113;0.0721)														---	---	---	---
C5orf15	56951	broad.mit.edu	37	5	133295086	133295086	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:133295086delT	uc003kyo.2	-							NM_020199	NP_064584			keratinocytes associated transmembrane protein 2							integral to membrane					0			KIRC - Kidney renal clear cell carcinoma(527;0.00806)|Kidney(363;0.02)															---	---	---	---
NME5	8382	broad.mit.edu	37	5	137474285	137474285	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:137474285delT	uc003lce.2	-						BRD8_uc003lcc.1_Intron	NM_003551	NP_003542			non-metastatic cells 5, protein expressed in						anti-apoptosis|CTP biosynthetic process|GTP biosynthetic process|multicellular organismal development|spermatid development|UTP biosynthetic process		ATP binding|nucleoside diphosphate kinase activity|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)															---	---	---	---
BRD8	10902	broad.mit.edu	37	5	137496760	137496760	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:137496760delA	uc003lcf.1	-						BRD8_uc003lcc.1_Intron|BRD8_uc011cyl.1_Intron|BRD8_uc003lcg.2_Intron|BRD8_uc003lci.2_Intron|BRD8_uc003lch.2_Intron|BRD8_uc011cym.1_Intron|BRD8_uc010jer.1_Intron|BRD8_uc011cyn.1_Intron	NM_139199	NP_631938			bromodomain containing 8 isoform 2						cell surface receptor linked signaling pathway|histone H2A acetylation|histone H4 acetylation|regulation of growth|regulation of transcription from RNA polymerase II promoter	mitochondrion|NuA4 histone acetyltransferase complex	sequence-specific DNA binding transcription factor activity|thyroid hormone receptor activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)															---	---	---	---
IK	3550	broad.mit.edu	37	5	140028327	140028328	+	Intron	DEL	TT	-	-	rs113938710		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140028327_140028328delTT	uc003lgq.2	+						NDUFA2_uc003lgp.2_5'Flank|IK_uc011czk.1_Intron	NM_006083	NP_006074			RED protein						cell-cell signaling|immune response	extracellular space|nucleus|soluble fraction				large_intestine(1)	1		all_hematologic(541;4.8e-07)|all_lung(500;0.000434)|Lung NSC(810;0.00161)|Breast(839;0.128)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)															---	---	---	---
KIAA0141	9812	broad.mit.edu	37	5	141312717	141312717	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:141312717delA	uc003lls.2	+						KIAA0141_uc003llt.2_Intron|KIAA0141_uc003llu.1_5'Flank	NM_001142603	NP_001136075			hypothetical protein LOC9812 precursor						apoptosis|regulation of caspase activity	mitochondrion	protein binding			skin(1)	1		all_hematologic(541;0.118)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)															---	---	---	---
YIPF5	81555	broad.mit.edu	37	5	143540155	143540155	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:143540155delA	uc003lnk.3	-						YIPF5_uc003lnl.3_Intron|YIPF5_uc010jgl.2_Intron	NM_001024947	NP_001020118			Yip1 domain family, member 5						protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|ER to Golgi transport vesicle|Golgi cisterna membrane|integral to membrane				ovary(1)|skin(1)	2		all_hematologic(541;0.118)	KIRC - Kidney renal clear cell carcinoma(527;0.00111)|Kidney(363;0.00176)															---	---	---	---
SH3RF2	153769	broad.mit.edu	37	5	145439261	145439261	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:145439261delA	uc003lnt.2	+						SH3RF2_uc011dbl.1_Intron|SH3RF2_uc011dbm.1_Intron|SH3RF2_uc003lnu.2_Intron|SH3RF2_uc011dbn.1_Intron|SH3RF2_uc011dbo.1_5'Flank	NM_152550	NP_689763			SH3 domain containing ring finger 2								ligase activity|protein phosphatase 1 binding|zinc ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)															---	---	---	---
DCTN4	51164	broad.mit.edu	37	5	150102363	150102364	+	Intron	DEL	TT	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:150102363_150102364delTT	uc003lsv.2	-						DCTN4_uc003lsu.2_Intron|DCTN4_uc010jhi.2_Intron	NM_016221	NP_057305			dynactin 4 (p62) isoform b							centrosome|nucleus	protein N-terminus binding			central_nervous_system(1)	1		Medulloblastoma(196;0.167)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)															---	---	---	---
RNF145	153830	broad.mit.edu	37	5	158596568	158596568	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:158596568delA	uc003lxp.2	-						RNF145_uc011ddy.1_Intron|RNF145_uc003lxo.1_Intron|RNF145_uc011ddz.1_Intron|RNF145_uc010jiq.1_Intron	NM_144726	NP_653327			ring finger protein 145							integral to membrane	zinc ion binding			ovary(3)|lung(1)|skin(1)	5	Renal(175;0.00196)	Medulloblastoma(196;0.0523)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)															---	---	---	---
SLU7	10569	broad.mit.edu	37	5	159831372	159831372	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:159831372delA	uc003lyg.2	-							NM_006425	NP_006416			step II splicing factor SLU7						alternative nuclear mRNA splicing, via spliceosome|nuclear mRNA 3'-splice site recognition	catalytic step 2 spliceosome|cytoplasm|nuclear speck|small nuclear ribonucleoprotein complex	pre-mRNA 3'-splice site binding|second spliceosomal transesterification activity|zinc ion binding			ovary(1)	1	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)															---	---	---	---
GABRA6	2559	broad.mit.edu	37	5	161115845	161115845	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:161115845delA	uc003lyu.2	+						GABRA6_uc003lyv.2_5'Flank	NM_000811	NP_000802			gamma-aminobutyric acid A receptor, alpha 6						gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity			ovary(7)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Renal(175;0.00259)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)		Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)										TCGA Ovarian(5;0.080)			---	---	---	---
DSP	1832	broad.mit.edu	37	6	7562607	7562607	+	Intron	DEL	T	-	-	rs147191716		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:7562607delT	uc003mxp.1	+						DSP_uc003mxq.1_Intron	NM_004415	NP_004406			desmoplakin isoform I						cellular component disassembly involved in apoptosis|keratinocyte differentiation|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural constituent of cytoskeleton			central_nervous_system(6)|ovary(2)|skin(1)	9	Ovarian(93;0.0584)	all_hematologic(90;0.236)		OV - Ovarian serous cystadenocarcinoma(45;0.000508)														---	---	---	---
ATXN1	6310	broad.mit.edu	37	6	16328093	16328093	+	Frame_Shift_Del	DEL	G	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:16328093delG	uc003nbt.2	-	8	1420	c.449delC	c.(448-450)CCAfs	p.P150fs	ATXN1_uc010jpi.2_Frame_Shift_Del_p.P150fs|ATXN1_uc010jpj.1_Intron	NM_000332	NP_000323	P54253	ATX1_HUMAN	ataxin 1	150					cell death|negative regulation of transcription, DNA-dependent|nuclear export|RNA processing	cytoplasm|nuclear inclusion body|nuclear matrix|nucleoplasm	identical protein binding|poly(G) RNA binding|poly(U) RNA binding|protein binding|protein C-terminus binding|protein self-association			skin(3)|central_nervous_system(1)	4	Breast(50;0.063)|Ovarian(93;0.0733)	all_hematologic(90;0.000682)|Ovarian(999;0.00973)																---	---	---	---
KIF13A	63971	broad.mit.edu	37	6	17788022	17788023	+	Frame_Shift_Ins	INS	-	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:17788022_17788023insT	uc003ncg.3	-	27	3450_3451	c.3345_3346insA	c.(3343-3348)AAAGTCfs	p.K1115fs	KIF13A_uc003ncf.2_Frame_Shift_Ins_p.K1102fs|KIF13A_uc003nch.3_Frame_Shift_Ins_p.K1115fs|KIF13A_uc003nci.3_Frame_Shift_Ins_p.K1102fs	NM_022113	NP_071396	Q9H1H9	KI13A_HUMAN	kinesin family member 13A isoform a	1115_1116	Potential.				cargo loading into vesicle|cell cycle|cytokinesis|endosome to lysosome transport|Golgi to plasma membrane protein transport|melanosome organization|plus-end-directed vesicle transport along microtubule	centrosome|endosome membrane|microtubule|midbody|trans-Golgi network membrane	ATP binding|microtubule motor activity|protein binding			large_intestine(2)|ovary(2)	4	Breast(50;0.0107)|Ovarian(93;0.016)	all_hematologic(90;0.125)	all cancers(50;0.0865)|Epithelial(50;0.0974)															---	---	---	---
KIF13A	63971	broad.mit.edu	37	6	17898424	17898424	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:17898424delA	uc003ncg.3	-						KIF13A_uc003ncf.2_Intron|KIF13A_uc003nch.3_Intron|KIF13A_uc003nci.3_Intron	NM_022113	NP_071396			kinesin family member 13A isoform a						cargo loading into vesicle|cell cycle|cytokinesis|endosome to lysosome transport|Golgi to plasma membrane protein transport|melanosome organization|plus-end-directed vesicle transport along microtubule	centrosome|endosome membrane|microtubule|midbody|trans-Golgi network membrane	ATP binding|microtubule motor activity|protein binding			large_intestine(2)|ovary(2)	4	Breast(50;0.0107)|Ovarian(93;0.016)	all_hematologic(90;0.125)	all cancers(50;0.0865)|Epithelial(50;0.0974)															---	---	---	---
GPLD1	2822	broad.mit.edu	37	6	24462816	24462816	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:24462816delA	uc003ned.1	-						GPLD1_uc010jpr.1_Intron|GPLD1_uc010jps.1_Intron	NM_001503	NP_001494			glycosylphosphatidylinositol specific							extracellular region	glycosylphosphatidylinositol phospholipase D activity			ovary(2)|kidney(1)	3																		---	---	---	---
HIST1H2AJ	8331	broad.mit.edu	37	6	27783366	27783366	+	5'Flank	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:27783366delT	uc003njn.1	-							NM_021066	NP_066544			histone cluster 1, H2aj						nucleosome assembly	nucleosome|nucleus	DNA binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	6	30665317	30665317	+	IGR	DEL	T	-	-	rs137943555		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:30665317delT								NRM (6259 upstream) : MDC1 (2268 downstream)																																			---	---	---	---
CLIC1	1192	broad.mit.edu	37	6	31700328	31700328	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:31700328delT	uc003nwr.2	-						DDAH2_uc003nwp.2_5'Flank|DDAH2_uc003nwq.2_5'Flank|CLIC1_uc003rje.2_Intron	NM_001288	NP_001279			chloride intracellular channel 1						signal transduction	brush border|chloride channel complex|cytoplasm|membrane fraction|nuclear membrane|plasma membrane|soluble fraction	protein binding|voltage-gated chloride channel activity			ovary(1)|central_nervous_system(1)	2																		---	---	---	---
CFB	629	broad.mit.edu	37	6	31915884	31915884	+	Intron	DEL	G	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:31915884delG	uc003nyj.3	+						CFB_uc011dor.1_Intron|CFB_uc003nyi.2_Intron	NM_001710	NP_001701			complement factor B preproprotein						complement activation, alternative pathway|proteolysis	extracellular region|plasma membrane	complement binding|serine-type endopeptidase activity			skin(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	6	32210328	32210331	+	IGR	DEL	TTCT	-	-	rs71811489		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:32210328_32210331delTTCT								NOTCH4 (18484 upstream) : C6orf10 (45972 downstream)																																			---	---	---	---
TAP1	6890	broad.mit.edu	37	6	32821048	32821048	+	Frame_Shift_Del	DEL	G	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:32821048delG	uc003ocg.2	-	1	701	c.546delC	c.(544-546)CCCfs	p.P182fs	TAP1_uc011dqi.1_5'Flank|PSMB9_uc011dqj.1_5'Flank|PSMB9_uc003sga.2_5'Flank	NM_000593	NP_000584	Q03518	TAP1_HUMAN	transporter 1, ATP-binding cassette, sub-family	182	Lumenal (Potential).				antigen processing and presentation of endogenous peptide antigen via MHC class I|cytosol to ER transport|intracellular transport of viral proteins in host cell|positive regulation of T cell mediated cytotoxicity	cytosol|plasma membrane|TAP complex	ADP binding|ATP binding|MHC class I protein binding|oligopeptide-transporting ATPase activity|peptide antigen binding|protein homodimerization activity|TAP1 binding|TAP2 binding|tapasin binding			skin(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	6	34158925	34158926	+	IGR	DEL	AA	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:34158925_34158926delAA								GRM4 (45056 upstream) : HMGA1 (45651 downstream)																																			---	---	---	---
DEF6	50619	broad.mit.edu	37	6	35287231	35287231	+	Intron	DEL	C	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:35287231delC	uc003okk.2	+						DEF6_uc010jvs.2_Intron|DEF6_uc010jvt.2_Intron	NM_022047	NP_071330			differentially expressed in FDCP 6 homolog							cytoplasm|nucleus|plasma membrane					0																		---	---	---	---
RNF8	9025	broad.mit.edu	37	6	37342573	37342576	+	Intron	DEL	AGAG	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:37342573_37342576delAGAG	uc003onq.3	+						RNF8_uc003onr.3_Intron|RNF8_uc011dtx.1_Intron	NM_003958	NP_003949			ring finger protein 8 isoform 1						cell division|double-strand break repair|histone H2A ubiquitination|histone H2B ubiquitination|mitosis|positive regulation of DNA repair|response to ionizing radiation	midbody|nucleus|ubiquitin ligase complex	chromatin binding|histone binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1																		---	---	---	---
POLH	5429	broad.mit.edu	37	6	43572906	43572907	+	Intron	INS	-	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:43572906_43572907insA	uc003ovq.3	+						POLH_uc010jyu.2_Intron|POLH_uc011dvl.1_Intron|POLH_uc003ovr.3_Intron	NM_006502	NP_006493			DNA-directed DNA polymerase eta						DNA replication|DNA synthesis involved in DNA repair|regulation of DNA repair|response to UV-C	cytoplasm|nucleoplasm	damaged DNA binding|DNA-directed DNA polymerase activity|metal ion binding			breast(2)	2	all_cancers(18;1.89e-05)|Lung NSC(15;0.00161)|all_lung(25;0.004)		all cancers(41;0.000753)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|STAD - Stomach adenocarcinoma(11;0.0826)|OV - Ovarian serous cystadenocarcinoma(102;0.167)										DNA_polymerases_(catalytic_subunits)	Xeroderma_Pigmentosum				---	---	---	---
Unknown	0	broad.mit.edu	37	6	50167932	50167932	+	IGR	DEL	G	-	-	rs13202603	by1000genomes	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:50167932delG								DEFB112 (151568 upstream) : TFAP2D (513325 downstream)																																			---	---	---	---
TFAP2B	7021	broad.mit.edu	37	6	50805492	50805492	+	Intron	DEL	A	-	-	rs35941682		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:50805492delA	uc003pag.2	+							NM_003221	NP_003212			transcription factor AP-2 beta						nervous system development|positive regulation of transcription from RNA polymerase II promoter		protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity				0	Lung NSC(77;0.156)																	---	---	---	---
ICK	22858	broad.mit.edu	37	6	52883379	52883379	+	Intron	DEL	G	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:52883379delG	uc003pbh.2	-						ICK_uc003pbi.2_Intron|ICK_uc003pbj.2_Intron	NM_016513	NP_057597			intestinal cell kinase						intracellular protein kinase cascade|multicellular organismal development	cytosol|nucleus	ATP binding|cyclin-dependent protein kinase activity|magnesium ion binding			ovary(1)|large_intestine(1)|lung(1)|kidney(1)|central_nervous_system(1)	5	Lung NSC(77;0.103)																	---	---	---	---
HCRTR2	3062	broad.mit.edu	37	6	55128706	55128706	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:55128706delT	uc003pcl.2	+						HCRTR2_uc010jzv.2_Intron|HCRTR2_uc010jzw.1_Frame_Shift_Del_p.L218fs	NM_001526	NP_001517			orexin receptor 2						feeding behavior	integral to plasma membrane	neuropeptide receptor activity			ovary(2)|lung(2)|upper_aerodigestive_tract(1)|breast(1)	6	Lung NSC(77;0.107)|Renal(3;0.122)		LUSC - Lung squamous cell carcinoma(124;0.23)															---	---	---	---
PRIM2	5558	broad.mit.edu	37	6	57183175	57183175	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57183175delT	uc003pdx.2	+						PRIM2_uc003pdv.1_Intron|PRIM2_uc003pdw.2_Intron	NM_000947	NP_000938			DNA primase polypeptide 2						DNA replication, synthesis of RNA primer|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|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|nucleoplasm	4 iron, 4 sulfur cluster binding|DNA binding|DNA primase activity|metal ion binding				0				Colorectal(6;0.041)|READ - Rectum adenocarcinoma(7;0.193)														---	---	---	---
PHF3	23469	broad.mit.edu	37	6	64356790	64356790	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:64356790delT	uc003pep.1	+						PHF3_uc010kaf.1_Intron|PHF3_uc003pem.2_Intron|PHF3_uc010kag.1_Intron|PHF3_uc010kah.1_Intron|PHF3_uc003pen.2_Intron|PHF3_uc011dxs.1_Intron|PHF3_uc003peo.2_Intron	NM_015153	NP_055968			PHD finger protein 3						multicellular organismal development|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(3)|lung(1)|skin(1)	5	all_cancers(3;0.0241)|all_epithelial(2;0.00306)|Lung NSC(77;0.121)		LUSC - Lung squamous cell carcinoma(74;0.0644)|Lung(124;0.148)															---	---	---	---
PHF3	23469	broad.mit.edu	37	6	64419319	64419320	+	Intron	DEL	TT	-	-	rs34108196		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:64419319_64419320delTT	uc003pep.1	+						PHF3_uc003pen.2_Intron|PHF3_uc011dxs.1_Intron	NM_015153	NP_055968			PHD finger protein 3						multicellular organismal development|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(3)|lung(1)|skin(1)	5	all_cancers(3;0.0241)|all_epithelial(2;0.00306)|Lung NSC(77;0.121)		LUSC - Lung squamous cell carcinoma(74;0.0644)|Lung(124;0.148)															---	---	---	---
BAI3	577	broad.mit.edu	37	6	69348994	69348994	+	Frame_Shift_Del	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:69348994delA	uc003pev.3	+	3	875	c.427delA	c.(427-429)AAAfs	p.K143fs	BAI3_uc010kak.2_Frame_Shift_Del_p.K143fs	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	143	CUB.|Extracellular (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(27)|ovary(8)|skin(6)|pancreas(4)|central_nervous_system(3)|urinary_tract(1)|breast(1)	50		all_lung(197;0.212)																---	---	---	---
SNX14	57231	broad.mit.edu	37	6	86235967	86235967	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:86235967delA	uc003pkr.2	-						SNX14_uc003pkp.2_Intron|SNX14_uc003pkq.2_Intron|SNX14_uc011dzg.1_Intron|SNX14_uc003pks.2_Intron|SNX14_uc003pkt.2_Intron	NM_153816	NP_722523			sorting nexin 14 isoform a						cell communication|protein transport	integral to membrane	phosphatidylinositol binding|signal transducer activity				0		all_cancers(76;4.83e-07)|Acute lymphoblastic leukemia(125;3.3e-08)|Prostate(29;2.55e-07)|all_hematologic(105;3.66e-05)|all_epithelial(107;0.000695)|Lung NSC(302;0.197)|all_lung(197;0.24)		BRCA - Breast invasive adenocarcinoma(108;0.0423)														---	---	---	---
CASP8AP2	9994	broad.mit.edu	37	6	90576391	90576391	+	Frame_Shift_Del	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:90576391delA	uc003pnr.2	+	8	3578	c.3382delA	c.(3382-3384)AAAfs	p.K1128fs	CASP8AP2_uc003pns.2_Intron|CASP8AP2_uc003pnt.2_Frame_Shift_Del_p.K1128fs|CASP8AP2_uc011dzz.1_Frame_Shift_Del_p.K1128fs	NM_001137667	NP_001131139	Q9UKL3	C8AP2_HUMAN	caspase 8 associated protein 2	1128					cell cycle|cellular response to mechanical stimulus|induction of apoptosis via death domain receptors|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	cytoplasm|nucleus	caspase activator activity|death receptor binding|transcription corepressor activity			ovary(2)	2		all_cancers(76;3.64e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.45e-10)|all_hematologic(105;7.74e-07)|all_epithelial(107;4.69e-05)|Lung NSC(302;0.238)		BRCA - Breast invasive adenocarcinoma(108;0.0953)														---	---	---	---
KIAA0776	23376	broad.mit.edu	37	6	96974386	96974386	+	Intron	DEL	A	-	-	rs9320194	by1000genomes	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:96974386delA	uc003por.2	+						KIAA0776_uc010kck.2_Intron	NM_015323	NP_056138			hypothetical protein LOC23376						negative regulation of NF-kappaB transcription factor activity|negative regulation of protein ubiquitination|protein ufmylation	endoplasmic reticulum|nucleus	protein binding|UFM1 conjugating enzyme activity			ovary(1)	1		all_cancers(76;5.83e-05)|Acute lymphoblastic leukemia(125;7.02e-10)|all_hematologic(75;1.23e-06)|all_epithelial(107;0.0604)|Colorectal(196;0.0721)		BRCA - Breast invasive adenocarcinoma(108;0.0934)														---	---	---	---
WASF1	8936	broad.mit.edu	37	6	110426584	110426584	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:110426584delA	uc003ptv.1	-						WASF1_uc003ptw.1_Intron|WASF1_uc003ptx.1_Intron|WASF1_uc003pty.1_Intron	NM_003931	NP_003922			Wiskott-Aldrich syndrome protein family member						actin filament polymerization|cellular component movement	actin cytoskeleton	actin binding				0		all_cancers(87;1.18e-05)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.00159)|Colorectal(196;0.0488)		OV - Ovarian serous cystadenocarcinoma(136;0.0364)|Epithelial(106;0.051)|all cancers(137;0.0687)														---	---	---	---
SLC16A10	117247	broad.mit.edu	37	6	111494227	111494227	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:111494227delT	uc003pus.2	+						SLC16A10_uc003pur.3_Intron	NM_018593	NP_061063			solute carrier family 16, member 10						aromatic amino acid transport|cellular nitrogen compound metabolic process|ion transport	basolateral plasma membrane|integral to membrane	amino acid transmembrane transporter activity				0		all_cancers(87;0.00172)|Acute lymphoblastic leukemia(125;2.27e-07)|all_hematologic(75;1.38e-05)|all_epithelial(87;0.0313)|Colorectal(196;0.0466)		OV - Ovarian serous cystadenocarcinoma(136;0.0703)|Epithelial(106;0.12)|all cancers(137;0.132)														---	---	---	---
SMPDL3A	10924	broad.mit.edu	37	6	123125088	123125088	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:123125088delT	uc003pzg.2	+						SMPDL3A_uc003pzh.2_Intron	NM_006714	NP_006705			acid sphingomyelinase-like phosphodiesterase 3A						sphingomyelin catabolic process	extracellular space	hydrolase activity, acting on glycosyl bonds|protein binding|sphingomyelin phosphodiesterase activity				0				GBM - Glioblastoma multiforme(226;0.236)														---	---	---	---
NCOA7	135112	broad.mit.edu	37	6	126215915	126215915	+	Intron	DEL	T	-	-	rs111496290		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:126215915delT	uc010kes.2	+						NCOA7_uc003qae.3_Intron|NCOA7_uc003qah.2_Intron|NCOA7_uc003qai.2_Intron|NCOA7_uc010ket.2_Intron	NM_181782	NP_861447			nuclear receptor coactivator 7 isoform 1						cell wall macromolecule catabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			lung(2)|ovary(1)	3				UCEC - Uterine corpus endometrioid carcinoma (4;0.0803)|GBM - Glioblastoma multiforme(226;0.0193)|all cancers(137;0.237)														---	---	---	---
THEMIS	387357	broad.mit.edu	37	6	128176101	128176101	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:128176101delT	uc003qbi.2	-						THEMIS_uc010kfa.2_Intron|THEMIS_uc011ebt.1_Intron|THEMIS_uc010kfb.2_Intron	NM_001010923	NP_001010923			thymocyte selection pathway associated isoform						negative T cell selection|positive T cell selection|T cell receptor signaling pathway	cytoplasm|nucleus				ovary(2)|skin(2)	4																		---	---	---	---
ENPP1	5167	broad.mit.edu	37	6	132189068	132189068	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:132189068delT	uc011ecf.1	+						ENPP1_uc003qcy.2_Intron	NM_006208	NP_006199			ectonucleotide pyrophosphatase/phosphodiesterase						3'-phosphoadenosine 5'-phosphosulfate metabolic process|biomineral tissue development|cellular phosphate ion homeostasis|cellular response to insulin stimulus|generation of precursor metabolites and energy|immune response|inorganic diphosphate transport|negative regulation of cell growth|negative regulation of fat cell differentiation|negative regulation of glucose import|negative regulation of glycogen biosynthetic process|negative regulation of insulin receptor signaling pathway|negative regulation of protein autophosphorylation|nucleoside triphosphate catabolic process|phosphate metabolic process|sequestering of triglyceride|water-soluble vitamin metabolic process	basolateral plasma membrane|cell surface|extracellular space|integral to membrane	ATP binding|insulin receptor binding|metal ion binding|nucleic acid binding|nucleoside-triphosphate diphosphatase activity|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|protein homodimerization activity|scavenger receptor activity			upper_aerodigestive_tract(2)|ovary(2)	4	Breast(56;0.0505)			GBM - Glioblastoma multiforme(226;0.0216)|OV - Ovarian serous cystadenocarcinoma(155;0.022)	Amifostine(DB01143)|Ribavirin(DB00811)													---	---	---	---
MAP3K5	4217	broad.mit.edu	37	6	136878752	136878752	+	3'UTR	DEL	T	-	-	rs71747329		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:136878752delT	uc003qhc.2	-	30					MAP3K5_uc011edj.1_3'UTR	NM_005923	NP_005914			mitogen-activated protein kinase kinase kinase						activation of JUN kinase activity|activation of MAPKK activity|cellular response to hydrogen peroxide|induction of apoptosis by extracellular signals|interspecies interaction between organisms		ATP binding|caspase activator activity|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein phosphatase binding			ovary(2)|skin(2)|lung(1)	5	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00137)|OV - Ovarian serous cystadenocarcinoma(155;0.00569)														---	---	---	---
KIAA1244	57221	broad.mit.edu	37	6	138628599	138628599	+	Intron	DEL	A	-	-	rs80147113		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:138628599delA	uc003qhu.2	+							NM_020340	NP_065073			brefeldin A-inhibited guanine						regulation of ARF protein signal transduction	cytoplasm|integral to membrane	ARF guanyl-nucleotide exchange factor activity			ovary(1)|skin(1)	2	Breast(32;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00102)|GBM - Glioblastoma multiforme(68;0.00259)														---	---	---	---
LTV1	84946	broad.mit.edu	37	6	144181842	144181842	+	Intron	DEL	A	-	-	rs138724144	by1000genomes	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:144181842delA	uc003qjs.2	+						LTV1_uc003qju.1_Intron|C6orf94_uc010khj.2_Intron	NM_032860	NP_116249			LTV1 homolog											ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(155;2.72e-06)|GBM - Glioblastoma multiforme(68;0.0372)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	149916083	149916084	+	IGR	INS	-	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:149916083_149916084insA								C6orf72 (4016 upstream) : KATNA1 (88 downstream)																																			---	---	---	---
MTHFD1L	25902	broad.mit.edu	37	6	151413789	151413789	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:151413789delT	uc003qob.2	+						MTHFD1L_uc003qoc.2_Intron	NM_015440	NP_056255			methylenetetrahydrofolate dehydrogenase (NADP+						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)														---	---	---	---
ARID1B	57492	broad.mit.edu	37	6	157502396	157502396	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:157502396delT	uc003qqn.2	+						ARID1B_uc003qqo.2_Intron|ARID1B_uc003qqp.2_Intron|ARID1B_uc010kjl.2_Intron	NM_017519	NP_059989			AT rich interactive domain 1B (SWI1-like)						chromatin-mediated maintenance of transcription|nervous system development|transcription, DNA-dependent	SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			ovary(1)|breast(1)	2		Breast(66;0.000162)|Ovarian(120;0.0265)		OV - Ovarian serous cystadenocarcinoma(65;3.19e-17)|BRCA - Breast invasive adenocarcinoma(81;1.01e-05)														---	---	---	---
SYTL3	94120	broad.mit.edu	37	6	159146359	159146360	+	Intron	DEL	GT	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:159146359_159146360delGT	uc003qrp.2	+						SYTL3_uc011efp.1_Intron|SYTL3_uc003qro.2_Intron|SYTL3_uc003qrq.2_Intron|SYTL3_uc003qrr.2_Intron|SYTL3_uc003qrs.2_Intron|SYTL3_uc011efq.1_Intron	NM_001009991	NP_001009991			synaptotagmin-like 3						intracellular protein transport	endomembrane system|membrane	Rab GTPase binding				0		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;1.54e-17)|BRCA - Breast invasive adenocarcinoma(81;8.24e-06)														---	---	---	---
TCP1	6950	broad.mit.edu	37	6	160200861	160200861	+	Intron	DEL	A	-	-	rs147097290	by1000genomes	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:160200861delA	uc003qsr.2	-						TCP1_uc003qss.2_Intron|TCP1_uc010kjz.2_Intron|TCP1_uc003qst.2_Intron	NM_030752	NP_110379			T-complex protein 1 isoform a						'de novo' posttranslational protein folding|tubulin complex assembly	cell junction|Golgi apparatus	ATP binding|unfolded protein binding			breast(1)	1		Breast(66;1.53e-05)|Ovarian(120;0.024)		OV - Ovarian serous cystadenocarcinoma(65;4.05e-20)|BRCA - Breast invasive adenocarcinoma(81;1.1e-06)														---	---	---	---
MRPL18	29074	broad.mit.edu	37	6	160219059	160219059	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:160219059delT	uc003qsw.3	+						MRPL18_uc010kkb.2_Intron|PNLDC1_uc003qsx.1_5'Flank|PNLDC1_uc003qsy.1_5'Flank	NM_014161	NP_054880			mitochondrial ribosomal protein L18 precursor						rRNA transport|translation	mitochondrial ribosome	5S rRNA binding|structural constituent of ribosome				0		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;1.44e-18)|BRCA - Breast invasive adenocarcinoma(81;5.79e-06)														---	---	---	---
QKI	9444	broad.mit.edu	37	6	163982885	163982885	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:163982885delT	uc003qui.2	+						QKI_uc003que.2_Intron|QKI_uc003quf.2_Intron|QKI_uc003qug.2_Intron|QKI_uc003quh.2_Intron|QKI_uc003quj.2_Intron	NM_006775	NP_006766			quaking homolog, KH domain RNA binding isoform						mRNA processing|mRNA transport|regulation of translation|RNA splicing	cytoplasm|nucleus|plasma membrane	RNA binding|SH3 domain binding			large_intestine(1)|ovary(1)	2		Breast(66;5e-05)|Prostate(117;0.0235)|all_neural(5;0.0416)|Ovarian(120;0.0448)|Glioma(2;0.203)		all cancers(1;4.4e-46)|OV - Ovarian serous cystadenocarcinoma(33;6.91e-23)|GBM - Glioblastoma multiforme(1;2.94e-19)|BRCA - Breast invasive adenocarcinoma(81;1.49e-06)|Kidney(3;0.000199)|KIRC - Kidney renal clear cell carcinoma(3;0.000234)														---	---	---	---
WDR27	253769	broad.mit.edu	37	6	170070554	170070554	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:170070554delA	uc003qwx.2	-						WDR27_uc010kkw.1_Intron|WDR27_uc003qwy.2_Intron|WDR27_uc011egw.1_Intron|WDR27_uc010kkx.2_3'UTR					RecName: Full=WD repeat-containing protein 27;											pancreas(1)	1		Breast(66;1.53e-05)|Ovarian(120;0.216)		OV - Ovarian serous cystadenocarcinoma(33;6.48e-20)|BRCA - Breast invasive adenocarcinoma(81;3.56e-07)|GBM - Glioblastoma multiforme(31;0.00168)														---	---	---	---
PMS2CL	441194	broad.mit.edu	37	7	6781234	6781234	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:6781234delT	uc003squ.2	+						PMS2CL_uc003sqv.1_Intron					Homo sapiens PMS2CL mRNA for PMS2-C terminal -like, complete cds.												0																		---	---	---	---
COL28A1	340267	broad.mit.edu	37	7	7557619	7557619	+	Intron	DEL	A	-	-	rs67184564		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:7557619delA	uc003src.1	-						COL28A1_uc011jxe.1_Intron|COL28A1_uc003srd.2_5'Flank	NM_001037763	NP_001032852			collagen, type XXVIII precursor						cell adhesion	basement membrane|collagen	serine-type endopeptidase inhibitor activity			skin(3)	3		Ovarian(82;0.0789)		UCEC - Uterine corpus endometrioid carcinoma (126;0.228)														---	---	---	---
ISPD	729920	broad.mit.edu	37	7	16317860	16317860	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:16317860delA	uc010ktx.2	-						ISPD_uc010kty.2_Intron	NM_001101426	NP_001094896			notch1-induced protein isoform a						isoprenoid biosynthetic process		nucleotidyltransferase activity			ovary(1)	1															Multiple Myeloma(15;0.18)			---	---	---	---
Unknown	0	broad.mit.edu	37	7	16750218	16750219	+	IGR	INS	-	GAAG	GAAG	rs146923436	by1000genomes	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:16750218_16750219insGAAG								BZW2 (4070 upstream) : TSPAN13 (43132 downstream)																																			---	---	---	---
AHR	196	broad.mit.edu	37	7	17379998	17379998	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:17379998delT	uc011jxz.1	+						AHR_uc003stt.3_Intron	NM_001621	NP_001612			aryl hydrocarbon receptor precursor						apoptosis|blood vessel development|cell cycle|regulation of B cell proliferation|response to stress|transcription from RNA polymerase II promoter|xenobiotic metabolic process	cytosolic aryl hydrocarbon receptor complex|transcription factor complex	Hsp90 protein binding|ligand-dependent nuclear receptor activity|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding			urinary_tract(1)|kidney(1)|pancreas(1)	3	Lung NSC(10;0.0392)|all_lung(11;0.0754)																	---	---	---	---
IGF2BP3	10643	broad.mit.edu	37	7	23436136	23436136	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:23436136delA	uc003swg.2	-							NM_006547	NP_006538			insulin-like growth factor 2 mRNA binding						anatomical structure morphogenesis|negative regulation of translation|translation	cytosol|nucleus	mRNA 3'-UTR binding|mRNA 5'-UTR binding|nucleotide binding|protein binding|translation regulator activity			ovary(2)	2																		---	---	---	---
C7orf46	340277	broad.mit.edu	37	7	23741656	23741656	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:23741656delT	uc003swo.3	+						C7orf46_uc003swq.3_Intron|C7orf46_uc003swr.3_Intron|C7orf46_uc003swp.3_Intron|C7orf46_uc010kup.2_Intron	NM_199136	NP_954587			hypothetical protein LOC340277 isoform 1												0																		---	---	---	---
OSBPL3	26031	broad.mit.edu	37	7	24901151	24901152	+	Intron	DEL	CT	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:24901151_24901152delCT	uc003sxf.2	-						OSBPL3_uc003sxd.2_Intron|OSBPL3_uc003sxe.2_Intron|OSBPL3_uc003sxg.2_Intron|OSBPL3_uc003sxh.2_Intron|OSBPL3_uc003sxi.2_Intron|OSBPL3_uc003sxj.1_Intron|OSBPL3_uc003sxk.1_Intron	NM_015550	NP_056365			oxysterol-binding protein-like protein 3 isoform						lipid transport		lipid binding|protein binding			skin(1)	1																		---	---	---	---
HOXA2	3199	broad.mit.edu	37	7	27142248	27142248	+	5'UTR	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:27142248delT	uc003syh.2	-	1						NM_006735	NP_006726			homeobox A2							nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2																		---	---	---	---
OGDH	4967	broad.mit.edu	37	7	44663807	44663807	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:44663807delA	uc003tln.2	+						OGDH_uc003tlm.2_Intron|OGDH_uc011kbx.1_Intron|OGDH_uc011kby.1_Intron|OGDH_uc003tlp.2_5'Flank|OGDH_uc011kbz.1_5'Flank	NM_002541	NP_002532			oxoglutarate dehydrogenase isoform 1 precursor						glycolysis|lysine catabolic process|tricarboxylic acid cycle	mitochondrial matrix|mitochondrial membrane	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			upper_aerodigestive_tract(1)|ovary(1)	2					NADH(DB00157)													---	---	---	---
STAG3L4	64940	broad.mit.edu	37	7	66772495	66772495	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:66772495delT	uc003tvt.3	+						STAG3L4_uc010laj.2_Intron	NM_022906	NP_075057			stromal antigen 3-like 4												0		Lung NSC(55;0.0839)|all_lung(88;0.181)																---	---	---	---
FKBP6	8468	broad.mit.edu	37	7	72756609	72756610	+	Intron	INS	-	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:72756609_72756610insA	uc003tya.2	+						FKBP6_uc003twz.2_Intron|FKBP6_uc011kew.1_Intron	NM_003602	NP_003593			FK506 binding protein 6 isoform a						protein folding	membrane	FK506 binding|peptidyl-prolyl cis-trans isomerase activity				0		Lung NSC(55;0.0908)|all_lung(88;0.198)														OREG0018106	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
GTF2I	2969	broad.mit.edu	37	7	74129040	74129040	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:74129040delT	uc003uau.2	+						GTF2I_uc003uat.2_Intron|GTF2I_uc003uav.2_Intron|GTF2I_uc003uaw.2_Intron|GTF2I_uc003uay.2_Intron|GTF2I_uc003uax.2_Intron|uc003uaz.2_Intron	NM_032999	NP_127492			general transcription factor IIi isoform 1						negative regulation of angiogenesis|signal transduction|transcription initiation from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0																		---	---	---	---
RHBDD2	57414	broad.mit.edu	37	7	75512837	75512837	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:75512837delA	uc003udw.1	+						RHBDD2_uc003udv.1_Intron	NM_001040456	NP_001035546			rhomboid domain containing 2 isoform a							integral to membrane	serine-type endopeptidase activity				0																		---	---	---	---
DBF4	10926	broad.mit.edu	37	7	87516630	87516630	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:87516630delT	uc003ujf.1	+						DBF4_uc003ujh.1_Intron|DBF4_uc003ujg.1_Intron|DBF4_uc011khf.1_Intron	NM_006716	NP_006707			activator of S phase kinase						cell cycle checkpoint|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle	nucleoplasm	enzyme activator activity|nucleic acid binding|protein binding|zinc ion binding			lung(2)	2	Esophageal squamous(14;0.00202)	Breast(660;0.0334)																---	---	---	---
C7orf63	79846	broad.mit.edu	37	7	89939466	89939466	+	Frame_Shift_Del	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:89939466delA	uc010lep.2	+	23	2991	c.2740delA	c.(2740-2742)AAAfs	p.K914fs	C7orf63_uc011khj.1_Frame_Shift_Del_p.K896fs|C7orf63_uc011khk.1_Frame_Shift_Del_p.K430fs	NM_001039706	NP_001034795	A5D8W1	CG063_HUMAN	hypothetical protein LOC79846 isoform 1	914							binding			ovary(1)	1																		---	---	---	---
CDK14	5218	broad.mit.edu	37	7	90675099	90675099	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:90675099delA	uc003uky.2	+						CDK14_uc003ukz.1_Intron|CDK14_uc010les.1_Intron|CDK14_uc011khl.1_Intron	NM_012395	NP_036527			PFTAIRE protein kinase 1						cell division|G2/M transition of mitotic cell cycle|regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytoplasmic cyclin-dependent protein kinase holoenzyme complex|nucleus|plasma membrane	ATP binding|cyclin binding|cyclin-dependent protein kinase activity			lung(3)|ovary(1)	4																		---	---	---	---
ANKIB1	54467	broad.mit.edu	37	7	92000724	92000725	+	Intron	DEL	TT	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:92000724_92000725delTT	uc003ulw.2	+						ANKIB1_uc010lew.1_5'Flank	NM_019004	NP_061877			ankyrin repeat and IBR domain containing 1								protein binding|zinc ion binding			lung(1)	1	all_cancers(62;2.06e-09)|all_epithelial(64;9.24e-09)|Breast(17;0.0034)|all_lung(186;0.0509)|Lung NSC(181;0.0692)		STAD - Stomach adenocarcinoma(171;6.16e-05)|all cancers(6;0.00183)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)															---	---	---	---
CCDC132	55610	broad.mit.edu	37	7	92883251	92883251	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:92883251delA	uc003umo.2	+						CCDC132_uc003umq.2_Intron|CCDC132_uc003ump.2_Intron|CCDC132_uc003umr.2_Intron|CCDC132_uc011khz.1_Intron|CCDC132_uc003umn.2_Intron	NM_017667	NP_060137			coiled-coil domain containing 132 isoform a												0	all_cancers(62;2.64e-11)|all_epithelial(64;1.4e-10)|Breast(17;0.000675)|Lung NSC(181;0.0618)|all_lung(186;0.0837)		STAD - Stomach adenocarcinoma(171;0.000302)															---	---	---	---
C7orf43	55262	broad.mit.edu	37	7	99755419	99755419	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:99755419delA	uc003utr.2	-						C7orf43_uc010lgo.2_5'Flank|C7orf43_uc010lgp.2_5'Flank|C7orf43_uc011kjj.1_5'Flank|C7orf43_uc003uts.2_Intron	NM_018275	NP_060745			hypothetical protein LOC55262												0	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)															OREG0018198	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
Unknown	0	broad.mit.edu	37	7	109638521	109638521	+	IGR	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:109638521delT								EIF3IP1 (38251 upstream) : IMMP2L (664589 downstream)																																			---	---	---	---
WASL	8976	broad.mit.edu	37	7	123334968	123334968	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:123334968delA	uc003vkz.2	-							NM_003941	NP_003932			Wiskott-Aldrich syndrome gene-like protein						actin polymerization or depolymerization|axon guidance|cellular component movement|nitric oxide metabolic process|protein complex assembly|regulation of nitric-oxide synthase activity|regulation of transcription, DNA-dependent|transcription, DNA-dependent	actin cytoskeleton|cytosol|nucleolus|plasma membrane	actin binding|small GTPase regulator activity				0																		---	---	---	---
MEST	4232	broad.mit.edu	37	7	130139661	130139661	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:130139661delA	uc003vqg.2	+						MEST_uc003vqc.2_Intron|MEST_uc003vqd.2_Intron|MEST_uc003vqf.2_Intron|MEST_uc011kph.1_Intron|MEST_uc010lmg.2_Intron	NM_002402	NP_002393			mesoderm specific transcript isoform a						mesoderm development	endoplasmic reticulum membrane|integral to membrane	hydrolase activity|protein binding			ovary(2)	2	Melanoma(18;0.0435)																	---	---	---	---
COPG2	26958	broad.mit.edu	37	7	130148869	130148870	+	Intron	INS	-	A	A	rs74631784	by1000genomes	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:130148869_130148870insA	uc003vqh.1	-							NM_012133	NP_036265			coatomer protein complex, subunit gamma 2						intra-Golgi vesicle-mediated transport|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat	protein binding|structural molecule activity				0	Melanoma(18;0.0435)																	---	---	---	---
LRGUK	136332	broad.mit.edu	37	7	133848045	133848045	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:133848045delT	uc003vrm.1	+							NM_144648	NP_653249			leucine-rich repeats and guanylate kinase domain								ATP binding|kinase activity			lung(2)|skin(2)|kidney(1)	5																		---	---	---	---
WDR91	29062	broad.mit.edu	37	7	134880706	134880707	+	Intron	DEL	AA	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:134880706_134880707delAA	uc003vsp.2	-						WDR91_uc010lmq.2_Intron|WDR91_uc010lmr.2_Intron	NM_014149	NP_054868			WD repeat domain 91											breast(2)|ovary(1)|skin(1)	4																		---	---	---	---
TRIM24	8805	broad.mit.edu	37	7	138265053	138265053	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:138265053delT	uc003vuc.2	+						TRIM24_uc003vub.2_Intron	NM_015905	NP_056989			transcriptional intermediary factor 1 alpha						cellular response to estrogen stimulus|protein catabolic process|regulation of apoptosis|regulation of protein stability|transcription from RNA polymerase II promoter	cytoplasm	chromatin binding|estrogen response element binding|histone acetyl-lysine binding|p53 binding|transcription coactivator activity|ubiquitin-protein ligase activity|zinc ion binding			central_nervous_system(3)|ovary(2)|stomach(1)|breast(1)|skin(1)	8																		---	---	---	---
DENND2A	27147	broad.mit.edu	37	7	140273783	140273783	+	Frame_Shift_Del	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:140273783delA	uc010lnj.2	-	4	1416	c.1271delT	c.(1270-1272)TTCfs	p.F424fs	DENND2A_uc011kre.1_RNA|DENND2A_uc010lnk.2_Frame_Shift_Del_p.F424fs|DENND2A_uc003vvw.2_Frame_Shift_Del_p.F424fs|DENND2A_uc003vvx.2_Frame_Shift_Del_p.F424fs	NM_015689	NP_056504	Q9ULE3	DEN2A_HUMAN	DENN/MADD domain containing 2A	424										ovary(3)|breast(1)	4	Melanoma(164;0.00956)																	---	---	---	---
ZNF398	57541	broad.mit.edu	37	7	148863161	148863161	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:148863161delA	uc003wfl.2	+						ZNF398_uc011kul.1_Intron|ZNF398_uc011kum.1_Intron	NM_170686	NP_733787			zinc finger 398 isoform a						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)															---	---	---	---
NCAPG2	54892	broad.mit.edu	37	7	158480143	158480143	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:158480143delA	uc003wnv.1	-						NCAPG2_uc010lqu.1_Intron|NCAPG2_uc003wnw.1_Intron|NCAPG2_uc003wnx.1_Intron|NCAPG2_uc011kwe.1_Intron	NM_017760	NP_060230			leucine zipper protein 5						cell division|chromosome condensation|mitosis	nucleus	methylated histone residue binding			ovary(1)|breast(1)|kidney(1)	3	Ovarian(565;0.152)	all_cancers(7;3.44e-11)|all_epithelial(9;3.05e-05)|all_hematologic(28;0.014)	OV - Ovarian serous cystadenocarcinoma(82;0.00174)	UCEC - Uterine corpus endometrioid carcinoma (81;0.187)|STAD - Stomach adenocarcinoma(7;0.18)														---	---	---	---
MCPH1	79648	broad.mit.edu	37	8	6302639	6302639	+	Frame_Shift_Del	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:6302639delA	uc003wqi.2	+	8	1464	c.1396delA	c.(1396-1398)AAAfs	p.K466fs	MCPH1_uc003wqh.2_Frame_Shift_Del_p.K466fs|MCPH1_uc011kwl.1_Frame_Shift_Del_p.K418fs	NM_024596	NP_078872	Q8NEM0	MCPH1_HUMAN	microcephalin	466						microtubule organizing center				central_nervous_system(1)|skin(1)	2		Hepatocellular(245;0.0663)		Colorectal(4;0.0505)														---	---	---	---
TUSC3	7991	broad.mit.edu	37	8	15621739	15621740	+	3'UTR	INS	-	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:15621739_15621740insT	uc003wwt.2	+	11					TUSC3_uc003wwu.2_3'UTR|TUSC3_uc003wwv.2_3'UTR|TUSC3_uc003www.2_3'UTR|TUSC3_uc003wwx.2_RNA|TUSC3_uc003wwy.2_3'UTR	NM_006765	NP_006756			tumor suppressor candidate 3 isoform a						cell redox homeostasis|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to membrane|oligosaccharyltransferase complex				ovary(2)|central_nervous_system(1)	3				Colorectal(111;0.113)														---	---	---	---
MTUS1	57509	broad.mit.edu	37	8	17510891	17510892	+	Intron	INS	-	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:17510891_17510892insT	uc003wxv.2	-						MTUS1_uc003wxt.2_Intron|MTUS1_uc011kyg.1_Intron|MTUS1_uc010lsy.2_Intron|MTUS1_uc003wxw.2_Intron|MTUS1_uc003wxs.2_Intron	NM_001001924	NP_001001924			mitochondrial tumor suppressor 1 isoform 1							Golgi apparatus|microtubule|microtubule organizing center|mitochondrion|nucleus|plasma membrane|spindle				ovary(1)|skin(1)	2				Colorectal(111;0.0778)														---	---	---	---
FGL1	2267	broad.mit.edu	37	8	17739343	17739344	+	Intron	DEL	AA	-	-	rs113353024		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:17739343_17739344delAA	uc003wxx.2	-						FGL1_uc003wxy.2_Intron|FGL1_uc003wxz.2_Intron|FGL1_uc003wya.2_Intron|FGL1_uc003wyb.2_Intron|FGL1_uc003wyc.2_Intron|FGL1_uc003wyd.2_Intron|FGL1_uc003wye.2_Intron|FGL1_uc003wyf.2_Intron	NM_201553	NP_963847			fibrinogen-like 1 precursor						signal transduction	fibrinogen complex	receptor binding				0				Colorectal(111;0.0573)|COAD - Colon adenocarcinoma(73;0.215)														---	---	---	---
DOCK5	80005	broad.mit.edu	37	8	25203373	25203373	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:25203373delT	uc003xeg.2	+						DOCK5_uc010luf.1_Intron|DOCK5_uc003xeh.1_Intron|DOCK5_uc003xei.2_Intron|DOCK5_uc003xej.2_Intron	NM_024940	NP_079216			dedicator of cytokinesis 5							cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)	3		all_cancers(63;0.0361)|Ovarian(32;0.000711)|all_epithelial(46;0.0153)|Hepatocellular(4;0.115)|Prostate(55;0.13)|Breast(100;0.143)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0267)|Epithelial(17;1.07e-11)|Colorectal(74;0.0276)|COAD - Colon adenocarcinoma(73;0.0828)														---	---	---	---
DKK4	27121	broad.mit.edu	37	8	42233038	42233040	+	Intron	DEL	AAA	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:42233038_42233040delAAA	uc003xpb.2	-							NM_014420	NP_055235			dickkopf homolog 4 precursor						multicellular organismal development|negative regulation of Wnt receptor signaling pathway|Wnt receptor signaling pathway	extracellular region				ovary(1)	1	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;0.000434)|Lung NSC(58;0.00161)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.0954)	BRCA - Breast invasive adenocarcinoma(8;3.48e-10)|OV - Ovarian serous cystadenocarcinoma(14;0.00523)|Lung(22;0.00597)|LUSC - Lung squamous cell carcinoma(45;0.024)															---	---	---	---
SLC20A2	6575	broad.mit.edu	37	8	42297283	42297283	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:42297283delA	uc010lxl.2	-						SLC20A2_uc010lxm.2_Intron|SLC20A2_uc003xpe.2_Intron|SLC20A2_uc011lcu.1_Intron	NM_006749	NP_006740			solute carrier family 20, member 2						interspecies interaction between organisms	integral to plasma membrane|membrane fraction	inorganic phosphate transmembrane transporter activity|receptor activity|sodium-dependent phosphate transmembrane transporter activity|sodium:phosphate symporter activity			ovary(2)	2	all_lung(13;8.33e-12)|Lung NSC(13;1.41e-10)|Ovarian(28;0.00579)|Prostate(17;0.0119)|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;5.73e-10)|OV - Ovarian serous cystadenocarcinoma(14;0.00419)|Lung(22;0.0302)|LUSC - Lung squamous cell carcinoma(45;0.0869)															---	---	---	---
Unknown	0	broad.mit.edu	37	8	42538760	42538760	+	IGR	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:42538760delA								C8orf40 (130621 upstream) : CHRNB3 (13802 downstream)																																			---	---	---	---
PRKDC	5591	broad.mit.edu	37	8	48845618	48845618	+	Frame_Shift_Del	DEL	C	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:48845618delC	uc003xqi.2	-	16	1795	c.1738delG	c.(1738-1740)GATfs	p.D580fs	PRKDC_uc003xqj.2_Frame_Shift_Del_p.D580fs|PRKDC_uc011ldh.1_Frame_Shift_Del_p.D580fs	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	580					cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)											NHEJ					---	---	---	---
CHD7	55636	broad.mit.edu	37	8	61714076	61714076	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:61714076delT	uc003xue.2	+							NM_017780	NP_060250			chromodomain helicase DNA binding protein 7						central nervous system development|chromatin modification|cognition|cranial nerve development|face development|heart morphogenesis|in utero embryonic development|inner ear morphogenesis|nose development|palate development|regulation of growth hormone secretion|regulation of transcription, DNA-dependent|retina development in camera-type eye|skeletal system development|T cell differentiation|transcription, DNA-dependent	nucleus	ATP binding|chromatin binding|DNA binding|helicase activity	p.556_871dup(1)		ovary(4)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|pancreas(1)	9		all_cancers(86;0.2)|all_lung(136;0.0402)|Lung NSC(129;0.0459)|all_epithelial(80;0.0477)	BRCA - Breast invasive adenocarcinoma(89;0.143)															---	---	---	---
C8orf34	116328	broad.mit.edu	37	8	69358550	69358551	+	Intron	DEL	TT	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:69358550_69358551delTT	uc010lyz.2	+						C8orf34_uc010lyx.1_Intron|C8orf34_uc010lyy.1_Intron|C8orf34_uc003xyb.2_Intron	NM_052958	NP_443190			hypothetical protein LOC116328						signal transduction		cAMP-dependent protein kinase regulator activity			large_intestine(1)	1			Epithelial(68;0.0117)|OV - Ovarian serous cystadenocarcinoma(28;0.0227)|all cancers(69;0.0502)															---	---	---	---
PRDM14	63978	broad.mit.edu	37	8	70967745	70967745	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:70967745delT	uc003xym.2	-							NM_024504	NP_078780			PR domain containing 14						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3	Breast(64;0.193)		Epithelial(68;0.00508)|all cancers(69;0.0259)|OV - Ovarian serous cystadenocarcinoma(28;0.0405)															---	---	---	---
Unknown	0	broad.mit.edu	37	8	81472059	81472059	+	IGR	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:81472059delA								ZBTB10 (37451 upstream) : ZNF704 (78710 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	8	82547337	82547337	+	IGR	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:82547337delA								FABP12 (103787 upstream) : IMPA1 (21814 downstream)																																			---	---	---	---
VPS13B	157680	broad.mit.edu	37	8	100832521	100832521	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:100832521delT	uc003yiv.2	+						VPS13B_uc003yiw.2_Intron	NM_017890	NP_060360			vacuolar protein sorting 13B isoform 5						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)															---	---	---	---
UBR5	51366	broad.mit.edu	37	8	103358988	103358988	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:103358988delA	uc003ykr.1	-						UBR5_uc003yks.1_Intron	NM_015902	NP_056986			ubiquitin protein ligase E3 component n-recognin						cell proliferation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of protein import into nucleus, translocation|progesterone receptor signaling pathway|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to DNA damage stimulus	nucleus|soluble fraction	protein binding|RNA binding|ubiquitin-ubiquitin ligase activity|zinc ion binding			lung(16)|ovary(4)|large_intestine(3)|breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	28	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000442)															---	---	---	---
Unknown	0	broad.mit.edu	37	8	125757979	125757982	+	IGR	DEL	TCCC	-	-	rs11783009		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:125757979_125757982delTCCC								MTSS1 (17249 upstream) : LOC157381 (193902 downstream)																																			---	---	---	---
FAM49B	51571	broad.mit.edu	37	8	130874724	130874724	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:130874724delT	uc003yss.2	-						FAM49B_uc003yst.2_Intron|FAM49B_uc003ysu.2_Intron|FAM49B_uc003ysv.2_Intron|FAM49B_uc003ysw.2_Intron|FAM49B_uc003ysx.2_Intron|FAM49B_uc003ysy.1_Intron	NM_016623	NP_057707			hypothetical protein LOC51571												0	Ovarian(5;0.000567)|Esophageal squamous(12;0.00693)|Acute lymphoblastic leukemia(118;0.155)		LUAD - Lung adenocarcinoma(14;0.0989)															---	---	---	---
ASAP1	50807	broad.mit.edu	37	8	131199667	131199667	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:131199667delT	uc003yta.1	-						ASAP1_uc011liw.1_Intron	NM_018482	NP_060952			development and differentiation enhancing factor						cilium morphogenesis|filopodium assembly|regulation of ARF GTPase activity|signal transduction	cytoplasm|membrane	ARF GTPase activator activity|cytoskeletal adaptor activity|SH3 domain binding|zinc ion binding			ovary(4)	4																		---	---	---	---
Unknown	0	broad.mit.edu	37	8	138676649	138676649	+	IGR	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:138676649delT								None (None upstream) : FAM135B (465619 downstream)																																			---	---	---	---
GLIS3	169792	broad.mit.edu	37	9	4126054	4126055	+	Intron	DEL	TT	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:4126054_4126055delTT	uc003zhw.1	-						GLIS3_uc003zhx.1_Intron|GLIS3_uc003zic.1_Intron|GLIS3_uc003zie.1_Intron|GLIS3_uc010mhh.1_Intron|GLIS3_uc003zid.1_Intron|GLIS3_uc010mhi.1_Intron|GLIS3_uc003zif.1_Intron|GLIS3_uc003zig.1_Intron|GLIS3_uc003zih.1_Intron|GLIS3_uc003zib.1_Intron|GLIS3_uc010mhg.1_Intron	NM_152629	NP_689842			GLIS family zinc finger 3 isoform b						negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter		DNA binding|zinc ion binding			ovary(1)	1		Acute lymphoblastic leukemia(2;0.00464)|Breast(48;0.148)		Lung(2;0.00163)|GBM - Glioblastoma multiforme(50;0.00301)|LUSC - Lung squamous cell carcinoma(2;0.0148)														---	---	---	---
KDM4C	23081	broad.mit.edu	37	9	7128278	7128278	+	Intron	DEL	A	-	-	rs73403349	by1000genomes	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:7128278delA	uc003zkh.2	+						KDM4C_uc011lmj.1_Intron|KDM4C_uc003zkg.2_Intron|KDM4C_uc011lmk.1_Intron|KDM4C_uc011lml.1_Intron	NM_015061	NP_055876			jumonji domain containing 2C isoform 1						positive regulation of cell proliferation|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription, DNA-dependent	nuclear chromatin	androgen receptor binding|enzyme binding|histone demethylase activity (H3-K9 specific)|nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1																		---	---	---	---
MPDZ	8777	broad.mit.edu	37	9	13107144	13107144	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:13107144delA	uc010mhy.2	-						MPDZ_uc003zkx.3_Intron|MPDZ_uc003zky.3_Intron|MPDZ_uc010mib.2_Intron|MPDZ_uc010mhx.2_Intron|MPDZ_uc011lmm.1_Intron|MPDZ_uc003zkz.3_Intron|MPDZ_uc010mhz.2_Intron|MPDZ_uc011lmn.1_Intron|MPDZ_uc003zlb.3_Intron	NM_003829	NP_003820			multiple PDZ domain protein						interspecies interaction between organisms	apical plasma membrane|dendrite|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	protein C-terminus binding			ovary(5)|central_nervous_system(1)	6				GBM - Glioblastoma multiforme(50;2.03e-06)														---	---	---	---
DENND4C	55667	broad.mit.edu	37	9	19299210	19299210	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:19299210delT	uc003znq.2	+						DENND4C_uc011lnc.1_Intron	NM_017925	NP_060395			DENN/MADD domain containing 4C							integral to membrane				ovary(1)|skin(1)	2																		---	---	---	---
DENND4C	55667	broad.mit.edu	37	9	19360231	19360231	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:19360231delT	uc003znq.2	+						DENND4C_uc011lnc.1_Intron|DENND4C_uc011lnd.1_Intron|DENND4C_uc003znr.2_Intron|DENND4C_uc003zns.2_Intron	NM_017925	NP_060395			DENN/MADD domain containing 4C							integral to membrane				ovary(1)|skin(1)	2																		---	---	---	---
ACER2	340485	broad.mit.edu	37	9	19434763	19434763	+	Intron	DEL	T	-	-	rs144391104		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:19434763delT	uc003zny.1	+						ACER2_uc003znx.1_Intron|ACER2_uc003znz.1_Intron	NM_001010887	NP_001010887			alkaline ceramidase 2						ceramide metabolic process|negative regulation of cell adhesion mediated by integrin|negative regulation of cell-matrix adhesion|negative regulation of protein glycosylation in Golgi|positive regulation of cell proliferation|response to retinoic acid|sphingosine biosynthetic process	integral to Golgi membrane	ceramidase activity			haematopoietic_and_lymphoid_tissue(1)|skin(1)	2																		---	---	---	---
SLC24A2	25769	broad.mit.edu	37	9	19597156	19597156	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:19597156delA	uc003zoa.1	-						SLC24A2_uc003zob.1_Intron	NM_020344	NP_065077			solute carrier family 24						visual perception	integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			ovary(3)	3				GBM - Glioblastoma multiforme(1;1.67e-55)|Lung(42;0.0443)														---	---	---	---
PLAA	9373	broad.mit.edu	37	9	26926684	26926684	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:26926684delT	uc003zqd.2	-						PLAA_uc003zqe.2_Intron	NM_001031689	NP_001026859			phospholipase A2-activating protein						phospholipid metabolic process|signal transduction		phospholipase A2 activator activity				0		all_neural(3;3.53e-10)|Glioma(3;2.71e-09)		Lung(218;1.32e-05)|LUSC - Lung squamous cell carcinoma(38;0.00011)														---	---	---	---
PRSS3	5646	broad.mit.edu	37	9	33795418	33795423	+	Intron	DEL	GCCGAG	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:33795418_33795423delGCCGAG	uc003ztj.3	+						uc003ztk.1_Intron|PRSS3_uc003zti.3_Intron|PRSS3_uc003ztl.3_5'Flank	NM_007343	NP_031369			mesotrypsin isoform 1 preproprotein						digestion|endothelial cell migration|zymogen activation	extracellular space	calcium ion binding|protein binding|serine-type endopeptidase activity|serine-type peptidase activity				0			LUSC - Lung squamous cell carcinoma(29;0.0176)															---	---	---	---
TESK1	7016	broad.mit.edu	37	9	35607525	35607526	+	Intron	INS	-	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:35607525_35607526insG	uc003zxa.2	+						TESK1_uc003zwz.1_RNA|TESK1_uc010mks.2_Intron	NM_006285	NP_006276			testis-specific protein kinase 1						cell junction assembly|spermatogenesis	cytosol	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			stomach(2)|breast(2)|lung(1)|ovary(1)|skin(1)	7			Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)															---	---	---	---
CA9	768	broad.mit.edu	37	9	35679020	35679020	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:35679020delT	uc003zxo.3	+						CA9_uc003zxp.3_Intron	NM_001216	NP_001207			carbonic anhydrase IX precursor						one-carbon metabolic process	integral to membrane|microvillus membrane|nucleolus	carbonate dehydratase activity|zinc ion binding			ovary(4)|skin(1)	5	all_epithelial(49;0.217)		Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)															---	---	---	---
ZCCHC7	84186	broad.mit.edu	37	9	37305455	37305455	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:37305455delT	uc003zzq.2	+						ZCCHC7_uc011lqh.1_Intron|ZCCHC7_uc011lqi.1_Intron|ZCCHC7_uc010mlt.2_Intron	NM_032226	NP_115602			zinc finger, CCHC domain containing 7								nucleic acid binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(29;0.0137)														---	---	---	---
Unknown	0	broad.mit.edu	37	9	69721737	69721737	+	IGR	DEL	G	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:69721737delG								LOC100133920 (56788 upstream) : FOXD4L5 (453972 downstream)																																			---	---	---	---
SMC5	23137	broad.mit.edu	37	9	72895960	72895960	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:72895960delT	uc004ahr.2	+							NM_015110	NP_055925			SMC5 protein						DNA recombination|DNA repair	chromosome|nucleus	ATP binding			ovary(2)|central_nervous_system(1)	3																		---	---	---	---
TMEM2	23670	broad.mit.edu	37	9	74332801	74332801	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:74332801delA	uc011lsa.1	-						TMEM2_uc010mos.2_Intron|TMEM2_uc011lsb.1_Intron	NM_013390	NP_037522			transmembrane protein 2 isoform a							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)														---	---	---	---
C9orf64	84267	broad.mit.edu	37	9	86559615	86559615	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:86559615delT	uc004anb.2	-						C9orf64_uc004anc.2_Intron	NM_032307	NP_115683			hypothetical protein LOC84267												0																		---	---	---	---
HNRNPK	3190	broad.mit.edu	37	9	86584096	86584096	+	3'UTR	DEL	C	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:86584096delC	uc004ang.3	-	17					HNRNPK_uc011lsw.1_3'UTR|HNRNPK_uc004and.3_3'UTR|HNRNPK_uc004ank.3_3'UTR|HNRNPK_uc004anf.3_3'UTR|HNRNPK_uc004anh.3_3'UTR|HNRNPK_uc011lsx.1_3'UTR|HNRNPK_uc004ani.3_3'UTR|HNRNPK_uc004anj.3_3'UTR|HNRNPK_uc004ann.3_3'UTR|HNRNPK_uc004anl.3_3'UTR|HNRNPK_uc004anm.3_3'UTR	NM_031262	NP_112552			heterogeneous nuclear ribonucleoprotein K						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																		---	---	---	---
NAA35	60560	broad.mit.edu	37	9	88573372	88573372	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:88573372delT	uc004aoi.3	+						NAA35_uc004aoj.3_Intron|NAA35_uc004aok.1_Intron	NM_024635	NP_078911			corneal wound healing-related protein						smooth muscle cell proliferation	cytoplasm|nucleus|plasma membrane				skin(2)|central_nervous_system(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	9	91131649	91131650	+	IGR	INS	-	TTCCTTCC	TTCCTTCC	rs62580715		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:91131649_91131650insTTCCTTCC								SPIN1 (38029 upstream) : NXNL2 (18366 downstream)																																			---	---	---	---
ERP44	23071	broad.mit.edu	37	9	102747209	102747209	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:102747209delA	uc004bam.2	-						ERP44_uc010msy.2_Intron|ERP44_uc010msz.2_Intron	NM_015051	NP_055866			thioredoxin domain containing 4 (endoplasmic						cell redox homeostasis|glycoprotein metabolic process|protein folding|response to unfolded protein	endoplasmic reticulum lumen|endoplasmic reticulum membrane|ER-Golgi intermediate compartment	protein binding|protein disulfide isomerase activity				0																		---	---	---	---
TMEFF1	8577	broad.mit.edu	37	9	103323993	103323993	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:103323993delT	uc004baz.1	+						TMEFF1_uc004bay.1_Intron	NM_003692	NP_003683			transmembrane protein with EGF-like and two						multicellular organismal development	integral to membrane|plasma membrane					0		Acute lymphoblastic leukemia(62;0.0452)																---	---	---	---
Unknown	0	broad.mit.edu	37	9	104211341	104211349	+	IGR	DEL	AAAGAAAAG	-	-	rs57096630		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:104211341_104211349delAAAGAAAAG								ALDOB (13279 upstream) : C9orf125 (26260 downstream)																																			---	---	---	---
NIPSNAP3B	55335	broad.mit.edu	37	9	107533405	107533405	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:107533405delA	uc004bci.2	+						NIPSNAP3A_uc011lvu.1_Intron|NIPSNAP3B_uc004bcj.1_Intron	NM_018376	NP_060846			nipsnap homolog 3B											pancreas(1)|skin(1)	2																		---	---	---	---
KIAA0368	23392	broad.mit.edu	37	9	114174440	114174440	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:114174440delA	uc004bfe.1	-							NM_001080398	NP_001073867			KIAA0368 protein												0																		---	---	---	---
FKBP15	23307	broad.mit.edu	37	9	115965340	115965340	+	Intron	DEL	A	-	-	rs72325652		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:115965340delA	uc004bgs.2	-						FKBP15_uc010muu.1_Intron|FKBP15_uc011lxd.1_Intron|FKBP15_uc010mut.1_Intron|FKBP15_uc004bgt.2_Intron	NM_015258	NP_056073			FK506 binding protein 15, 133kDa						endocytosis|protein folding	axon|early endosome	actin binding			ovary(3)	3																		---	---	---	---
RNF183	138065	broad.mit.edu	37	9	116059723	116059724	+	3'UTR	INS	-	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:116059723_116059724insT	uc004bgz.2	-	2					RNF183_uc004bha.2_3'UTR	NM_145051	NP_659488			ring finger protein 183							integral to membrane	zinc ion binding				0																		---	---	---	---
RABGAP1	23637	broad.mit.edu	37	9	125782455	125782455	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:125782455delT	uc011lzh.1	+						RABGAP1_uc004bnl.3_Intron	NM_012197	NP_036329			RAB GTPase activating protein 1						cell cycle	centrosome|cytosol|microtubule associated complex	Rab GTPase activator activity|tubulin binding			ovary(3)|kidney(2)	5																		---	---	---	---
Unknown	0	broad.mit.edu	37	9	127957481	127957481	+	IGR	DEL	A	-	-	rs79479616		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:127957481delA								PPP6C (5263 upstream) : RABEPK (5336 downstream)																																			---	---	---	---
LMX1B	4010	broad.mit.edu	37	9	129455616	129455616	+	Intron	DEL	G	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:129455616delG	uc004bqj.2	+						LMX1B_uc004bqi.2_Intron|LMX1B_uc011maa.1_Intron	NM_002316	NP_002307			LIM homeobox transcription factor 1, beta						dorsal/ventral pattern formation|in utero embryonic development	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0														Nail-Patella_Syndrome				---	---	---	---
GARNL3	84253	broad.mit.edu	37	9	130062292	130062292	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:130062292delT	uc011mae.1	+						GARNL3_uc011mad.1_Intron	NM_032293	NP_115669			GTPase activating Rap/RanGAP domain-like 3						regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity|small GTPase regulator activity			ovary(1)|central_nervous_system(1)|skin(1)	3																		---	---	---	---
GARNL3	84253	broad.mit.edu	37	9	130076035	130076035	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:130076035delA	uc011mae.1	+						GARNL3_uc011mad.1_Intron	NM_032293	NP_115669			GTPase activating Rap/RanGAP domain-like 3						regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity|small GTPase regulator activity			ovary(1)|central_nervous_system(1)|skin(1)	3																		---	---	---	---
TBC1D13	54662	broad.mit.edu	37	9	131552853	131552853	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:131552853delA	uc010myj.2	+						TBC1D13_uc010myk.2_Intron|TBC1D13_uc010myl.2_Intron	NM_018201	NP_060671			TBC1 domain family, member 13							intracellular	Rab GTPase activator activity				0																		---	---	---	---
TTF1	7270	broad.mit.edu	37	9	135263730	135263730	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:135263730delT	uc004cbl.2	-						TTF1_uc011mcp.1_Intron|TTF1_uc004cbm.2_Intron	NM_007344	NP_031370			transcription termination factor, RNA polymerase						negative regulation of DNA replication|regulation of transcription, DNA-dependent|termination of RNA polymerase I transcription	nucleolus|nucleoplasm	DNA binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;4.25e-06)|Epithelial(140;9.09e-05)														---	---	---	---
AGPAT2	10555	broad.mit.edu	37	9	139571612	139571613	+	Intron	DEL	AG	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:139571612_139571613delAG	uc004cii.1	-						AGPAT2_uc004cij.1_Intron	NM_006412	NP_006403			1-acylglycerol-3-phosphate O-acyltransferase 2						phosphatidic acid biosynthetic process|positive regulation of cytokine production|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane	1-acylglycerol-3-phosphate O-acyltransferase activity				0	all_cancers(76;0.0893)|all_epithelial(76;0.231)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;9.87e-06)|Epithelial(140;0.000123)														---	---	---	---
C9orf167	54863	broad.mit.edu	37	9	140173182	140173182	+	Frame_Shift_Del	DEL	C	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:140173182delC	uc004cmn.2	+	2	158	c.41delC	c.(40-42)GCCfs	p.A14fs	C9orf167_uc011mew.1_5'Flank	NM_017723	NP_060193	Q9NXH8	CI167_HUMAN	hypothetical protein LOC54863	14					chaperone mediated protein folding requiring cofactor	integral to membrane	ATP binding|nucleoside-triphosphatase activity			pancreas(1)	1	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.137)	OV - Ovarian serous cystadenocarcinoma(145;9.07e-05)|Epithelial(140;0.000728)														---	---	---	---
NET1	10276	broad.mit.edu	37	10	5495005	5495005	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:5495005delT	uc001iia.2	+						NET1_uc010qar.1_Intron|NET1_uc001iib.2_Intron|NET1_uc010qas.1_Intron	NM_001047160	NP_001040625			neuroepithelial cell transforming gene 1 isoform						apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of cell growth|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|nucleus	Rho guanyl-nucleotide exchange factor activity			breast(1)	1																		---	---	---	---
ITIH2	3698	broad.mit.edu	37	10	7747175	7747175	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:7747175delA	uc001ijs.2	+							NM_002216	NP_002207			inter-alpha globulin inhibitor H2 polypeptide						hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(1)|pancreas(1)|skin(1)	3																		---	---	---	---
ANKRD26	22852	broad.mit.edu	37	10	27349145	27349145	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:27349145delT	uc001ith.2	-						ANKRD26_uc001itg.2_Intron|ANKRD26_uc009xku.1_Intron	NM_014915	NP_055730			ankyrin repeat domain 26							centrosome				large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|skin(1)	4																		---	---	---	---
FRMPD2	143162	broad.mit.edu	37	10	49400634	49400634	+	Intron	DEL	A	-	-	rs74923642		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:49400634delA	uc001jgi.2	-						FRMPD2_uc001jgh.2_Intron|FRMPD2_uc001jgj.2_Intron	NM_001018071	NP_001018081			FERM and PDZ domain containing 2 isoform 3						tight junction assembly	basolateral plasma membrane|cytoplasm|cytoskeleton|tight junction	1-phosphatidylinositol binding|protein binding			large_intestine(1)	1				Kidney(211;0.201)														---	---	---	---
MAPK8	5599	broad.mit.edu	37	10	49632499	49632499	+	Intron	DEL	T	-	-	rs78072348		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:49632499delT	uc009xnz.2	+						MAPK8_uc001jgl.2_Intron|MAPK8_uc001jgm.2_Intron|MAPK8_uc001jgo.2_Intron|MAPK8_uc009xoa.2_Intron|MAPK8_uc001jgn.2_Intron|MAPK8_uc010qgk.1_Intron|MAPK8_uc001jgp.2_Intron|MAPK8_uc001jgq.2_Intron	NM_139047	NP_620635			mitogen-activated protein kinase 8 isoform JNK1						activation of pro-apoptotic gene products|cellular response to mechanical stimulus|induction of apoptosis by intracellular signals|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of apoptosis|negative regulation of protein binding|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of deacetylase activity|regulation of protein localization|regulation of sequence-specific DNA binding transcription factor activity|response to UV|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|histone deacetylase binding|histone deacetylase regulator activity|JUN kinase activity|protein binding			central_nervous_system(3)|lung(2)|stomach(1)|ovary(1)|kidney(1)	8		Ovarian(717;0.0221)|Lung SC(717;0.113)|all_neural(218;0.116)		Epithelial(53;3.46e-65)|Lung(62;0.125)														---	---	---	---
FAM21A	387680	broad.mit.edu	37	10	51829177	51829177	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:51829177delA	uc001jjb.2	+						uc001jiz.1_5'Flank|FAM21A_uc001jja.1_Intron|FAM21A_uc010qhi.1_Intron|FAM21A_uc010qhj.1_Intron	NM_001005751	NP_001005751			hypothetical protein LOC387680						retrograde transport, endosome to Golgi	early endosome membrane|WASH complex				ovary(1)	1																		---	---	---	---
A1CF	29974	broad.mit.edu	37	10	52566433	52566433	+	3'UTR	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:52566433delT	uc001jjj.2	-	13					A1CF_uc010qhn.1_3'UTR|A1CF_uc001jji.2_3'UTR|A1CF_uc001jjh.2_3'UTR|A1CF_uc010qho.1_3'UTR|A1CF_uc009xov.2_3'UTR	NM_138932	NP_620310			apobec-1 complementation factor isoform 2						cytidine to uridine editing|mRNA modification|mRNA processing|protein stabilization	apolipoprotein B mRNA editing enzyme complex|endoplasmic reticulum|nucleoplasm	nucleotide binding|protein binding|single-stranded RNA binding			central_nervous_system(1)	1																		---	---	---	---
PRKG1	5592	broad.mit.edu	37	10	54011307	54011307	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:54011307delT	uc001jjm.2	+						PRKG1_uc001jjo.2_Intron|PRKG1_uc009xow.1_Intron|uc001jjq.1_Intron	NM_001098512	NP_001091982			protein kinase, cGMP-dependent, type I isoform						actin cytoskeleton organization|platelet activation|signal transduction	cytosol	ATP binding|cGMP binding|cGMP-dependent protein kinase activity			lung(2)|stomach(1)|ovary(1)|central_nervous_system(1)|skin(1)	6		all_cancers(4;2.13e-08)|all_epithelial(4;2.44e-08)|all_lung(4;0.000173)		all cancers(4;1.18e-05)|GBM - Glioblastoma multiforme(4;0.000359)|Epithelial(53;0.00532)|Lung(62;0.0606)														---	---	---	---
BICC1	80114	broad.mit.edu	37	10	60273190	60273193	+	Intron	DEL	CGGC	-	-	rs10571555		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:60273190_60273193delCGGC	uc001jki.1	+							NM_001080512	NP_001073981			bicaudal C homolog 1						multicellular organismal development		RNA binding			ovary(2)|lung(1)|skin(1)	4																		---	---	---	---
BICC1	80114	broad.mit.edu	37	10	60546935	60546935	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:60546935delA	uc001jki.1	+							NM_001080512	NP_001073981			bicaudal C homolog 1						multicellular organismal development		RNA binding			ovary(2)|lung(1)|skin(1)	4																		---	---	---	---
ANK3	288	broad.mit.edu	37	10	61831290	61831290	+	Frame_Shift_Del	DEL	T	-	-	rs28932171	byFrequency;by1000genomes	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:61831290delT	uc001jky.2	-	37	9541	c.9349delA	c.(9349-9351)ATCfs	p.I3117fs	ANK3_uc001jkw.2_Intron|ANK3_uc009xpa.2_Intron|ANK3_uc001jkx.2_Intron|ANK3_uc010qih.1_Intron|ANK3_uc001jkz.3_Intron|ANK3_uc001jkv.2_Intron|ANK3_uc009xpb.1_Intron	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	3117					establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19																		---	---	---	---
ZNF365	22891	broad.mit.edu	37	10	64425757	64425757	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:64425757delA	uc001jmd.1	+						ZNF365_uc001jmc.2_Intron|ZNF365_uc001jme.1_Intron|ZNF365_uc001jmf.1_Intron|ZNF365_uc009xpg.1_Intron	NM_199452	NP_955524			zinc finger protein 365 isoform D											ovary(1)|skin(1)	2	Prostate(12;0.0297)|all_hematologic(501;0.228)																	---	---	---	---
Unknown	0	broad.mit.edu	37	10	70304123	70304123	+	IGR	DEL	T	-	-	rs71716010		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:70304123delT								SLC25A16 (16539 upstream) : TET1 (15994 downstream)																																			---	---	---	---
OIT3	170392	broad.mit.edu	37	10	74653469	74653469	+	5'UTR	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:74653469delA	uc001jte.1	+	1					OIT3_uc009xqs.1_RNA	NM_152635	NP_689848			oncoprotein-induced transcript 3 precursor							nuclear envelope	calcium ion binding			ovary(2)	2	Prostate(51;0.0198)																	---	---	---	---
P4HA1	5033	broad.mit.edu	37	10	74803720	74803720	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:74803720delA	uc010qka.1	-						P4HA1_uc001jtg.2_Intron|P4HA1_uc001jth.2_Intron|P4HA1_uc010qkb.1_Intron|P4HA1_uc001jti.2_Intron	NM_001142595	NP_001136067			prolyl 4-hydroxylase, alpha I subunit isoform 2							endoplasmic reticulum lumen|mitochondrion	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 4-dioxygenase activity			ovary(1)	1	Prostate(51;0.0198)				Hydralazine(DB01275)|L-Proline(DB00172)|Succinic acid(DB00139)|Vitamin C(DB00126)													---	---	---	---
FAM190B	54462	broad.mit.edu	37	10	86215040	86215040	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:86215040delT	uc001kdh.1	+						FAM190B_uc010qmd.1_Intron|FAM190B_uc001kdi.1_Intron|FAM190B_uc010qme.1_Intron	NM_018999	NP_061872			granule cell antiserum positive 14											ovary(3)|skin(1)	4																		---	---	---	---
LIPA	3988	broad.mit.edu	37	10	91152229	91152229	+	Intron	DEL	C	-	-	rs113116320		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:91152229delC	uc001kgc.3	-						LIPA_uc001kgb.3_Intron|IFIT1_uc001kgi.2_5'Flank|IFIT1_uc009xtt.2_5'Flank	NM_001127605	NP_001121077			lipase A precursor						lipid catabolic process	lysosome	lipase activity|sterol esterase activity				0		Colorectal(252;0.0162)		GBM - Glioblastoma multiforme(2;0.00406)														---	---	---	---
Unknown	0	broad.mit.edu	37	10	91738926	91738926	+	IGR	DEL	A	-	-	rs76395084		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:91738926delA								KIF20B (204226 upstream) : HTR7 (761652 downstream)																																			---	---	---	---
BTAF1	9044	broad.mit.edu	37	10	93724151	93724151	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:93724151delT	uc001khr.2	+						BTAF1_uc001khs.1_Intron|BTAF1_uc001kht.1_5'Flank	NM_003972	NP_003963			BTAF1 RNA polymerase II, B-TFIID transcription						negative regulation of transcription, DNA-dependent	nucleus	ATP binding|DNA binding|helicase activity|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.0846)																---	---	---	---
CYP26C1	340665	broad.mit.edu	37	10	94828023	94828023	+	Intron	DEL	C	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:94828023delC	uc010qns.1	+						CYP26C1_uc009xud.2_Intron	NM_183374	NP_899230			cytochrome P450, family 26, subfamily C,						anterior/posterior pattern formation|central nervous system development|negative regulation of retinoic acid receptor signaling pathway|neural crest cell development|organelle fusion|retinoic acid catabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	electron carrier activity|heme binding|retinoic acid 4-hydroxylase activity|retinoic acid binding			central_nervous_system(1)	1		Colorectal(252;0.122)																---	---	---	---
PLCE1	51196	broad.mit.edu	37	10	95995659	95995659	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:95995659delT	uc001kjk.2	+						PLCE1_uc010qnx.1_Intron|PLCE1_uc001kjm.2_Intron	NM_016341	NP_057425			phospholipase C, epsilon 1 isoform 1						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)																---	---	---	---
C10orf12	26148	broad.mit.edu	37	10	98714563	98714563	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:98714563delT	uc009xvg.1	+						LCOR_uc001kmr.2_Intron|LCOR_uc001kms.1_Intron|LCOR_uc001kmt.1_Intron|LCOR_uc001kmu.1_Intron	NM_015652	NP_056467			hypothetical protein LOC26148											skin(2)	2		Colorectal(252;0.172)		Epithelial(162;6.35e-09)|all cancers(201;3.21e-07)														---	---	---	---
PYROXD2	84795	broad.mit.edu	37	10	100167268	100167268	+	Intron	DEL	C	-	-	rs140910348	by1000genomes	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:100167268delC	uc001kpc.2	-						PYROXD2_uc001kpb.2_Intron|PYROXD2_uc001kpd.2_Intron|PYROXD2_uc010qpe.1_Intron	NM_032709	NP_116098			pyridine nucleotide-disulphide oxidoreductase								oxidoreductase activity			central_nervous_system(1)	1																		---	---	---	---
AS3MT	57412	broad.mit.edu	37	10	104650278	104650278	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:104650278delT	uc001kwk.2	+						AS3MT_uc001kwj.2_Intron|AS3MT_uc009xxh.2_Intron	NM_020682	NP_065733			arsenic (+3 oxidation state) methyltransferase						arsonoacetate metabolic process|toxin metabolic process	cytosol	arsenite methyltransferase activity|methylarsonite methyltransferase activity				0		Colorectal(252;0.122)|all_hematologic(284;0.152)|Breast(234;0.198)		Epithelial(162;5.87e-09)|all cancers(201;1.58e-07)|BRCA - Breast invasive adenocarcinoma(275;0.223)														---	---	---	---
NT5C2	22978	broad.mit.edu	37	10	104858754	104858754	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:104858754delA	uc001kwo.2	-						NT5C2_uc010qqp.1_Intron|NT5C2_uc001kwq.2_Intron|NT5C2_uc001kwp.2_Intron	NM_012229	NP_036361			5'-nucleotidase, cytosolic II						purine base metabolic process|purine nucleotide catabolic process	cytosol	5'-nucleotidase activity|metal ion binding|nucleotide binding|protein binding				0		all_hematologic(284;0.176)|Colorectal(252;0.178)		Epithelial(162;1.33e-08)|all cancers(201;1.04e-07)|BRCA - Breast invasive adenocarcinoma(275;0.159)	Adenosine triphosphate(DB00171)|Ribavirin(DB00811)													---	---	---	---
CCDC147	159686	broad.mit.edu	37	10	106152248	106152248	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:106152248delA	uc001kyh.2	+							NM_001008723	NP_001008723			coiled-coil domain containing 147											ovary(2)|central_nervous_system(2)|skin(1)	5		Colorectal(252;0.103)|Breast(234;0.122)		Epithelial(162;7.55e-10)|all cancers(201;3.37e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0189)														---	---	---	---
TCF7L2	6934	broad.mit.edu	37	10	114925159	114925159	+	Intron	DEL	G	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:114925159delG	uc001lae.3	+						TCF7L2_uc001lac.3_Intron|TCF7L2_uc010qrk.1_Intron|TCF7L2_uc010qrl.1_Intron|TCF7L2_uc010qrm.1_Intron|TCF7L2_uc010qrn.1_Intron|TCF7L2_uc001lad.3_Intron|TCF7L2_uc001lag.3_Intron|TCF7L2_uc001laf.3_Intron|TCF7L2_uc010qro.1_Intron|TCF7L2_uc001lah.2_Intron|TCF7L2_uc010qrp.1_Intron|TCF7L2_uc010qrq.1_Intron|TCF7L2_uc010qrr.1_Intron|TCF7L2_uc010qrs.1_Intron|TCF7L2_uc010qrt.1_Intron|TCF7L2_uc010qru.1_Intron|TCF7L2_uc010qrv.1_Intron|TCF7L2_uc010qrw.1_Intron|TCF7L2_uc010qrx.1_Intron	NM_001146274	NP_001139746			transcription factor 7-like 2 isoform 1						anti-apoptosis|blood vessel development|canonical Wnt receptor signaling pathway involved in positive regulation of epithelial to mesenchymal transition|cell cycle arrest|cell proliferation|fat cell differentiation|glucose homeostasis|maintenance of DNA repeat elements|myoblast cell fate commitment|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|pancreas development|positive regulation of heparan sulfate proteoglycan biosynthetic process|positive regulation of insulin secretion|positive regulation of protein binding|positive regulation of protein export from nucleus|positive regulation of protein kinase B signaling cascade|positive regulation of transcription from RNA polymerase II promoter|regulation of hormone metabolic process|regulation of smooth muscle cell proliferation|response to glucose stimulus	beta-catenin-TCF7L2 complex|PML body|protein-DNA complex	armadillo repeat domain binding|beta-catenin binding|gamma-catenin binding|nuclear hormone receptor binding|protein kinase binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding			large_intestine(3)|ovary(1)	4		Breast(234;0.058)|Colorectal(252;0.0615)		Epithelial(162;0.00554)|all cancers(201;0.02)														---	---	---	---
ABLIM1	3983	broad.mit.edu	37	10	116450448	116450448	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:116450448delT	uc001lbz.1	-											Homo sapiens cDNA FLJ25105 fis, clone CBR01442.						axon guidance|cytoskeleton organization|organ morphogenesis|visual perception	actin cytoskeleton|cytoplasm	actin binding|zinc ion binding			breast(1)	1		Colorectal(252;0.0373)|Breast(234;0.231)		Epithelial(162;0.0132)|all cancers(201;0.0383)														---	---	---	---
KIAA1598	57698	broad.mit.edu	37	10	118667519	118667519	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:118667519delA	uc009xyw.2	-						KIAA1598_uc001lcz.3_Intron|KIAA1598_uc010qso.1_Intron|KIAA1598_uc010qsp.1_Intron|KIAA1598_uc010qsq.1_Intron|KIAA1598_uc001lcy.3_Intron	NM_001127211	NP_001120683			shootin1 isoform a						axon guidance	axon					0				all cancers(201;0.00494)														---	---	---	---
C10orf88	80007	broad.mit.edu	37	10	124711352	124711352	+	Intron	DEL	A	-	-	rs75488600		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:124711352delA	uc001lgw.2	-						C10orf88_uc001lgx.2_Intron	NM_024942	NP_079218			hypothetical protein LOC80007												0		all_neural(114;0.0765)|Lung NSC(174;0.163)|all_lung(145;0.205)		Colorectal(40;0.0686)|COAD - Colon adenocarcinoma(40;0.0735)														---	---	---	---
C10orf88	80007	broad.mit.edu	37	10	124711510	124711510	+	Frame_Shift_Del	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:124711510delT	uc001lgw.2	-	3	626	c.401delA	c.(400-402)AATfs	p.N134fs	C10orf88_uc001lgx.2_Frame_Shift_Del_p.N36fs	NM_024942	NP_079218	Q9H8K7	CJ088_HUMAN	hypothetical protein LOC80007	134											0		all_neural(114;0.0765)|Lung NSC(174;0.163)|all_lung(145;0.205)		Colorectal(40;0.0686)|COAD - Colon adenocarcinoma(40;0.0735)														---	---	---	---
JAKMIP3	282973	broad.mit.edu	37	10	133955348	133955348	+	Intron	DEL	G	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:133955348delG	uc001lkx.3	+							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)														---	---	---	---
DENND5A	23258	broad.mit.edu	37	11	9167317	9167317	+	Frame_Shift_Del	DEL	C	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:9167317delC	uc001mhl.2	-	17	3158	c.2903delG	c.(2902-2904)GGCfs	p.G968fs	DENND5A_uc001mhk.2_Frame_Shift_Del_p.G311fs|DENND5A_uc010rbw.1_Frame_Shift_Del_p.G968fs|DENND5A_uc010rbx.1_RNA	NM_015213	NP_056028	Q6IQ26	DEN5A_HUMAN	RAB6 interacting protein 1	968	PLAT.									liver(1)	1																		---	---	---	---
USP47	55031	broad.mit.edu	37	11	11958114	11958114	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:11958114delT	uc001mjq.1	+						USP47_uc001mjr.2_Intron|USP47_uc001mjs.2_Intron|USP47_uc001mjt.1_5'Flank	NM_017944	NP_060414			ubiquitin specific protease 47						base-excision repair|cellular response to UV|monoubiquitinated protein deubiquitination|negative regulation of apoptosis|negative regulation of caspase activity|negative regulation of G2/M transition of mitotic cell cycle|negative regulation of transcription, DNA-dependent|positive regulation of cell growth|response to drug|ubiquitin-dependent protein catabolic process	cytoplasm|SCF ubiquitin ligase complex	ubiquitin thiolesterase activity|ubiquitin-specific protease activity|WD40-repeat domain binding			ovary(1)|skin(1)	2				Epithelial(150;0.000339)														---	---	---	---
COPB1	1315	broad.mit.edu	37	11	14516005	14516005	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:14516005delA	uc001mli.2	-						COPB1_uc001mlg.2_Intron|COPB1_uc001mlh.2_Intron|PSMA1_uc010rcp.1_Intron	NM_016451	NP_057535			coatomer protein complex, subunit beta 1						COPI coating of Golgi vesicle|interspecies interaction between organisms|intra-Golgi vesicle-mediated transport|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol|ER-Golgi intermediate compartment|plasma membrane	protein binding|structural molecule activity			ovary(1)|central_nervous_system(1)	2																		---	---	---	---
C11orf58	10944	broad.mit.edu	37	11	16766059	16766059	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:16766059delA	uc001mmk.2	+						C11orf58_uc010rct.1_Intron	NM_014267	NP_055082			small acidic protein isoform a												0																		---	---	---	---
ANO5	203859	broad.mit.edu	37	11	22239726	22239726	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:22239726delT	uc001mqi.2	+						ANO5_uc001mqj.2_Intron	NM_213599	NP_998764			anoctamin 5 isoform a							chloride channel complex|endoplasmic reticulum membrane	chloride channel activity			central_nervous_system(3)|ovary(1)	4																		---	---	---	---
KIF18A	81930	broad.mit.edu	37	11	28116025	28116025	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:28116025delA	uc001msc.2	-							NM_031217	NP_112494			kinesin family member 18A						blood coagulation|microtubule depolymerization|microtubule-based movement|mitotic metaphase plate congression|mitotic prometaphase|protein transport	caveola|cytosol|kinetochore microtubule|microtubule organizing center|nucleus|ruffle	actin binding|ATP binding|microtubule plus-end binding|plus-end-directed microtubule motor activity|tubulin-dependent ATPase activity|ubiquitin binding			ovary(2)	2																		---	---	---	---
METT5D1	196074	broad.mit.edu	37	11	28134852	28134852	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:28134852delT	uc001msh.2	+						METT5D1_uc001msg.2_Intron|METT5D1_uc001mse.2_Intron|METT5D1_uc001msf.1_Intron	NM_001113528	NP_001107000			methyltransferase 5 domain containing 1 isoform								methyltransferase activity				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	11	33859072	33859079	+	IGR	DEL	AAGGAAGG	-	-	rs149656801		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:33859072_33859079delAAGGAAGG								FBXO3 (63001 upstream) : LMO2 (21046 downstream)																																			---	---	---	---
CAPRIN1	4076	broad.mit.edu	37	11	34118231	34118231	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:34118231delA	uc001mvh.1	+						CAPRIN1_uc001mvg.2_Intron|CAPRIN1_uc001mvi.2_Intron|CAPRIN1_uc001mvj.1_Intron	NM_005898	NP_005889			membrane component chromosome 11 surface marker						negative regulation of translation|positive regulation of dendrite morphogenesis|positive regulation of dendritic spine morphogenesis	cytoplasmic mRNA processing body|cytosol|dendrite|integral to plasma membrane|stress granule	protein binding|RNA binding			ovary(1)	1		Acute lymphoblastic leukemia(5;0.00045)|all_hematologic(20;0.0016)																---	---	---	---
CAT	847	broad.mit.edu	37	11	34490058	34490058	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:34490058delA	uc001mvm.2	+						CAT_uc001mvn.2_Intron	NM_001752	NP_001743			catalase						hydrogen peroxide catabolic process|negative regulation of apoptosis|positive regulation of cell division|protein tetramerization|purine base metabolic process|purine nucleotide catabolic process|UV protection	peroxisomal matrix|peroxisomal membrane	catalase activity|heme binding|NADP binding|protein homodimerization activity			ovary(2)|pancreas(1)	3		Lung NSC(402;2.76e-08)|Acute lymphoblastic leukemia(5;0.00143)|all_hematologic(20;0.0116)|Melanoma(852;0.027)		BRCA - Breast invasive adenocarcinoma(625;0.000995)	Fomepizole(DB01213)													---	---	---	---
LRRC4C	57689	broad.mit.edu	37	11	40135879	40135879	+	3'UTR	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:40135879delT	uc001mxa.1	-	2					LRRC4C_uc001mxc.1_3'UTR|LRRC4C_uc001mxd.1_3'UTR|LRRC4C_uc001mxb.1_3'UTR	NM_020929	NP_065980			netrin-G1 ligand precursor						regulation of axonogenesis	integral to membrane	protein binding			ovary(4)|skin(3)|central_nervous_system(1)	8		all_lung(304;0.0575)|Lung NSC(402;0.138)																---	---	---	---
MS4A10	341116	broad.mit.edu	37	11	60563170	60563170	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:60563170delA	uc001npz.1	+							NM_206893	NP_996776			membrane-spanning 4-domains, subfamily A, member							integral to membrane	receptor activity			ovary(1)|skin(1)	2																		---	---	---	---
HNRNPUL2	221092	broad.mit.edu	37	11	62489135	62489135	+	Intron	DEL	A	-	-	rs77636809		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:62489135delA	uc001nuw.2	-						HNRNPUL2_uc001nuu.1_Intron	NM_001079559	NP_001073027			heterogeneous nuclear ribonucleoprotein U-like						cell killing	nucleus	ATP binding|nucleic acid binding				0																		---	---	---	---
SLC3A2	6520	broad.mit.edu	37	11	62649529	62649529	+	Frame_Shift_Del	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:62649529delA	uc001nwd.2	+	5	1116	c.892delA	c.(892-894)AAAfs	p.K298fs	SLC3A2_uc001nwb.2_Frame_Shift_Del_p.K329fs|SLC3A2_uc001nwc.2_Frame_Shift_Del_p.K299fs|SLC3A2_uc001nwe.2_Frame_Shift_Del_p.K267fs|SLC3A2_uc001nwf.2_Frame_Shift_Del_p.K236fs|SLC3A2_uc001nwg.2_Frame_Shift_Del_p.K197fs|SLC3A2_uc010rml.1_5'Flank	NM_002394	NP_002385	P08195	4F2_HUMAN	solute carrier family 3, member 2 isoform c	298	Extracellular (Potential).				blood coagulation|carbohydrate metabolic process|cell growth|cellular nitrogen compound metabolic process|leucine import|leukocyte migration|tryptophan transport	apical plasma membrane|cell surface|integral to membrane|melanosome	calcium:sodium antiporter activity|catalytic activity|cation binding|neutral amino acid transmembrane transporter activity|protein binding				0																		---	---	---	---
RAB1B	81876	broad.mit.edu	37	11	66039143	66039143	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:66039143delA	uc001ohf.2	+						uc001ohg.1_RNA	NM_030981	NP_112243			RAB1B, member RAS oncogene family						protein transport|small GTPase mediated signal transduction	Golgi apparatus|membrane	GTP binding|protein binding				0																		---	---	---	---
GAL	51083	broad.mit.edu	37	11	68458593	68458593	+	3'UTR	DEL	T	-	-	rs75147512		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:68458593delT	uc001oob.2	+	6						NM_015973	NP_057057			galanin preproprotein						growth hormone secretion|insulin secretion|neuropeptide signaling pathway|smooth muscle contraction	extracellular region	neuropeptide hormone activity				0	Esophageal squamous(3;7.33e-10)	Melanoma(852;0.0749)	LUAD - Lung adenocarcinoma(13;0.0514)	Kidney(183;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(183;3.23e-08)|Lung(977;0.000152)|LUSC - Lung squamous cell carcinoma(976;0.00154)														---	---	---	---
ARAP1	116985	broad.mit.edu	37	11	72421120	72421120	+	Intron	DEL	G	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:72421120delG	uc001osu.2	-						ARAP1_uc001osv.2_Intron|ARAP1_uc001osr.2_Intron|ARAP1_uc001oss.2_Intron|ARAP1_uc009yth.2_Intron|ARAP1_uc010rre.1_Intron	NM_001040118	NP_001035207			ArfGAP with RhoGAP domain, ankyrin repeat and PH						actin filament reorganization involved in cell cycle|negative regulation of stress fiber assembly|positive regulation of Cdc42 GTPase activity|positive regulation of filopodium assembly|regulation of ARF GTPase activity|regulation of cell shape|regulation of cellular component movement|small GTPase mediated signal transduction	cytosol|Golgi cisterna membrane|plasma membrane	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|protein binding|Rho GTPase activator activity|zinc ion binding			skin(1)	1																		---	---	---	---
C2CD3	26005	broad.mit.edu	37	11	73850016	73850016	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:73850016delT	uc001ouu.2	-						C2CD3_uc001ouv.2_Intron	NM_015531	NP_056346			C2 calcium-dependent domain containing 3							centrosome				ovary(4)|pancreas(2)|skin(1)	7	Breast(11;4.16e-06)																	---	---	---	---
PGM2L1	283209	broad.mit.edu	37	11	74049494	74049495	+	Intron	INS	-	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:74049494_74049495insA	uc001ovb.1	-							NM_173582	NP_775853			phosphoglucomutase 2-like 1						glucose 1-phosphate metabolic process	cytosol	glucose-1,6-bisphosphate synthase activity|phosphoglucomutase activity			ovary(1)	1	Breast(11;3.32e-06)																	---	---	---	---
INTS4	92105	broad.mit.edu	37	11	77639340	77639340	+	Intron	DEL	G	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:77639340delG	uc001oys.2	-						INTS4_uc001oyt.2_Intron|INTS4_uc001oyu.1_Intron	NM_033547	NP_291025			integrator complex subunit 4						snRNA processing	integrator complex	protein binding			ovary(2)	2	all_cancers(14;4.53e-19)|all_epithelial(13;1.73e-21)|Breast(9;2.71e-16)|Ovarian(111;0.152)		Epithelial(5;1.13e-46)|all cancers(3;8.92e-44)|BRCA - Breast invasive adenocarcinoma(5;8.4e-26)|OV - Ovarian serous cystadenocarcinoma(8;1.05e-23)															---	---	---	---
PRCP	5547	broad.mit.edu	37	11	82560041	82560041	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:82560041delA	uc001ozs.2	-						PRCP_uc001ozr.2_Intron	NM_005040	NP_005031			prolylcarboxypeptidase isoform 1 preproprotein						blood coagulation, intrinsic pathway|proteolysis	lysosome|plasma membrane	protein binding|serine-type carboxypeptidase activity			skin(1)	1																		---	---	---	---
NAALAD2	10003	broad.mit.edu	37	11	89925063	89925063	+	3'UTR	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:89925063delT	uc001pdf.3	+	19					NAALAD2_uc009yvx.2_3'UTR|NAALAD2_uc009yvy.2_3'UTR	NM_005467	NP_005458			N-acetylated alpha-linked acidic dipeptidase 2						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)																---	---	---	---
Unknown	0	broad.mit.edu	37	11	93318853	93318854	+	IGR	DEL	AG	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:93318853_93318854delAG								C11orf75 (42307 upstream) : KIAA1731 (75962 downstream)																																			---	---	---	---
DYNC2H1	79659	broad.mit.edu	37	11	103194726	103194726	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:103194726delA	uc001pho.2	+						DYNC2H1_uc001phn.1_Intron|DYNC2H1_uc009yxe.1_Intron	NM_001080463	NP_001073932			dynein, cytoplasmic 2, heavy chain 1						cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)														---	---	---	---
AASDHPPT	60496	broad.mit.edu	37	11	105962245	105962245	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:105962245delT	uc001pjc.1	+						AASDHPPT_uc010rvn.1_Intron|AASDHPPT_uc001pjd.1_Intron	NM_015423	NP_056238			aminoadipate-semialdehyde						macromolecule biosynthetic process|pantothenate metabolic process	cytosol	holo-[acyl-carrier-protein] synthase activity|magnesium ion binding|protein binding				0		Melanoma(852;0.000878)|Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Breast(348;0.0321)		BRCA - Breast invasive adenocarcinoma(274;5.78e-05)|Epithelial(105;0.00622)|all cancers(92;0.041)														---	---	---	---
SLC35F2	54733	broad.mit.edu	37	11	107686320	107686320	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:107686320delA	uc001pjq.2	-						SLC35F2_uc010rvu.1_Intron|SLC35F2_uc001pjs.2_Intron	NM_017515	NP_059985			solute carrier family 35, member F2						transport	integral to membrane				central_nervous_system(1)	1		all_cancers(61;9.46e-06)|Acute lymphoblastic leukemia(157;3.97e-05)|Melanoma(852;0.000111)|all_hematologic(158;0.000315)|all_epithelial(67;0.00197)|Breast(348;0.104)		BRCA - Breast invasive adenocarcinoma(274;3.28e-05)|Epithelial(105;0.000105)|all cancers(92;0.00217)														---	---	---	---
ACAT1	38	broad.mit.edu	37	11	108014946	108014946	+	Intron	DEL	A	-	-	rs71893124		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:108014946delA	uc001pjy.2	+							NM_000019	NP_000010			acetyl-Coenzyme A acetyltransferase 1 precursor						acetoacetic acid biosynthetic process|branched chain family amino acid catabolic process|ketone body biosynthetic process|ketone body catabolic process	mitochondrial matrix	acetyl-CoA C-acetyltransferase activity|metal ion binding			ovary(3)	3		all_cancers(61;6.41e-10)|all_epithelial(67;2.83e-06)|Melanoma(852;1.46e-05)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;2.96e-05)|Epithelial(105;4.35e-05)|all cancers(92;0.00108)|OV - Ovarian serous cystadenocarcinoma(223;0.192)	Sulfasalazine(DB00795)													---	---	---	---
BCO2	83875	broad.mit.edu	37	11	112070257	112070257	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:112070257delT	uc001pnf.2	+						BCO2_uc001pne.1_Intron|BCO2_uc001png.2_Intron|BCO2_uc001pnh.2_Intron|BCO2_uc010rwt.1_Intron|BCO2_uc009yyn.2_Intron|BCO2_uc001pni.2_Intron	NM_031938	NP_114144			beta-carotene dioxygenase 2 isoform a						carotene metabolic process|retinal metabolic process|retinoic acid metabolic process		metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0																		---	---	---	---
MLL	4297	broad.mit.edu	37	11	118351036	118351036	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:118351036delT	uc001pta.2	+						MLL_uc001ptb.2_Intron|MLL_uc001pte.1_5'Flank|MLL_uc009zab.1_5'Flank	NM_005933	NP_005924			myeloid/lymphoid or mixed-lineage leukemia						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)				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								---	---	---	---
ROBO3	64221	broad.mit.edu	37	11	124745731	124745733	+	Intron	DEL	TGT	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:124745731_124745733delTGT	uc001qbc.2	+						ROBO3_uc010saq.1_5'Flank|ROBO3_uc001qbd.2_5'Flank|ROBO3_uc010sar.1_5'Flank|ROBO3_uc001qbe.2_5'Flank|ROBO3_uc001qbf.1_5'Flank	NM_022370	NP_071765			roundabout, axon guidance receptor, homolog 3						axon midline choice point recognition	integral to membrane	receptor activity			breast(1)|central_nervous_system(1)	2	all_hematologic(175;0.215)	Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|Breast(109;0.0481)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0296)														---	---	---	---
ROBO4	54538	broad.mit.edu	37	11	124756593	124756593	+	Frame_Shift_Del	DEL	C	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:124756593delC	uc001qbg.2	-	16	2701	c.2561delG	c.(2560-2562)GGAfs	p.G854fs	ROBO4_uc010sas.1_Frame_Shift_Del_p.G709fs|ROBO4_uc001qbh.2_3'UTR|ROBO4_uc001qbi.2_Frame_Shift_Del_p.G412fs	NM_019055	NP_061928	Q8WZ75	ROBO4_HUMAN	roundabout homolog 4, magic roundabout	854					angiogenesis|cell differentiation	integral to membrane	receptor activity			ovary(1)|skin(1)	2	all_hematologic(175;0.215)	Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|Breast(109;0.171)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0301)														---	---	---	---
EI24	9538	broad.mit.edu	37	11	125452395	125452395	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:125452395delA	uc001qca.2	+						EI24_uc001qcb.2_Intron|EI24_uc010sbd.1_Intron|EI24_uc009zbl.2_Intron|EI24_uc001qcc.2_Intron|EI24_uc010sbe.1_Intron|EI24_uc010sbf.1_Intron	NM_004879	NP_004870			etoposide induced 2.4 isoform 1						apoptosis|autophagy|induction of apoptosis|negative regulation of cell growth	endoplasmic reticulum membrane|integral to membrane|nuclear membrane				ovary(1)	1	all_hematologic(175;0.228)	Breast(109;0.0021)|Lung NSC(97;0.0126)|all_lung(97;0.0132)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.64e-07)|OV - Ovarian serous cystadenocarcinoma(99;0.0975)														---	---	---	---
NCAPD3	23310	broad.mit.edu	37	11	134035867	134035868	+	Intron	DEL	CT	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:134035867_134035868delCT	uc001qhd.1	-						NCAPD3_uc010scm.1_Intron|NCAPD3_uc009zda.1_Intron|NCAPD3_uc001qhc.1_Intron	NM_015261	NP_056076			non-SMC condensin II complex, subunit D3						cell division|mitotic chromosome condensation	nuclear centromeric heterochromatin|nuclear condensin complex	methylated histone residue binding			ovary(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	5	all_hematologic(175;0.127)	all_cancers(12;1.68e-21)|all_epithelial(12;5.86e-16)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000182)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;8.74e-10)|BRCA - Breast invasive adenocarcinoma(10;1e-08)|all cancers(11;1.46e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00345)|Lung(977;0.227)														---	---	---	---
Unknown	0	broad.mit.edu	37	12	4218858	4218858	+	IGR	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:4218858delT								PARP11 (236250 upstream) : CCND2 (164044 downstream)																																			---	---	---	---
ANO2	57101	broad.mit.edu	37	12	5941834	5941834	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:5941834delA	uc001qnm.2	-							NM_020373	NP_065106			anoctamin 2							chloride channel complex|plasma membrane	intracellular calcium activated chloride channel activity			ovary(4)|large_intestine(2)|central_nervous_system(1)	7																		---	---	---	---
CDCA3	83461	broad.mit.edu	37	12	6959169	6959169	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:6959169delT	uc001qrg.2	-						CDCA3_uc001qre.2_Intron|uc001qrf.1_5'Flank|USP5_uc001qri.3_5'Flank|USP5_uc001qrh.3_5'Flank	NM_031299	NP_112589			cell division cycle associated 3						cell division|mitosis	cytosol					0																		---	---	---	---
C1R	715	broad.mit.edu	37	12	7241600	7241600	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:7241600delT	uc010sfy.1	-						C1R_uc010sfz.1_Intron|C1R_uc010sga.1_Intron	NM_001733	NP_001724			complement component 1, r subcomponent						complement activation, classical pathway|innate immune response|proteolysis	extracellular region	calcium ion binding|serine-type endopeptidase activity				0					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)													---	---	---	---
CD163	9332	broad.mit.edu	37	12	7648056	7648056	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:7648056delT	uc001qsz.3	-						CD163_uc001qta.3_Intron|CD163_uc009zfw.2_Intron	NM_004244	NP_004235			CD163 antigen isoform a						acute-phase response	extracellular region|integral to plasma membrane	protein binding|scavenger receptor activity			ovary(6)|pancreas(1)|skin(1)	8																		---	---	---	---
GRIN2B	2904	broad.mit.edu	37	12	14018581	14018581	+	Intron	DEL	A	-	-	rs74837716		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:14018581delA	uc001rbt.2	-							NM_000834	NP_000825			N-methyl-D-aspartate receptor subunit 2B						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			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)													---	---	---	---
RERGL	79785	broad.mit.edu	37	12	18238529	18238529	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:18238529delA	uc001rdq.2	-						RERGL_uc001rdr.2_Intron	NM_024730	NP_079006			RERG/RAS-like						signal transduction	membrane	GTP binding|GTPase activity				0																		---	---	---	---
PLEKHA5	54477	broad.mit.edu	37	12	19406761	19406761	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:19406761delA	uc001reb.2	+						PLEKHA5_uc010sie.1_Intron|PLEKHA5_uc001rea.2_Intron|PLEKHA5_uc009zin.2_Intron|PLEKHA5_uc010sif.1_Intron|PLEKHA5_uc010sig.1_Intron|PLEKHA5_uc010sih.1_Intron	NM_019012	NP_061885			pleckstrin homology domain containing, family A								1-phosphatidylinositol binding|protein binding			ovary(1)|kidney(1)|skin(1)	3	Acute lymphoblastic leukemia(4;0.000455)|all_hematologic(4;0.00804)																	---	---	---	---
SLCO1C1	53919	broad.mit.edu	37	12	20893469	20893469	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:20893469delA	uc001rej.3	+						SLCO1C1_uc010sii.1_Intron|SLCO1C1_uc010sij.1_Intron|SLCO1C1_uc009zip.2_Intron|SLCO1C1_uc001rei.2_Intron|SLCO1C1_uc010sik.1_Intron	NM_017435	NP_059131			solute carrier organic anion transporter family,						sodium-independent organic anion transport	integral to membrane|plasma membrane	thyroid hormone transmembrane transporter activity			ovary(5)|pancreas(1)|skin(1)	7	Esophageal squamous(101;0.149)																	---	---	---	---
KIAA0528	9847	broad.mit.edu	37	12	22637469	22637469	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:22637469delT	uc001rfq.2	-						KIAA0528_uc010sir.1_Intron|KIAA0528_uc010sis.1_Intron|KIAA0528_uc010sit.1_Intron|KIAA0528_uc010siu.1_Intron|KIAA0528_uc001rfr.2_Intron|KIAA0528_uc009ziy.1_Intron	NM_014802	NP_055617			hypothetical protein LOC9847								protein binding			ovary(1)|large_intestine(1)|breast(1)|central_nervous_system(1)	4																		---	---	---	---
TM7SF3	51768	broad.mit.edu	37	12	27152717	27152717	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:27152717delA	uc010sjl.1	-							NM_016551	NP_057635			transmembrane 7 superfamily member 3 precursor							integral to membrane|plasma membrane				upper_aerodigestive_tract(2)	2	Colorectal(261;0.0847)																	---	---	---	---
ARNTL2	56938	broad.mit.edu	37	12	27540143	27540143	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:27540143delT	uc001rht.1	+						ARNTL2_uc001rhw.2_Intron|ARNTL2_uc010sjp.1_Intron|ARNTL2_uc001rhu.1_Intron|ARNTL2_uc009zji.1_Intron|ARNTL2_uc001rhv.1_Intron	NM_020183	NP_064568			aryl hydrocarbon receptor nuclear						circadian rhythm|entrainment of circadian clock|regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(1)|skin(1)	2	Colorectal(261;0.0847)|Lung SC(9;0.184)																	---	---	---	---
DENND5B	160518	broad.mit.edu	37	12	31585981	31585981	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:31585981delT	uc001rki.1	-						DENND5B_uc001rkh.1_Intron|DENND5B_uc009zjq.1_Intron|DENND5B_uc001rkj.2_3'UTR	NM_144973	NP_659410			DENN/MADD domain containing 5B							integral to membrane				ovary(1)|central_nervous_system(1)	2																		---	---	---	---
AMN1	196394	broad.mit.edu	37	12	31862108	31862108	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:31862108delA	uc001rkq.3	-						AMN1_uc001rko.3_Intron|AMN1_uc010skc.1_Intron|AMN1_uc001rkp.3_Intron|AMN1_uc009zjs.2_Intron|AMN1_uc009zjt.1_Intron	NM_001113402	NP_001106873			antagonist of mitotic exit network 1 homolog												0	all_cancers(9;7.41e-12)|all_epithelial(9;1.18e-11)|all_lung(12;1.14e-10)|Acute lymphoblastic leukemia(23;0.0122)|Lung SC(12;0.0336)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.162)		OV - Ovarian serous cystadenocarcinoma(6;0.0014)															---	---	---	---
C12orf40	283461	broad.mit.edu	37	12	40044028	40044028	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:40044028delT	uc001rmc.2	+						C12orf40_uc009zjv.1_Intron	NM_001031748	NP_001026918			hypothetical protein LOC283461											ovary(6)	6																		---	---	---	---
LRRK2	120892	broad.mit.edu	37	12	40699570	40699570	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:40699570delT	uc001rmg.3	+						LRRK2_uc009zjw.2_Intron|LRRK2_uc001rmi.2_Intron	NM_198578	NP_940980			leucine-rich repeat kinase 2						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)																---	---	---	---
PPHLN1	51535	broad.mit.edu	37	12	42717961	42717961	+	5'Flank	DEL	G	-	-	rs3747557	by1000genomes	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:42717961delG	uc001rng.1	+						PPHLN1_uc001rmy.2_Intron|PPHLN1_uc001rna.2_5'Flank|PPHLN1_uc001rne.2_5'Flank|PPHLN1_uc001rnb.2_5'Flank|PPHLN1_uc001rnd.2_5'Flank|PPHLN1_uc001rnc.2_5'Flank|PPHLN1_uc001rnf.2_5'Flank|PPHLN1_uc010skq.1_5'Flank|PPHLN1_uc010skr.1_5'Flank|PPHLN1_uc010sks.1_5'Flank|PPHLN1_uc010skt.1_5'Flank|PPHLN1_uc001rni.1_5'Flank|PPHLN1_uc001rnh.1_5'Flank|PPHLN1_uc010sku.1_5'Flank|ZCRB1_uc001rmz.2_Intron	NM_016488	NP_057572			periphilin 1 isoform 1						keratinization	cytoplasm|nucleus				ovary(1)|breast(1)	2	all_cancers(12;0.00049)|Breast(8;0.165)	Lung NSC(34;0.123)		GBM - Glioblastoma multiforme(48;0.0875)														---	---	---	---
SLC38A4	55089	broad.mit.edu	37	12	47172647	47172647	+	Intron	DEL	G	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:47172647delG	uc001rpi.2	-						SLC38A4_uc001rpj.2_Intron	NM_018018	NP_060488			solute carrier family 38, member 4						cellular nitrogen compound metabolic process|sodium ion transport	integral to membrane|plasma membrane	amino acid transmembrane transporter activity|symporter activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Lung SC(27;0.192)|Renal(347;0.236)																	---	---	---	---
RPAP3	79657	broad.mit.edu	37	12	48095064	48095064	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:48095064delA	uc001rpr.2	-						RPAP3_uc010slk.1_Intron|RPAP3_uc001rps.2_Intron	NM_024604	NP_078880			RNA polymerase II associated protein 3 isoform								binding			ovary(1)	1	Lung SC(27;0.192)																	---	---	---	---
ADCY6	112	broad.mit.edu	37	12	49163028	49163028	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:49163028delA	uc001rsh.3	-						ADCY6_uc001rsj.3_Intron|ADCY6_uc001rsi.3_Intron	NM_015270	NP_056085			adenylate cyclase 6 isoform a						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	ATP binding|metal ion binding				0																		---	---	---	---
LARP4	113251	broad.mit.edu	37	12	50848191	50848191	+	Frame_Shift_Del	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:50848191delA	uc001rwp.1	+	10	1256	c.1112delA	c.(1111-1113)CAAfs	p.Q371fs	LARP4_uc001rwo.1_Frame_Shift_Del_p.Q377fs|LARP4_uc001rwq.1_Frame_Shift_Del_p.Q300fs|LARP4_uc001rwr.1_Frame_Shift_Del_p.Q371fs|LARP4_uc001rws.1_Frame_Shift_Del_p.Q370fs|LARP4_uc009zlr.1_Frame_Shift_Del_p.Q190fs|LARP4_uc001rwt.1_Frame_Shift_Del_p.Q33fs|LARP4_uc001rwm.2_Frame_Shift_Del_p.Q371fs|LARP4_uc001rwn.2_Frame_Shift_Del_p.Q301fs	NM_052879	NP_443111	Q71RC2	LARP4_HUMAN	c-Mpl binding protein isoform a	371							nucleotide binding|RNA binding			ovary(1)	1																		---	---	---	---
PCBP2	5094	broad.mit.edu	37	12	53849431	53849431	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:53849431delT	uc001sdl.3	+						PCBP2_uc001sdc.3_Intron|PCBP2_uc001sdb.3_Intron|PCBP2_uc001sde.3_Intron|PCBP2_uc001sdi.3_Intron|PCBP2_uc001sdd.3_Intron|PCBP2_uc001sdf.3_Intron|PCBP2_uc009zna.2_Intron|PCBP2_uc010soh.1_Intron|PCBP2_uc009zmz.1_Intron	NM_001128911	NP_001122383			poly(rC) binding protein 2 isoform d						innate immune response|negative regulation of defense response to virus|negative regulation of type I interferon production|nuclear mRNA splicing, via spliceosome|proteasomal ubiquitin-dependent protein catabolic process|response to virus	cytosol|nucleoplasm|ribonucleoprotein complex	DNA binding|RNA binding|ubiquitin protein ligase binding				0																		---	---	---	---
ITGA7	3679	broad.mit.edu	37	12	56078934	56078934	+	Frame_Shift_Del	DEL	G	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:56078934delG	uc001shh.2	-	25	3554	c.3334delC	c.(3334-3336)CGGfs	p.R1112fs	ITGA7_uc001shg.2_Frame_Shift_Del_p.R1108fs|ITGA7_uc010sps.1_Frame_Shift_Del_p.R1015fs|ITGA7_uc001shf.2_3'UTR|ITGA7_uc009znw.2_Frame_Shift_Del_p.R355fs|ITGA7_uc009znx.2_Frame_Shift_Del_p.R989fs	NM_001144996	NP_001138468	Q13683	ITA7_HUMAN	integrin alpha 7 isoform 1 precursor	1152	Cytoplasmic (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|muscle organ development|regulation of cell shape	integrin complex	receptor activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5																		---	---	---	---
BAZ2A	11176	broad.mit.edu	37	12	57006060	57006060	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:57006060delA	uc001slq.1	-						BAZ2A_uc001slp.1_Intron|BAZ2A_uc009zow.1_Intron	NM_013449	NP_038477			bromodomain adjacent to zinc finger domain, 2A						chromatin silencing at rDNA|DNA methylation|transcription, DNA-dependent	chromatin silencing complex|nucleolus|rDNA heterochromatin	DNA binding|histone acetyl-lysine binding|ligand-dependent nuclear receptor binding|RNA binding|zinc ion binding				0																		---	---	---	---
TMEM194A	23306	broad.mit.edu	37	12	57466469	57466469	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:57466469delT	uc001smy.2	-						TMEM194A_uc001smx.2_Intron|TMEM194A_uc010sra.1_Intron	NM_001130963	NP_001124435			transmembrane protein 194A isoform a							integral to membrane					0																		---	---	---	---
Unknown	0	broad.mit.edu	37	12	61263464	61263487	+	IGR	DEL	TTCCTTCCTTCCTTCCTTCCTTCC	-	-	rs72204013	by1000genomes	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:61263464_61263487delTTCCTTCCTTCCTTCCTTCCTTCC								None (None upstream) : FAM19A2 (838556 downstream)																																			---	---	---	---
MDM2	4193	broad.mit.edu	37	12	69218526	69218526	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:69218526delT	uc001sui.2	+						MDM2_uc009zri.2_Intron|MDM2_uc009zqx.2_Intron|MDM2_uc009zqw.2_Intron|MDM2_uc001suk.2_Intron|MDM2_uc009zqy.1_Intron|MDM2_uc001sun.3_Intron|MDM2_uc009zqz.2_Intron|MDM2_uc009zra.2_Intron|MDM2_uc001sum.1_Intron|MDM2_uc009zrd.2_Intron|MDM2_uc009zrc.2_Intron|MDM2_uc009zre.2_Intron|MDM2_uc009zrf.2_Intron|MDM2_uc001suo.2_Intron|MDM2_uc009zrg.2_Intron|MDM2_uc009zrh.2_Intron	NM_002392	NP_002383			mouse double minute 2 homolog isoform MDM2						cellular response to hypoxia|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|establishment of protein localization|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell cycle arrest|negative regulation of DNA damage response, signal transduction by p53 class mediator|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of cell proliferation|positive regulation of mitotic cell cycle|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|protein complex assembly|protein destabilization|protein localization to nucleus|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to antibiotic|synaptic transmission	cytosol|endocytic vesicle membrane|insoluble fraction|nucleolus|nucleoplasm|plasma membrane|protein complex	enzyme binding|identical protein binding|p53 binding|ubiquitin-protein ligase activity|zinc ion binding			lung(2)|central_nervous_system(1)	3	all_cancers(1;8.46e-121)|all_epithelial(5;3.21e-36)|Lung NSC(4;2.16e-33)|all_lung(4;3.03e-31)|Glioma(1;1.9e-09)|Breast(13;1.59e-06)|all_neural(1;1.03e-05)|Melanoma(1;0.0171)|Renal(347;0.0684)		all cancers(2;8.67e-65)|GBM - Glioblastoma multiforme(2;8.89e-62)|BRCA - Breast invasive adenocarcinoma(5;2.43e-08)|Lung(24;1.5e-05)|LUAD - Lung adenocarcinoma(15;8.5e-05)|STAD - Stomach adenocarcinoma(21;0.00372)|Kidney(9;0.143)					A		sarcoma|glioma|colorectal|other								---	---	---	---
TMTC2	160335	broad.mit.edu	37	12	83424451	83424451	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:83424451delA	uc001szt.2	+						TMTC2_uc010suk.1_Intron	NM_152588	NP_689801			transmembrane and tetratricopeptide repeat							endoplasmic reticulum|integral to membrane	binding			ovary(2)	2																		---	---	---	---
CEP290	80184	broad.mit.edu	37	12	88524079	88524079	+	Frame_Shift_Del	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:88524079delT	uc001tar.2	-	9	979	c.635delA	c.(634-636)AACfs	p.N212fs	CEP290_uc001tat.2_5'Flank|CEP290_uc009zsl.1_RNA	NM_025114	NP_079390	O15078	CE290_HUMAN	centrosomal protein 290kDa	212	Potential.				cilium assembly|eye photoreceptor cell development|G2/M transition of mitotic cell cycle|hindbrain development|otic vesicle formation|positive regulation of transcription, DNA-dependent|pronephros development|protein transport	cell surface|centrosome|cytosol|nucleus|photoreceptor connecting cilium	protein binding			ovary(5)|breast(1)|pancreas(1)	7																		---	---	---	---
KITLG	4254	broad.mit.edu	37	12	88926063	88926063	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:88926063delA	uc001tav.2	-						KITLG_uc001taw.2_Intron|KITLG_uc009zso.1_Intron	NM_000899	NP_000890			KIT ligand isoform b precursor						cell adhesion|cell proliferation|hemopoiesis|male gonad development|positive regulation of DNA replication|signal transduction	cytoplasm|cytoskeleton|integral to membrane|plasma membrane	growth factor activity|identical protein binding|stem cell factor receptor binding			ovary(1)	1														Testicular_Cancer_Familial_Clustering_of				---	---	---	---
Unknown	0	broad.mit.edu	37	12	92720779	92720780	+	IGR	DEL	CT	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:92720779_92720780delCT								BTG1 (181106 upstream) : CLLU1OS (93090 downstream)																																			---	---	---	---
USP44	84101	broad.mit.edu	37	12	95911790	95911790	+	3'UTR	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:95911790delA	uc001teg.2	-	6					USP44_uc001teh.2_3'UTR|USP44_uc009zte.2_3'UTR	NM_001042403	NP_001035862			ubiquitin thiolesterase 44						anaphase|cell division|mitosis|negative regulation of mitotic anaphase-promoting complex activity|protein deubiquitination|regulation of spindle checkpoint|ubiquitin-dependent protein catabolic process	nucleus	protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			lung(1)|breast(1)|central_nervous_system(1)	3																		---	---	---	---
CCDC38	120935	broad.mit.edu	37	12	96284755	96284755	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:96284755delA	uc001tek.1	-							NM_182496	NP_872302			coiled-coil domain containing 38											skin(1)	1																		---	---	---	---
LTA4H	4048	broad.mit.edu	37	12	96410678	96410679	+	Intron	DEL	AA	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:96410678_96410679delAA	uc001ten.1	-						LTA4H_uc010suy.1_Intron|LTA4H_uc010suz.1_Intron|LTA4H_uc010sva.1_Intron|LTA4H_uc009ztj.2_5'Flank	NM_000895	NP_000886			leukotriene A4 hydrolase						hormone biosynthetic process|inflammatory response|leukotriene biosynthetic process|peptide catabolic process|prostanoid metabolic process|proteolysis	cytosol|nucleus	aminopeptidase activity|epoxide hydrolase activity|leukotriene-A4 hydrolase activity|metallopeptidase activity|protein binding|zinc ion binding			haematopoietic_and_lymphoid_tissue(1)	1																		---	---	---	---
UTP20	27340	broad.mit.edu	37	12	101760600	101760600	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:101760600delT	uc001tia.1	+							NM_014503	NP_055318			down-regulated in metastasis						endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|negative regulation of cell proliferation	90S preribosome|cytoplasm|nucleolus|nucleoplasm|preribosome, small subunit precursor|small-subunit processome	protein binding			ovary(2)|breast(2)	4																		---	---	---	---
HSP90B1	7184	broad.mit.edu	37	12	104335388	104335388	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:104335388delT	uc001tkb.1	+						HSP90B1_uc010swg.1_Intron|HSP90B1_uc009zui.1_Intron	NM_003299	NP_003290			heat shock protein 90kDa beta, member 1						actin rod assembly|anti-apoptosis|cellular response to ATP|ER-associated protein catabolic process|protein folding|protein transport|regulation of phosphoprotein phosphatase activity|response to hypoxia|sequestering of calcium ion	cytosol|endoplasmic reticulum lumen|endoplasmic reticulum membrane|melanosome|microsome|midbody|perinuclear region of cytoplasm	ATP binding|calcium ion binding|low-density lipoprotein particle receptor binding|protein phosphatase binding|RNA binding|unfolded protein binding|virion binding			ovary(2)|skin(1)	3					Rifabutin(DB00615)													---	---	---	---
TXNRD1	7296	broad.mit.edu	37	12	104725255	104725255	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:104725255delT	uc010swk.1	+						TXNRD1_uc010swl.1_Intron|TXNRD1_uc010swm.1_Intron|TXNRD1_uc010swn.1_Intron|TXNRD1_uc010swo.1_Intron|TXNRD1_uc010swp.1_Intron|TXNRD1_uc010swq.1_Intron|TXNRD1_uc001tku.2_Intron|TXNRD1_uc009zun.2_Intron	NM_001093771	NP_001087240			thioredoxin reductase 1 isoform 3						cell redox homeostasis|cellular lipid metabolic process|electron transport chain|nucleobase, nucleoside and nucleotide interconversion|signal transduction|transport	cytosol|nucleolus	electron carrier activity|flavin adenine dinucleotide binding|NADP binding|protein disulfide oxidoreductase activity|thioredoxin-disulfide reductase activity				0																		---	---	---	---
APPL2	55198	broad.mit.edu	37	12	105589059	105589059	+	Frame_Shift_Del	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:105589059delT	uc001tlf.1	-	14	1439	c.1221delA	c.(1219-1221)AAAfs	p.K407fs	APPL2_uc010swt.1_Frame_Shift_Del_p.K364fs|APPL2_uc001tlg.1_Frame_Shift_Del_p.K161fs|APPL2_uc010swu.1_Frame_Shift_Del_p.K413fs|APPL2_uc009zuq.2_Frame_Shift_Del_p.K364fs	NM_018171	NP_060641	Q8NEU8	DP13B_HUMAN	adaptor protein, phosphotyrosine interaction, PH	407	Required for RAB5A binding (By similarity).				cell cycle|cell proliferation|signal transduction	early endosome membrane|nucleus	protein binding			upper_aerodigestive_tract(1)	1																		---	---	---	---
RIC8B	55188	broad.mit.edu	37	12	107279649	107279649	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:107279649delT	uc001tlx.2	+						RIC8B_uc001tly.2_Intron|RIC8B_uc001tlz.2_Intron|RIC8B_uc009zur.2_Intron	NM_018157	NP_060627			resistance to inhibitors of cholinesterase 8						regulation of G-protein coupled receptor protein signaling pathway	cell cortex|cytosol|plasma membrane	G-protein alpha-subunit binding|guanyl-nucleotide exchange factor activity			ovary(1)	1																		---	---	---	---
C12orf51	283450	broad.mit.edu	37	12	112721116	112721116	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:112721116delA	uc009zwc.2	-							NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2																		---	---	---	---
IQCD	115811	broad.mit.edu	37	12	113645153	113645153	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:113645153delA	uc001tuv.1	-						IQCD_uc001tuu.2_Intron	NM_138451	NP_612460			IQ motif containing D											ovary(1)	1																		---	---	---	---
TBX5	6910	broad.mit.edu	37	12	114841450	114841451	+	Intron	INS	-	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:114841450_114841451insT	uc001tvo.2	-						TBX5_uc001tvp.2_Intron|TBX5_uc001tvq.2_Intron|TBX5_uc010syv.1_Intron	NM_181486	NP_852259			T-box 5 isoform 1						cardiac left ventricle formation|cell migration involved in coronary vasculogenesis|cell-cell signaling|embryonic arm morphogenesis|induction of apoptosis|negative regulation of cardiac muscle cell proliferation|negative regulation of cell migration|negative regulation of epithelial to mesenchymal transition|pericardium development|positive regulation of cardioblast differentiation|positive regulation of transcription from RNA polymerase II promoter|ventricular septum development	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(6)|pancreas(1)|skin(1)	8	Medulloblastoma(191;0.163)|all_neural(191;0.178)			BRCA - Breast invasive adenocarcinoma(302;0.0893)														---	---	---	---
RFC5	5985	broad.mit.edu	37	12	118458889	118458889	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:118458889delA	uc001twq.2	+						RFC5_uc010syx.1_Intron|RFC5_uc010syy.1_Intron|RFC5_uc010syz.1_Intron|RFC5_uc009zwr.2_Intron	NM_007370	NP_031396			replication factor C 5 isoform 1						cell cycle checkpoint|DNA strand elongation involved in DNA replication|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	DNA replication factor C complex|nucleoplasm	ATP binding|DNA clamp loader activity|enzyme binding				0	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)																	---	---	---	---
Unknown	0	broad.mit.edu	37	12	120706717	120706717	+	IGR	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:120706717delA								PXN (3154 upstream) : NME2P1 (13223 downstream)																																			---	---	---	---
RNF10	9921	broad.mit.edu	37	12	120990203	120990203	+	Intron	DEL	A	-	-	rs112757664		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:120990203delA	uc001typ.3	+						RNF10_uc010szk.1_Intron|RNF10_uc001tyq.3_Intron	NM_014868	NP_055683			ring finger protein 10						negative regulation of Schwann cell proliferation|positive regulation of myelination|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|nucleus	protein binding|transcription regulatory region DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)																	---	---	---	---
SPPL3	121665	broad.mit.edu	37	12	121202941	121202941	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:121202941delA	uc001tzd.2	-						SPPL3_uc009zwz.2_Intron|SPPL3_uc001tzc.2_Intron	NM_139015	NP_620584			signal peptide peptidase 3							integral to membrane	aspartic-type endopeptidase activity				0	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)																	---	---	---	---
HNF1A	6927	broad.mit.edu	37	12	121432115	121432115	+	Frame_Shift_Del	DEL	G	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:121432115delG	uc001tzg.2	+	4	885	c.862delG	c.(862-864)GGGfs	p.G288fs	HNF1A_uc001tze.1_Frame_Shift_Del_p.G288fs|HNF1A_uc001tzf.2_Frame_Shift_Del_p.G288fs|HNF1A_uc010szn.1_Frame_Shift_Del_p.G288fs	NM_000545	NP_000536	P20823	HNF1A_HUMAN	hepatic nuclear factor-1-alpha	288					glucose homeostasis|glucose import|insulin secretion|positive regulation of transcription initiation from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|renal glucose absorption	cytoplasm|nucleus|protein complex	DNA binding|protein dimerization activity|protein heterodimerization activity|protein homodimerization activity|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			liver(92)|large_intestine(15)|endometrium(6)|breast(2)|lung(1)	116	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)													Hepatic_Adenoma_Familial_Clustering_of				---	---	---	---
WDR66	144406	broad.mit.edu	37	12	122362025	122362025	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:122362025delT	uc009zxk.2	+							NM_144668	NP_653269			WD repeat domain 66								calcium ion binding			ovary(1)|skin(1)	2	all_neural(191;0.0496)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;0.000155)|Epithelial(86;0.000634)|BRCA - Breast invasive adenocarcinoma(302;0.248)														---	---	---	---
HIP1R	9026	broad.mit.edu	37	12	123338888	123338891	+	Intron	DEL	AAAA	-	-	rs34386328		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:123338888_123338891delAAAA	uc001udj.1	+						HIP1R_uc001udg.1_Intron|HIP1R_uc001udi.1_Intron|HIP1R_uc001udk.1_5'Flank	NM_003959	NP_003950			huntingtin interacting protein-1-related						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)														---	---	---	---
SBNO1	55206	broad.mit.edu	37	12	123794282	123794283	+	Frame_Shift_Ins	INS	-	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:123794282_123794283insT	uc010tap.1	-	25	3416_3417	c.3416_3417insA	c.(3415-3417)AATfs	p.N1139fs	SBNO1_uc009zxv.2_RNA|SBNO1_uc010tao.1_Frame_Shift_Ins_p.N1138fs|SBNO1_uc010taq.1_Frame_Shift_Ins_p.N90fs|SBNO1_uc001ues.1_Frame_Shift_Ins_p.N90fs	NM_018183	NP_060653	A3KN83	SBNO1_HUMAN	sno, strawberry notch homolog 1	1139							ATP binding|DNA binding|hydrolase activity			breast(5)|skin(2)|ovary(1)|kidney(1)	9	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000701)|Epithelial(86;0.00197)														---	---	---	---
SETD8	387893	broad.mit.edu	37	12	123889740	123889740	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:123889740delT	uc001uew.2	+						SETD8_uc001uex.2_Intron	NM_020382	NP_065115			SET domain-containing 8						cell division|mitosis|negative regulation of transcription from RNA polymerase II promoter|peptidyl-lysine monomethylation|regulation of DNA damage response, signal transduction by p53 class mediator|transcription, DNA-dependent	chromosome|nucleus	histone-lysine N-methyltransferase activity|p53 binding|transcription corepressor activity				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.00101)|Epithelial(86;0.00425)														---	---	---	---
DHX37	57647	broad.mit.edu	37	12	125438941	125438941	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:125438941delT	uc001ugy.2	-						DHX37_uc001ugz.1_5'Flank	NM_032656	NP_116045			DEAH (Asp-Glu-Ala-His) box polypeptide 37								ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;8.05e-05)|Epithelial(86;0.000486)|all cancers(50;0.00653)														---	---	---	---
PIWIL1	9271	broad.mit.edu	37	12	130838925	130838925	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:130838925delA	uc001uik.2	+						PIWIL1_uc001uij.1_Intron	NM_004764	NP_004755			piwi-like 1						gene silencing by RNA|meiosis|multicellular organismal development|regulation of translation|spermatid development	chromatoid body|P granule	mRNA binding|piRNA binding|protein binding			ovary(2)	2	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.02e-06)|Epithelial(86;3.85e-05)|all cancers(50;4.65e-05)														---	---	---	---
ULK1	8408	broad.mit.edu	37	12	132402066	132402066	+	Frame_Shift_Del	DEL	C	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:132402066delC	uc001uje.2	+	22	2561	c.2293delC	c.(2293-2295)CCCfs	p.P765fs		NM_003565	NP_003556	O75385	ULK1_HUMAN	Unc-51-like kinase 1	765					autophagy|protein localization|regulation of autophagy	autophagic vacuole|cytosol|pre-autophagosomal structure|ULK1-ATG13-FIP200 complex	ATP binding|protein complex binding|protein serine/threonine kinase activity			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.07e-08)|Epithelial(86;2.56e-07)|all cancers(50;3.01e-07)														---	---	---	---
ZMYM2	7750	broad.mit.edu	37	13	20640977	20640977	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:20640977delT	uc001umr.2	+						ZMYM2_uc001ums.2_Intron|ZMYM2_uc001umt.2_Intron|ZMYM2_uc001umv.2_Intron|ZMYM2_uc001umw.2_Intron	NM_003453	NP_003444			zinc finger protein 198						regulation of transcription, DNA-dependent|transcription, DNA-dependent	PML body	ubiquitin conjugating enzyme binding|zinc ion binding			lung(3)|ovary(2)|prostate(1)	6		all_cancers(29;8.65e-21)|all_epithelial(30;1.04e-18)|all_lung(29;6.75e-18)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;0.000148)|Epithelial(112;0.000249)|OV - Ovarian serous cystadenocarcinoma(117;0.00816)|Lung(94;0.0173)|LUSC - Lung squamous cell carcinoma(192;0.0856)														---	---	---	---
IFT88	8100	broad.mit.edu	37	13	21166616	21166616	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:21166616delT	uc001unh.2	+						IFT88_uc001uni.2_Intron|IFT88_uc001unj.2_Intron|IFT88_uc010tcq.1_Intron	NM_175605	NP_783195			intraflagellar transport 88 homolog isoform 1						cilium morphogenesis	centriole|intraflagellar transport particle B|microtubule basal body|microtubule-based flagellum	protein binding			ovary(1)	1		all_cancers(29;5.79e-25)|all_epithelial(30;2.57e-20)|all_lung(29;3.13e-16)|Lung SC(185;0.0262)|Ovarian(182;0.0825)|Hepatocellular(188;0.244)		all cancers(112;0.000667)|Epithelial(112;0.00119)|OV - Ovarian serous cystadenocarcinoma(117;0.0141)|Lung(94;0.0183)|LUSC - Lung squamous cell carcinoma(192;0.0528)														---	---	---	---
RPL21	6144	broad.mit.edu	37	13	27830671	27830671	+	3'UTR	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:27830671delA	uc001ura.2	+	6						NM_000982	NP_000973			ribosomal protein L21						endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit	RNA binding|structural constituent of ribosome				0		Lung SC(185;0.0156)	Colorectal(13;0.00042)|READ - Rectum adenocarcinoma(15;0.105)	all cancers(112;0.0287)|OV - Ovarian serous cystadenocarcinoma(117;0.118)|Epithelial(112;0.139)|GBM - Glioblastoma multiforme(144;0.21)														---	---	---	---
DCLK1	9201	broad.mit.edu	37	13	36521480	36521480	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:36521480delT	uc001uvf.2	-							NM_004734	NP_004725			doublecortin-like kinase 1						cell differentiation|central nervous system development|endosome transport|intracellular signal transduction|response to virus	integral to plasma membrane	ATP binding|protein serine/threonine kinase activity|receptor signaling protein activity			stomach(6)|ovary(2)|skin(1)	9		Breast(139;0.0147)|Lung SC(185;0.0685)|Prostate(109;0.122)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;1.72e-06)|Epithelial(112;4.24e-05)|BRCA - Breast invasive adenocarcinoma(63;0.00159)|OV - Ovarian serous cystadenocarcinoma(117;0.0158)|GBM - Glioblastoma multiforme(144;0.0638)														---	---	---	---
C13orf23	80209	broad.mit.edu	37	13	39598729	39598729	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:39598729delA	uc001uwy.2	-						C13orf23_uc001uwz.2_Intron	NM_025138	NP_079414			hypothetical protein LOC80209 isoform 1											ovary(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)	5		Lung NSC(96;6.01e-07)|Breast(139;0.00394)|Prostate(109;0.00676)|Lung SC(185;0.0548)|Hepatocellular(188;0.114)		all cancers(112;3.7e-08)|Epithelial(112;4.28e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00114)|BRCA - Breast invasive adenocarcinoma(63;0.00366)|GBM - Glioblastoma multiforme(144;0.0146)														---	---	---	---
AKAP11	11215	broad.mit.edu	37	13	42874486	42874486	+	Frame_Shift_Del	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:42874486delA	uc001uys.1	+	8	1779	c.1604delA	c.(1603-1605)CAAfs	p.Q535fs		NM_016248	NP_057332	Q9UKA4	AKA11_HUMAN	A-kinase anchor protein 11	535					intracellular protein kinase cascade	microtubule organizing center	protein kinase A binding|protein phosphatase 1 binding			ovary(1)|central_nervous_system(1)	2		Lung NSC(96;1.86e-05)|Prostate(109;0.0165)|Lung SC(185;0.0262)|Breast(139;0.0707)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000365)|GBM - Glioblastoma multiforme(144;0.00116)|BRCA - Breast invasive adenocarcinoma(63;0.19)														---	---	---	---
Unknown	0	broad.mit.edu	37	13	45894123	45894123	+	IGR	DEL	G	-	-	rs113044307		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:45894123delG								GTF2F2 (35886 upstream) : TPT1 (17181 downstream)																																			---	---	---	---
RB1	5925	broad.mit.edu	37	13	48954160	48954160	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:48954160delT	uc001vcb.2	+							NM_000321	NP_000312			retinoblastoma 1						androgen receptor signaling pathway|cell cycle arrest|chromatin remodeling|G1 phase of mitotic cell cycle|interspecies interaction between organisms|maintenance of mitotic sister chromatid cohesion|mitotic cell cycle G1/S transition checkpoint|myoblast differentiation|negative regulation of cell growth|negative regulation of protein kinase activity|negative regulation of S phase of mitotic cell cycle|negative regulation of sequence-specific DNA binding transcription factor activity|positive regulation of mitotic metaphase/anaphase transition|protein localization to chromosome, centromeric region|Ras protein signal transduction|regulation of centromere complex assembly|regulation of cohesin localization to chromatin|regulation of lipid kinase activity|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|sister chromatid biorientation	chromatin|PML body|Rb-E2F complex|SWI/SNF complex	androgen receptor binding|DNA binding|kinase binding|phosphoprotein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription factor binding|ubiquitin protein ligase binding	p.?(7)		lung(94)|eye(89)|central_nervous_system(47)|bone(22)|breast(21)|urinary_tract(17)|haematopoietic_and_lymphoid_tissue(14)|ovary(10)|prostate(9)|soft_tissue(8)|skin(7)|endometrium(5)|cervix(3)|liver(3)|salivary_gland(2)|stomach(2)|oesophagus(1)|adrenal_gland(1)|kidney(1)|gastrointestinal_tract_(site_indeterminate)(1)|pituitary(1)	358		all_cancers(8;6.9e-71)|all_epithelial(8;4.61e-22)|Acute lymphoblastic leukemia(8;1.1e-21)|all_hematologic(8;2.3e-21)|all_lung(13;1.51e-09)|Lung NSC(96;7.03e-07)|Breast(56;1.53e-05)|Prostate(109;0.000493)|Myeloproliferative disorder(33;0.0179)|Hepatocellular(98;0.0207)|all_neural(104;0.0227)|Glioma(44;0.0286)|Lung SC(185;0.0301)		GBM - Glioblastoma multiforme(2;9.98e-18)|LUSC - Lung squamous cell carcinoma(3;0.013)	Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)		6	D|Mis|N|F|S		retinoblastoma|sarcoma|breast|small cell lung	retinoblastoma|sarcoma|breast|small cell lung			Hereditary_Retinoblastoma	TCGA GBM(7;6.82e-08)|TSP Lung(12;0.097)|TCGA Ovarian(6;0.080)			---	---	---	---
FNDC3A	22862	broad.mit.edu	37	13	49741486	49741486	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:49741486delT	uc001vcm.2	+						FNDC3A_uc001vcn.2_Intron|FNDC3A_uc001vco.2_Intron|FNDC3A_uc001vcp.1_Intron|FNDC3A_uc001vcq.2_Intron	NM_001079673	NP_001073141			fibronectin type III domain containing 3A							Golgi membrane|integral to membrane				lung(2)	2		all_lung(13;7.44e-08)|Lung NSC(96;4.08e-06)|Breast(56;0.000111)|Prostate(109;0.00174)|Myeloproliferative disorder(33;0.0179)|Hepatocellular(98;0.0207)|Lung SC(185;0.187)|all_neural(104;0.19)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;2.94e-09)														---	---	---	---
CDADC1	81602	broad.mit.edu	37	13	49848636	49848637	+	Intron	DEL	AA	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:49848636_49848637delAA	uc001vcu.2	+						CDADC1_uc010tgk.1_Intron|CDADC1_uc001vcv.2_Intron	NM_030911	NP_112173			cytidine and dCMP deaminase domain containing 1								hydrolase activity|zinc ion binding			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)														---	---	---	---
CAB39L	81617	broad.mit.edu	37	13	49885133	49885133	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:49885133delA	uc001vcw.2	-						CAB39L_uc001vcx.2_Intron|CAB39L_uc010adf.2_Intron	NM_030925	NP_112187			calcium binding protein 39-like						cell cycle arrest|insulin receptor signaling pathway|regulation of fatty acid oxidation	cytosol	protein binding				0		Lung NSC(96;2.11e-05)|Breast(56;0.00017)|Prostate(109;0.00314)|Hepatocellular(98;0.0207)|Myeloproliferative disorder(33;0.163)|Lung SC(185;0.187)|all_neural(104;0.19)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;3.66e-09)|COAD - Colon adenocarcinoma(199;0.226)														---	---	---	---
RCBTB1	55213	broad.mit.edu	37	13	50141513	50141513	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:50141513delA	uc001vde.1	-							NM_018191	NP_060661			regulator of chromosome condensation (RCC1) and						cell cycle|chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				ovary(1)	1		Lung NSC(96;2.1e-05)|Breast(56;0.00015)|Prostate(109;0.00314)|Hepatocellular(98;0.0207)|Myeloproliferative disorder(33;0.163)|Lung SC(185;0.187)|all_neural(104;0.19)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;4.7e-09)														---	---	---	---
Unknown	0	broad.mit.edu	37	13	59156687	59156688	+	IGR	INS	-	TTCCTTCCTTCCTTCCTTCC	TTCCTTCCTTCCTTCCTTCC			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:59156687_59156688insTTCCTTCCTTCCTTCCTTCC								PCDH17 (853622 upstream) : None (None downstream)																																			---	---	---	---
DIS3	22894	broad.mit.edu	37	13	73337684	73337684	+	Frame_Shift_Del	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:73337684delT	uc001vix.3	-	16	2406	c.2032delA	c.(2032-2034)ATTfs	p.I678fs	DIS3_uc001viy.3_Frame_Shift_Del_p.I648fs|DIS3_uc001viz.2_RNA	NM_014953	NP_055768	Q9Y2L1	RRP44_HUMAN	DIS3 mitotic control isoform a	678					CUT catabolic process|exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|rRNA catabolic process|rRNA processing	cytosol|exosome (RNase complex)|nucleolus|nucleoplasm	3'-5'-exoribonuclease activity|endonuclease activity|guanyl-nucleotide exchange factor activity|protein binding|RNA binding			central_nervous_system(1)	1		Breast(118;0.0074)|Acute lymphoblastic leukemia(28;0.0195)		GBM - Glioblastoma multiforme(99;0.000181)											Multiple Myeloma(4;0.011)			---	---	---	---
GPR180	160897	broad.mit.edu	37	13	95271260	95271260	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:95271260delT	uc001vly.2	+						GPR180_uc001vlz.2_Intron|GPR180_uc010afi.2_Intron	NM_180989	NP_851320			G protein-coupled receptor 180 precursor							integral to membrane				breast(1)	1	all_neural(89;0.0684)|Medulloblastoma(90;0.163)																	---	---	---	---
ABCC4	10257	broad.mit.edu	37	13	95696129	95696129	+	Intron	DEL	A	-	-	rs4148539		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:95696129delA	uc001vmd.3	-						ABCC4_uc010afj.2_Intron|ABCC4_uc010afk.2_Intron	NM_005845	NP_005836			ATP-binding cassette, sub-family C, member 4						platelet activation|platelet degranulation	integral to membrane|membrane fraction|plasma membrane|platelet dense granule membrane	15-hydroxyprostaglandin dehydrogenase (NAD+) activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|chloride channel activity			central_nervous_system(3)|skin(1)	4	all_neural(89;0.0878)|Medulloblastoma(90;0.163)				Cefazolin(DB01327)													---	---	---	---
ABCC4	10257	broad.mit.edu	37	13	95714849	95714849	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:95714849delA	uc001vmd.3	-						ABCC4_uc010afj.2_Intron|ABCC4_uc010afk.2_Intron	NM_005845	NP_005836			ATP-binding cassette, sub-family C, member 4						platelet activation|platelet degranulation	integral to membrane|membrane fraction|plasma membrane|platelet dense granule membrane	15-hydroxyprostaglandin dehydrogenase (NAD+) activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|chloride channel activity			central_nervous_system(3)|skin(1)	4	all_neural(89;0.0878)|Medulloblastoma(90;0.163)				Cefazolin(DB01327)													---	---	---	---
ABCC4	10257	broad.mit.edu	37	13	95838868	95838868	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:95838868delA	uc001vmd.3	-						ABCC4_uc010afk.2_Intron|ABCC4_uc001vme.2_Intron|ABCC4_uc010tih.1_Intron|ABCC4_uc001vmf.2_Intron|ABCC4_uc010afl.1_Intron|ABCC4_uc010afm.1_Intron	NM_005845	NP_005836			ATP-binding cassette, sub-family C, member 4						platelet activation|platelet degranulation	integral to membrane|membrane fraction|plasma membrane|platelet dense granule membrane	15-hydroxyprostaglandin dehydrogenase (NAD+) activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|chloride channel activity			central_nervous_system(3)|skin(1)	4	all_neural(89;0.0878)|Medulloblastoma(90;0.163)				Cefazolin(DB01327)													---	---	---	---
TM9SF2	9375	broad.mit.edu	37	13	100206543	100206544	+	Intron	INS	-	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:100206543_100206544insT	uc001voj.1	+						TM9SF2_uc010afz.1_Intron	NM_004800	NP_004791			transmembrane 9 superfamily member 2 precursor						transport	endosome membrane|integral to plasma membrane				ovary(1)	1	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.218)																	---	---	---	---
METT11D1	64745	broad.mit.edu	37	14	21462443	21462444	+	Intron	DEL	TT	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:21462443_21462444delTT	uc001vyn.2	+						METT11D1_uc001vym.2_Intron|METT11D1_uc001vyo.2_Intron|METT11D1_uc001vyp.2_Intron|METT11D1_uc001vyq.2_Intron	NM_022734	NP_073571			methyltransferase 11 domain containing 1 isoform						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)														---	---	---	---
HNRNPC	3183	broad.mit.edu	37	14	21702398	21702398	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:21702398delA	uc001vzy.2	-						HNRNPC_uc001vzw.2_Intron|HNRNPC_uc001wad.2_Intron|HNRNPC_uc001vzx.2_Intron|HNRNPC_uc001vzz.2_Intron|HNRNPC_uc001waa.2_Intron|HNRNPC_uc010ail.2_Intron|HNRNPC_uc010tlq.1_Intron|HNRNPC_uc001wab.2_Intron|HNRNPC_uc001wac.2_Intron|HNRNPC_uc001waf.2_Intron|HNRNPC_uc001wae.2_Intron	NM_031314	NP_112604			heterogeneous nuclear ribonucleoprotein C							catalytic step 2 spliceosome|nucleoplasm	identical protein binding|nucleotide binding|RNA binding				0	all_cancers(95;0.00176)		Epithelial(56;1.08e-06)|all cancers(55;8.95e-06)	GBM - Glioblastoma multiforme(265;0.00783)														---	---	---	---
PSMB5	5693	broad.mit.edu	37	14	23502434	23502434	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:23502434delA	uc001wii.2	-						PSMB5_uc001wij.2_Intron|PSMB5_uc010tni.1_Intron	NM_002797	NP_002788			proteasome beta 5 subunit isoform 1						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	protein binding|threonine-type endopeptidase activity			ovary(1)	1	all_cancers(95;3.3e-05)			GBM - Glioblastoma multiforme(265;0.0121)	Bortezomib(DB00188)													---	---	---	---
SCFD1	23256	broad.mit.edu	37	14	31177400	31177400	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:31177400delT	uc001wqm.1	+						SCFD1_uc001wqn.1_Intron|SCFD1_uc010tpg.1_Intron|SCFD1_uc010tph.1_Intron|SCFD1_uc010amf.1_Intron|SCFD1_uc010tpi.1_Intron|SCFD1_uc010amd.1_Intron|SCFD1_uc010ame.1_Intron	NM_016106	NP_057190			vesicle transport-related protein isoform a						post-Golgi vesicle-mediated transport|protein transport|regulation of ER to Golgi vesicle-mediated transport|response to toxin|retrograde vesicle-mediated transport, Golgi to ER|vesicle docking involved in exocytosis	cis-Golgi network|endoplasmic reticulum membrane|Golgi cisterna membrane|Golgi-associated vesicle|plasma membrane	syntaxin-5 binding				0	Hepatocellular(127;0.0877)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.0119)	GBM - Glioblastoma multiforme(265;0.0181)														---	---	---	---
HECTD1	25831	broad.mit.edu	37	14	31583617	31583617	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:31583617delA	uc001wrc.1	-						HECTD1_uc001wra.1_Intron|HECTD1_uc001wrb.1_Intron|HECTD1_uc001wrd.1_Intron	NM_015382	NP_056197			HECT domain containing 1						protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	metal ion binding|protein binding|ubiquitin-protein ligase activity			ovary(3)|large_intestine(1)|lung(1)	5	Hepatocellular(127;0.0877)|Breast(36;0.176)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.111)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00617)														---	---	---	---
PSMA6	5687	broad.mit.edu	37	14	35786430	35786430	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:35786430delT	uc001wtd.2	+						KIAA0391_uc001wta.2_Intron|PSMA6_uc010tpt.1_Intron|PSMA6_uc010tpu.1_Intron	NM_002791	NP_002782			proteasome alpha 6 subunit						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 NF-kappaB transcription factor activity|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|nuclear matrix|polysome|proteasome core complex, alpha-subunit complex|sarcomere	NF-kappaB binding|purine ribonucleoside triphosphate binding|RNA binding|threonine-type endopeptidase activity				0	Breast(36;0.0519)|Hepatocellular(127;0.158)		Lung(238;3.81e-05)|LUAD - Lung adenocarcinoma(48;5.59e-05)|Epithelial(34;0.00342)|all cancers(34;0.00973)	GBM - Glioblastoma multiforme(112;0.0234)														---	---	---	---
CTAGE5	4253	broad.mit.edu	37	14	39818198	39818198	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:39818198delT	uc001wvg.3	+						CTAGE5_uc001wuz.3_Intron|CTAGE5_uc001wuy.3_Intron|CTAGE5_uc001wvb.3_Intron|CTAGE5_uc001wvc.3_Intron|CTAGE5_uc001wva.3_Intron|CTAGE5_uc001wvh.3_Intron|CTAGE5_uc001wvf.3_Intron|CTAGE5_uc001wvi.3_Intron|CTAGE5_uc010amz.2_Intron|CTAGE5_uc001wvj.3_Intron	NM_005930	NP_005921			CTAGE family, member 5 isoform 1								enzyme activator activity|protein binding				0	Hepatocellular(127;0.213)		LUAD - Lung adenocarcinoma(48;0.000565)|Lung(238;0.000711)	GBM - Glioblastoma multiforme(112;0.0475)														---	---	---	---
FAM179B	23116	broad.mit.edu	37	14	45480989	45480992	+	Intron	DEL	TGTG	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:45480989_45480992delTGTG	uc001wvv.2	+						FAM179B_uc001wvw.2_Intron|FAM179B_uc010anc.2_Intron	NM_015091	NP_055906			hypothetical protein LOC23116								binding			skin(2)|upper_aerodigestive_tract(1)	3																		---	---	---	---
C14orf106	55320	broad.mit.edu	37	14	45711146	45711147	+	Intron	INS	-	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:45711146_45711147insA	uc001wwf.2	-						C14orf106_uc010anh.2_Intron	NM_018353	NP_060823			chromosome 14 open reading frame 106						cell division|CenH3-containing nucleosome assembly at centromere|mitosis	chromosome, centromeric region|nucleoplasm	DNA binding				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	14	57442685	57442688	+	IGR	DEL	CCTT	-	-	rs36154882		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:57442685_57442688delCCTT								OTX2 (165501 upstream) : EXOC5 (226508 downstream)																																			---	---	---	---
SYT16	83851	broad.mit.edu	37	14	62567095	62567096	+	Intron	DEL	TT	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:62567095_62567096delTT	uc001xfu.1	+						SYT16_uc010tse.1_Intron	NM_031914	NP_114120			synaptotagmin XIV-like											central_nervous_system(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.0438)|BRCA - Breast invasive adenocarcinoma(234;0.118)														---	---	---	---
MPP5	64398	broad.mit.edu	37	14	67788093	67788093	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:67788093delT	uc001xjc.2	+						MPP5_uc001xjd.2_Intron|ATP6V1D_uc001xje.2_Intron	NM_022474	NP_071919			membrane protein, palmitoylated 5						tight junction assembly	cytoplasm|endomembrane system|tight junction	protein domain specific binding			ovary(1)	1				all cancers(60;0.000388)|OV - Ovarian serous cystadenocarcinoma(108;0.00762)|BRCA - Breast invasive adenocarcinoma(234;0.0106)														---	---	---	---
RAD51L1	5890	broad.mit.edu	37	14	68944322	68944322	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:68944322delT	uc001xkf.1	+						RAD51L1_uc001xkd.2_Intron|RAD51L1_uc010aqr.2_Intron|RAD51L1_uc001xke.2_Intron|RAD51L1_uc010aqs.1_Intron|RAD51L1_uc001xkg.1_Intron	NM_133509	NP_598193			RAD51-like 1 isoform 3						blood coagulation|DNA repair|reciprocal meiotic recombination	nucleoplasm	ATP binding|DNA binding|DNA-dependent ATPase activity				0				UCEC - Uterine corpus endometrioid carcinoma (185;0.163)|all cancers(60;3.9e-06)|OV - Ovarian serous cystadenocarcinoma(108;0.000103)|BRCA - Breast invasive adenocarcinoma(234;0.000421)				T	HMGA2	lipoma|uterine leiomyoma			Direct_reversal_of_damage|Homologous_recombination					---	---	---	---
ACOT4	122970	broad.mit.edu	37	14	74061572	74061572	+	Intron	DEL	T	-	-	rs138294555	by1000genomes	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:74061572delT	uc001xoo.2	+							NM_152331	NP_689544			acyl-CoA thioesterase 4						acyl-CoA metabolic process|dicarboxylic acid metabolic process|long-chain fatty acid metabolic process|saturated monocarboxylic acid metabolic process|short-chain fatty acid metabolic process|succinyl-CoA metabolic process|unsaturated monocarboxylic acid metabolic process|very long-chain fatty acid metabolic process	peroxisome	carboxylesterase activity|palmitoyl-CoA hydrolase activity				0				BRCA - Breast invasive adenocarcinoma(234;0.00331)														---	---	---	---
ABCD4	5826	broad.mit.edu	37	14	74772359	74772359	+	5'Flank	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:74772359delT	uc001xpr.2	-						ABCD4_uc001xps.2_5'Flank|ABCD4_uc001xpt.2_5'Flank|ABCD4_uc010tur.1_5'Flank|ABCD4_uc001xpu.2_5'Flank|ABCD4_uc001xpv.2_5'Flank	NM_005050	NP_005041			ATP-binding cassette, sub-family D, member 4							ATP-binding cassette (ABC) transporter complex|integral to membrane|peroxisomal membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			upper_aerodigestive_tract(2)|large_intestine(1)|ovary(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.00153)														---	---	---	---
KIAA0317	9870	broad.mit.edu	37	14	75137987	75137988	+	Intron	DEL	TT	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:75137987_75137988delTT	uc001xqb.2	-						KIAA0317_uc010tut.1_Intron|KIAA0317_uc001xqc.2_Intron	NM_001039479	NP_001034568			hypothetical protein LOC9870						protein ubiquitination involved in ubiquitin-dependent protein catabolic process	integral to membrane|intracellular	ubiquitin-protein ligase activity			ovary(2)|kidney(1)|central_nervous_system(1)|pancreas(1)	5				BRCA - Breast invasive adenocarcinoma(234;0.00404)														---	---	---	---
MLH3	27030	broad.mit.edu	37	14	75504985	75504985	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:75504985delA	uc001xrd.1	-						MLH3_uc001xre.1_Intron|MLH3_uc010tuy.1_Intron	NM_001040108	NP_001035197			mutL homolog 3 isoform 1						mismatch repair|reciprocal meiotic recombination	chiasma|MutLbeta complex|synaptonemal complex	ATP binding|ATPase activity|mismatched DNA binding|protein binding|satellite DNA binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00688)									MMR					---	---	---	---
NRXN3	9369	broad.mit.edu	37	14	80158456	80158456	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:80158456delT	uc001xun.2	+						NRXN3_uc001xum.1_Intron|NRXN3_uc001xup.2_Intron|NRXN3_uc001xuq.2_Intron|NRXN3_uc010asw.2_Intron|NRXN3_uc001xur.3_Intron	NM_004796	NP_004787			neurexin 3 isoform 1 precursor						axon guidance|cell adhesion	integral to plasma membrane	metal ion binding|receptor activity			ovary(3)|upper_aerodigestive_tract(2)|pancreas(2)|central_nervous_system(1)|breast(1)|skin(1)	10		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)														---	---	---	---
CCDC88C	440193	broad.mit.edu	37	14	91810085	91810086	+	Intron	INS	-	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:91810085_91810086insA	uc010aty.2	-						CCDC88C_uc010twk.1_Intron	NM_001080414	NP_001073883			DVL-binding protein DAPLE						microtubule cytoskeleton organization|protein destabilization|protein homooligomerization|regulation of protein phosphorylation|Wnt receptor signaling pathway	cytoplasm|insoluble fraction	microtubule binding|PDZ domain binding|protein self-association			ovary(3)	3		all_cancers(154;0.0468)																---	---	---	---
CATSPERB	79820	broad.mit.edu	37	14	92058236	92058236	+	Frame_Shift_Del	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:92058236delT	uc001xzs.1	-	23	2960	c.2820delA	c.(2818-2820)AAAfs	p.K940fs	CATSPERB_uc010aub.1_Frame_Shift_Del_p.K462fs	NM_024764	NP_079040	Q9H7T0	CTSRB_HUMAN	cation channel, sperm-associated, beta	940					cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane				breast(2)|skin(2)|ovary(1)	5		all_cancers(154;0.0663)|all_epithelial(191;0.236)																---	---	---	---
GOLGA5	9950	broad.mit.edu	37	14	93277768	93277768	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:93277768delT	uc001yaz.1	+							NM_005113	NP_005104			Golgi autoantigen, golgin subfamily a, 5						Golgi organization	cis-Golgi network|integral to membrane	ATP binding|protein homodimerization activity|protein tyrosine kinase activity|Rab GTPase binding			ovary(2)|lung(1)	3		all_cancers(154;0.0934)		COAD - Colon adenocarcinoma(157;0.222)				T	RET	papillary thyroid								---	---	---	---
CLMN	79789	broad.mit.edu	37	14	95676983	95676983	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:95676983delA	uc001yef.2	-							NM_024734	NP_079010			calmin							integral to membrane	actin binding				0				Epithelial(152;0.193)														---	---	---	---
BEGAIN	57596	broad.mit.edu	37	14	101004530	101004530	+	Frame_Shift_Del	DEL	C	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:101004530delC	uc010txa.1	-	6	1704	c.1558delG	c.(1558-1560)GACfs	p.D520fs	BEGAIN_uc001yhp.2_Frame_Shift_Del_p.D456fs|BEGAIN_uc001yhq.2_Frame_Shift_Del_p.D520fs	NM_001159531	NP_001153003	Q9BUH8	BEGIN_HUMAN	brain-enriched guanylate kinase-associated	520						cytoplasm|membrane	protein binding				0		Melanoma(154;0.212)																---	---	---	---
PPP2R5C	5527	broad.mit.edu	37	14	102276206	102276206	+	5'UTR	DEL	T	-	-	rs78200543		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:102276206delT	uc001yko.2	+	1					PPP2R5C_uc001ykj.3_Intron|PPP2R5C_uc010txr.1_Intron|PPP2R5C_uc001ykk.2_Intron|PPP2R5C_uc010txt.1_5'UTR|PPP2R5C_uc001ykn.2_5'UTR|PPP2R5C_uc001ykp.2_5'UTR|PPP2R5C_uc010txs.1_5'UTR	NM_002719	NP_002710			gamma isoform of regulatory subunit B56, protein						DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|negative regulation of cell proliferation|proteasomal ubiquitin-dependent protein catabolic process|signal transduction	chromosome, centromeric region|nucleus|protein phosphatase type 2A complex	protein binding|protein binding|protein phosphatase type 2A regulator activity|protein phosphatase type 2A regulator activity			ovary(1)|breast(1)	2																		---	---	---	---
CDC42BPB	9578	broad.mit.edu	37	14	103441860	103441860	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:103441860delA	uc001ymi.1	-							NM_006035	NP_006026			CDC42-binding protein kinase beta						actin cytoskeleton reorganization|establishment or maintenance of cell polarity|intracellular signal transduction	cell leading edge|cell-cell junction|cytoplasm|cytoskeleton	ATP binding|magnesium ion binding|protein serine/threonine kinase activity|small GTPase regulator activity			large_intestine(3)|skin(3)|lung(2)|stomach(1)|breast(1)|ovary(1)	11		Melanoma(154;0.155)		Colorectal(3;0.0129)|READ - Rectum adenocarcinoma(2;0.0419)|Epithelial(152;0.0474)|all cancers(159;0.199)														---	---	---	---
CDC42BPB	9578	broad.mit.edu	37	14	103441918	103441918	+	Intron	DEL	T	-	-	rs74642922		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:103441918delT	uc001ymi.1	-							NM_006035	NP_006026			CDC42-binding protein kinase beta						actin cytoskeleton reorganization|establishment or maintenance of cell polarity|intracellular signal transduction	cell leading edge|cell-cell junction|cytoplasm|cytoskeleton	ATP binding|magnesium ion binding|protein serine/threonine kinase activity|small GTPase regulator activity			large_intestine(3)|skin(3)|lung(2)|stomach(1)|breast(1)|ovary(1)	11		Melanoma(154;0.155)		Colorectal(3;0.0129)|READ - Rectum adenocarcinoma(2;0.0419)|Epithelial(152;0.0474)|all cancers(159;0.199)														---	---	---	---
Unknown	0	broad.mit.edu	37	14	103830565	103830565	+	IGR	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:103830565delT								EIF5 (19206 upstream) : MARK3 (21136 downstream)																																			---	---	---	---
INF2	64423	broad.mit.edu	37	14	105174185	105174185	+	Frame_Shift_Del	DEL	C	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:105174185delC	uc001ypb.2	+	8	1724	c.1581delC	c.(1579-1581)AGCfs	p.S527fs	INF2_uc010tyi.1_Frame_Shift_Del_p.S527fs|INF2_uc001ypc.2_Frame_Shift_Del_p.S527fs|INF2_uc010awz.1_RNA	NM_022489	NP_071934	Q27J81	INF2_HUMAN	inverted formin 2 isoform 1	527					actin cytoskeleton organization	endoplasmic reticulum|nucleus|perinuclear region of cytoplasm	actin binding|Rho GTPase binding				0		all_cancers(154;0.0896)|Melanoma(154;0.155)|all_epithelial(191;0.172)	all cancers(16;0.00188)|OV - Ovarian serous cystadenocarcinoma(23;0.0191)|Epithelial(46;0.047)|GBM - Glioblastoma multiforme(11;0.116)	Epithelial(152;0.176)														---	---	---	---
ADAM6	8755	broad.mit.edu	37	14	106963556	106963557	+	Intron	INS	-	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:106963556_106963557insT	uc010tyt.1	-											Parts of antibodies, mostly variable regions.												0																		---	---	---	---
HERC2	8924	broad.mit.edu	37	15	28491745	28491745	+	Intron	DEL	A	-	-	rs139539730		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:28491745delA	uc001zbj.2	-							NM_004667	NP_004658			hect domain and RLD 2						DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)														---	---	---	---
TJP1	7082	broad.mit.edu	37	15	30020390	30020391	+	Intron	DEL	TT	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:30020390_30020391delTT	uc001zcr.2	-						TJP1_uc010azl.2_Intron|TJP1_uc001zcq.2_Intron|TJP1_uc001zcs.2_Intron	NM_003257	NP_003248			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)														---	---	---	---
Unknown	0	broad.mit.edu	37	15	31128275	31128276	+	IGR	DEL	TT	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:31128275_31128276delTT								ARHGAP11B (150466 upstream) : MTMR15 (67779 downstream)																																			---	---	---	---
TRPM1	4308	broad.mit.edu	37	15	31359898	31359899	+	Intron	DEL	TT	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:31359898_31359899delTT	uc001zfm.2	-						TRPM1_uc010azy.2_Intron|TRPM1_uc001zfl.2_Intron|uc010ubm.1_5'Flank|MIR211_hsa-mir-211|MI0000287_5'Flank|uc010ubn.1_5'Flank	NM_002420	NP_002411			transient receptor potential cation channel,						cellular response to light stimulus|visual perception	integral to plasma membrane	calcium channel activity|receptor activity			ovary(2)|pancreas(1)|skin(1)	4		all_lung(180;1.92e-11)		all cancers(64;3.52e-16)|Epithelial(43;1.65e-11)|GBM - Glioblastoma multiforme(186;3.57e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00533)|COAD - Colon adenocarcinoma(236;0.0609)|Lung(196;0.199)														---	---	---	---
RYR3	6263	broad.mit.edu	37	15	33873557	33873557	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:33873557delA	uc001zhi.2	+						RYR3_uc010bar.2_Intron	NM_001036	NP_001027			ryanodine receptor 3						cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)														---	---	---	---
SLC12A6	9990	broad.mit.edu	37	15	34528550	34528550	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:34528550delT	uc001zhw.2	-						SLC12A6_uc001zhv.2_Intron|SLC12A6_uc001zhx.2_Intron|SLC12A6_uc001zhy.2_Intron|SLC12A6_uc001zhz.2_Intron|SLC12A6_uc001zia.2_Intron|SLC12A6_uc001zib.2_Intron|SLC12A6_uc001zic.2_Intron|SLC12A6_uc010bau.2_Intron|SLC12A6_uc001zid.2_Intron|SLC12A6_uc001zht.2_Intron|SLC12A6_uc001zhu.2_Intron	NM_133647	NP_598408			solute carrier family 12, member 6 isoform a						angiogenesis|cellular hypotonic salinity response|potassium ion transport|sodium ion transport	basolateral plasma membrane|integral to membrane	potassium:chloride symporter activity			central_nervous_system(5)|ovary(1)|skin(1)	7		all_lung(180;2.78e-08)		all cancers(64;3.43e-17)|GBM - Glioblastoma multiforme(113;2.6e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0301)	Potassium Chloride(DB00761)													---	---	---	---
EIF2AK4	440275	broad.mit.edu	37	15	40314943	40314943	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:40314943delT	uc001zkm.1	+						EIF2AK4_uc010bbj.1_Intron|EIF2AK4_uc001zkn.1_Intron|EIF2AK4_uc001zko.1_Intron|EIF2AK4_uc010bbk.1_Intron	NM_001013703	NP_001013725			eukaryotic translation initiation factor 2 alpha						translation	cytosolic ribosome	aminoacyl-tRNA ligase activity|ATP binding|eukaryotic translation initiation factor 2alpha kinase activity|protein homodimerization activity			lung(2)|stomach(1)|skin(1)	4		all_cancers(109;1.05e-19)|all_epithelial(112;4.38e-17)|Lung NSC(122;1.09e-12)|all_lung(180;3.56e-11)|Melanoma(134;0.0575)|Ovarian(310;0.0826)|Colorectal(260;0.119)		GBM - Glioblastoma multiforme(113;5.31e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0616)														---	---	---	---
SPINT1	6692	broad.mit.edu	37	15	41145073	41145074	+	Intron	DEL	AA	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:41145073_41145074delAA	uc001zna.2	+						SPINT1_uc001znb.2_Intron|SPINT1_uc001znc.2_Intron|SPINT1_uc010ucs.1_Intron	NM_181642	NP_857593			serine peptidase inhibitor, Kunitz type 1							extracellular region|membrane fraction	protein binding|serine-type endopeptidase inhibitor activity			ovary(1)	1		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;2.91e-05)|COAD - Colon adenocarcinoma(120;0.153)|BRCA - Breast invasive adenocarcinoma(123;0.166)														---	---	---	---
TMEM87A	25963	broad.mit.edu	37	15	42536228	42536228	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:42536228delA	uc010udd.1	-						TMEM87A_uc001zpf.3_Intron|TMEM87A_uc010bcu.1_Intron	NM_015497	NP_056312			transmembrane protein 87A isoform 1							integral to membrane				ovary(1)	1		all_cancers(109;4.28e-16)|all_epithelial(112;1.04e-14)|Lung NSC(122;5.01e-09)|all_lung(180;2.24e-08)|Melanoma(134;0.0574)|Colorectal(260;0.152)		GBM - Glioblastoma multiforme(94;1.03e-06)														---	---	---	---
GANC	2595	broad.mit.edu	37	15	42579747	42579747	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:42579747delT	uc001zpi.2	+						GANC_uc001zph.2_Intron|GANC_uc001zpj.1_Intron	NM_198141	NP_937784			glucosidase, alpha; neutral C						carbohydrate metabolic process		carbohydrate binding|maltose alpha-glucosidase activity			central_nervous_system(2)	2		all_cancers(109;3.08e-16)|all_epithelial(112;7.48e-15)|Lung NSC(122;3.08e-09)|all_lung(180;1.48e-08)|Melanoma(134;0.0574)|Colorectal(260;0.153)		GBM - Glioblastoma multiforme(94;1.06e-06)														---	---	---	---
UBR1	197131	broad.mit.edu	37	15	43316873	43316873	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:43316873delA	uc001zqq.2	-						UBR1_uc010udk.1_Intron	NM_174916	NP_777576			ubiquitin protein ligase E3 component n-recognin						cellular response to leucine|negative regulation of TOR signaling cascade	cytosol	leucine binding|zinc ion binding			lung(1)	1		all_cancers(109;4.32e-15)|all_epithelial(112;4.05e-13)|Lung NSC(122;1.75e-08)|all_lung(180;2e-07)|Melanoma(134;0.0179)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;4.08e-07)|COAD - Colon adenocarcinoma(120;0.185)|Colorectal(105;0.214)														---	---	---	---
CTDSPL2	51496	broad.mit.edu	37	15	44741008	44741008	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:44741008delA	uc001ztr.2	+						CTDSPL2_uc001zts.2_Intron|CTDSPL2_uc001ztt.2_Intron	NM_016396	NP_057480			CTD (carboxy-terminal domain, RNA polymerase II,								phosphoprotein phosphatase activity				0		all_cancers(109;4.36e-14)|all_epithelial(112;9.8e-12)|Lung NSC(122;1.66e-07)|all_lung(180;1.47e-06)|Melanoma(134;0.0122)		all cancers(107;1.02e-20)|GBM - Glioblastoma multiforme(94;1.49e-06)|COAD - Colon adenocarcinoma(120;0.0857)|Colorectal(105;0.0905)														---	---	---	---
SLC28A2	9153	broad.mit.edu	37	15	45561372	45561372	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:45561372delA	uc001zva.2	+							NM_004212	NP_004203			solute carrier family 28 (sodium-coupled						nucleobase, nucleoside and nucleotide metabolic process	integral to plasma membrane|membrane fraction	nucleoside binding|nucleoside:sodium symporter activity|purine nucleoside transmembrane transporter activity			ovary(4)	4		all_cancers(109;8.53e-07)|all_epithelial(112;1.39e-05)|Lung NSC(122;8.3e-05)|all_lung(180;0.000547)|Melanoma(134;0.0417)		all cancers(107;3.77e-16)|GBM - Glioblastoma multiforme(94;2.71e-06)														---	---	---	---
C15orf33	196951	broad.mit.edu	37	15	49658246	49658246	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:49658246delT	uc001zxl.2	-							NM_152647	NP_689860			hypothetical protein LOC196951											ovary(1)	1		all_lung(180;0.00187)		all cancers(107;3.45e-08)|GBM - Glioblastoma multiforme(94;0.000124)														---	---	---	---
CCPG1	9236	broad.mit.edu	37	15	55783155	55783155	+	Intron	DEL	A	-	-	rs74830467		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:55783155delA	uc002acy.2	-						DYX1C1_uc010ugh.1_Intron|DYX1C1_uc010ugi.1_Intron|DYX1C1_uc002adb.2_Intron|DYX1C1_uc002adc.2_Intron|DYX1C1_uc002add.2_Intron	NM_020739	NP_065790			cell cycle progression 1 isoform 2						cell cycle	integral to membrane				ovary(1)	1				all cancers(107;0.0354)														---	---	---	---
SLTM	79811	broad.mit.edu	37	15	59205678	59205678	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:59205678delA	uc002afp.2	-						SLTM_uc002afo.2_Intron|SLTM_uc002afq.2_Intron|SLTM_uc010bgd.2_Intron|SLTM_uc002afr.1_Intron	NM_024755	NP_079031			modulator of estrogen induced transcription						apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleotide binding|RNA binding			ovary(1)	1																		---	---	---	---
FAM81A	145773	broad.mit.edu	37	15	59806474	59806474	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:59806474delT	uc002agc.2	+							NM_152450	NP_689663			hypothetical protein LOC145773											ovary(1)	1																		---	---	---	---
RORA	6095	broad.mit.edu	37	15	60970723	60970723	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:60970723delA	uc002agx.2	-							NM_134261	NP_599023			RAR-related orphan receptor A isoform a						positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			large_intestine(1)|ovary(1)	2																		---	---	---	---
HERC1	8925	broad.mit.edu	37	15	63953131	63953131	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:63953131delA	uc002amp.2	-							NM_003922	NP_003913			hect domain and RCC1-like domain 1						protein modification process|transport	cytosol|Golgi apparatus|membrane	acid-amino acid ligase activity|ARF guanyl-nucleotide exchange factor activity			ovary(6)|breast(6)|lung(5)|central_nervous_system(2)	19																		---	---	---	---
TRIP4	9325	broad.mit.edu	37	15	64686385	64686385	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:64686385delT	uc002anm.2	+							NM_016213	NP_057297			thyroid hormone receptor interactor 4						positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	ligand-dependent nuclear receptor binding|transcription coactivator activity|zinc ion binding			ovary(1)|kidney(1)|skin(1)	3																		---	---	---	---
PDCD7	10081	broad.mit.edu	37	15	65411613	65411613	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:65411613delA	uc002aol.2	-							NM_005707	NP_005698			programmed cell death 7						apoptosis|induction of apoptosis|response to glucocorticoid stimulus	U12-type spliceosomal complex					0																		---	---	---	---
DENND4A	10260	broad.mit.edu	37	15	65960549	65960549	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:65960549delT	uc002aph.2	-						DENND4A_uc002api.2_Intron	NM_005848	NP_005839			DENN/MADD domain containing 4A isoform 2						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4																		---	---	---	---
LOC145837	145837	broad.mit.edu	37	15	69770238	69770243	+	Intron	DEL	AAAAAA	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:69770238_69770243delAAAAAA	uc002asf.1	+						LOC145837_uc002asg.1_Intron|LOC145837_uc010bij.1_Intron					Homo sapiens cDNA clone IMAGE:5189446.												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	15	73723875	73723876	+	IGR	INS	-	CTTT	CTTT	rs113067423	by1000genomes	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:73723875_73723876insCTTT								HCN4 (62270 upstream) : C15orf60 (11623 downstream)																																			---	---	---	---
NRG4	145957	broad.mit.edu	37	15	76301752	76301752	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:76301752delT	uc002bbo.2	-						NRG4_uc010bkm.1_Intron|NRG4_uc002bbn.2_Intron|NRG4_uc010bkn.2_Intron|NRG4_uc010bko.2_Intron|NRG4_uc002bbp.2_5'Flank	NM_138573	NP_612640			neuregulin 4							extracellular region|integral to membrane|plasma membrane	growth factor activity				0																		---	---	---	---
ETFA	2108	broad.mit.edu	37	15	76576183	76576183	+	Intron	DEL	A	-	-	rs144403864		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:76576183delA	uc002bbt.2	-						ETFA_uc010bkq.1_Intron|ETFA_uc002bbu.1_Intron	NM_000126	NP_000117			electron transfer flavoprotein, alpha						respiratory electron transport chain|transport	mitochondrial matrix	electron carrier activity|flavin adenine dinucleotide binding|oxidoreductase activity				0																		---	---	---	---
GOLGA6L10	647042	broad.mit.edu	37	15	83014189	83014190	+	Intron	DEL	AA	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:83014189_83014190delAA	uc010unt.1	-						uc002bhl.2_Intron|uc002bhm.2_Intron|GOLGA6L10_uc010uny.1_Intron|GOLGA6L10_uc002bia.1_5'Flank					Homo sapiens cDNA FLJ40113 fis, clone TESTI2008621.												0																		---	---	---	---
C15orf40	123207	broad.mit.edu	37	15	83679324	83679324	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:83679324delT	uc010uoo.1	-						C15orf40_uc010uon.1_Intron|C15orf40_uc002bjm.2_Intron|C15orf40_uc010uop.1_Intron|C15orf40_uc010uoq.1_Intron|C15orf40_uc010uor.1_Intron	NM_001160115	NP_001153587			hypothetical protein LOC123207 isoform d											skin(1)	1																		---	---	---	---
TM6SF1	53346	broad.mit.edu	37	15	83805312	83805312	+	Frame_Shift_Del	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:83805312delT	uc002bjp.2	+	10	1110	c.1001delT	c.(1000-1002)CTTfs	p.L334fs	TM6SF1_uc010bmq.2_Frame_Shift_Del_p.L303fs|TM6SF1_uc002bjq.2_3'UTR|TM6SF1_uc010bmr.2_RNA|TM6SF1_uc002bjr.2_Frame_Shift_Del_p.L186fs	NM_023003	NP_075379	Q9BZW5	TM6S1_HUMAN	transmembrane 6 superfamily member 1 isoform 1	334	Helical; (Potential).					integral to membrane				ovary(1)	1																		---	---	---	---
ADAMTSL3	57188	broad.mit.edu	37	15	84442161	84442161	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:84442161delA	uc002bjz.3	+						ADAMTSL3_uc002bjy.1_Intron|ADAMTSL3_uc010bmt.1_Intron|ADAMTSL3_uc010bmu.1_Intron	NM_207517	NP_997400			ADAMTS-like 3 precursor							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)															---	---	---	---
ADAMTSL3	57188	broad.mit.edu	37	15	84558773	84558773	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:84558773delA	uc002bjz.3	+						ADAMTSL3_uc010bmt.1_Intron|ADAMTSL3_uc010bmu.1_Intron	NM_207517	NP_997400			ADAMTS-like 3 precursor							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)															---	---	---	---
Unknown	0	broad.mit.edu	37	15	84721785	84721785	+	IGR	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:84721785delT								ADAMTSL3 (13194 upstream) : LOC388152 (145815 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	15	84773625	84773625	+	IGR	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:84773625delT								ADAMTSL3 (65034 upstream) : LOC388152 (93975 downstream)																																			---	---	---	---
ABHD2	11057	broad.mit.edu	37	15	89728843	89728843	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:89728843delA	uc002bnj.2	+						ABHD2_uc002bnk.2_Intron	NM_007011	NP_008942			alpha/beta hydrolase domain containing protein							integral to membrane	carboxylesterase activity			ovary(1)|lung(1)	2	Lung NSC(78;0.0472)|all_lung(78;0.089)																	---	---	---	---
POLR3K	51728	broad.mit.edu	37	16	101544	101545	+	Intron	INS	-	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:101544_101545insT	uc002cfi.1	-						SNRNP25_uc002cfj.3_5'Flank	NM_016310	NP_057394			DNA directed RNA polymerase III polypeptide K						innate immune response|response to virus|transcription from RNA polymerase III promoter	DNA-directed RNA polymerase III complex	DNA binding|DNA-directed RNA polymerase activity|zinc ion binding				0		all_cancers(16;9.01e-08)|all_epithelial(16;7.64e-07)|Hepatocellular(780;0.000325)|Lung NSC(18;0.0104)|all_lung(18;0.0239)																---	---	---	---
MRPL28	10573	broad.mit.edu	37	16	418782	418782	+	Intron	DEL	G	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:418782delG	uc002cgr.1	-						MRPL28_uc010bqu.1_Intron|MRPL28_uc002cgs.1_Intron|MRPL28_uc002cgt.1_Intron	NM_006428	NP_006419			mitochondrial ribosomal protein L28 precursor						translation	mitochondrial ribosome	protein binding|structural constituent of ribosome				0		Hepatocellular(16;0.000105)|Lung NSC(18;0.0324)|all_lung(18;0.064)																---	---	---	---
ZNF597	146434	broad.mit.edu	37	16	3490634	3490634	+	Intron	DEL	A	-	-	rs79841297		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:3490634delA	uc002cvd.2	-							NM_152457	NP_689670			zinc finger protein 597						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0																		---	---	---	---
SRL	6345	broad.mit.edu	37	16	4247598	4247598	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:4247598delT	uc002cvz.3	-						SRL_uc002cvy.3_Intron	NM_001098814	NP_001092284			sarcalumenin							sarcoplasmic reticulum lumen	GTP binding|GTPase activity			ovary(3)|skin(2)	5																		---	---	---	---
SNX29	92017	broad.mit.edu	37	16	12293432	12293433	+	Intron	INS	-	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:12293432_12293433insA	uc002dby.3	+						SNX29_uc010uyx.1_Intron	NM_001080530	NP_001073999			sorting nexin 29						cell communication		phosphatidylinositol binding			ovary(1)	1																		---	---	---	---
PDXDC1	23042	broad.mit.edu	37	16	15132211	15132212	+	Intron	INS	-	AAAGTTG	AAAGTTG	rs147448533	by1000genomes	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:15132211_15132212insAAAGTTG	uc002ddc.2	+						NTAN1_uc002ddd.2_Intron|NTAN1_uc010uzo.1_Intron	NM_015027	NP_055842			pyridoxal-dependent decarboxylase domain						carboxylic acid metabolic process		carboxy-lyase activity|protein binding|pyridoxal phosphate binding			skin(1)	1					Pyridoxal Phosphate(DB00114)													---	---	---	---
RRN3	54700	broad.mit.edu	37	16	15164886	15164886	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:15164886delA	uc002dde.2	-						PDXDC1_uc002ddc.2_Intron|RRN3_uc010uzp.1_Intron|RRN3_uc010uzq.1_Intron	NM_018427	NP_060897			RRN3 RNA polymerase I transcription factor						regulation of transcription, DNA-dependent|transcription initiation from RNA polymerase I promoter	nucleolus|nucleoplasm				ovary(1)	1																		---	---	---	---
XYLT1	64131	broad.mit.edu	37	16	17451988	17451988	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:17451988delT	uc002dfa.2	-							NM_022166	NP_071449			xylosyltransferase I						glycosaminoglycan biosynthetic process	endoplasmic reticulum membrane|extracellular region|Golgi membrane|integral to membrane	acetylglucosaminyltransferase activity|protein xylosyltransferase activity			ovary(4)	4																		---	---	---	---
TMC7	79905	broad.mit.edu	37	16	19049526	19049526	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:19049526delT	uc002dfq.2	+						TMC7_uc010vao.1_Intron|TMC7_uc002dfp.2_Intron|TMC7_uc010vap.1_Intron	NM_024847	NP_079123			transmembrane channel-like 7 isoform a							integral to membrane				skin(2)|ovary(1)	3																		---	---	---	---
ACSM2B	348158	broad.mit.edu	37	16	20557918	20557918	+	Intron	DEL	C	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:20557918delC	uc002dhj.3	-						ACSM2B_uc002dhk.3_Intron|ACSM2B_uc010bwf.1_Intron	NM_182617	NP_872423			acyl-CoA synthetase medium-chain family member						fatty acid metabolic process|xenobiotic metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|CoA-ligase activity|metal ion binding			skin(3)|ovary(1)|central_nervous_system(1)	5																		---	---	---	---
DNAH3	55567	broad.mit.edu	37	16	21142778	21142781	+	Intron	DEL	AAGG	-	-	rs34778078		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:21142778_21142781delAAGG	uc010vbe.1	-						DNAH3_uc002die.2_Intron	NM_017539	NP_060009			dynein, axonemal, heavy chain 3						ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)														---	---	---	---
Unknown	0	broad.mit.edu	37	16	28943210	28943211	+	Intron	INS	-	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:28943210_28943211insG	uc010vct.1	-						CD19_uc010byo.1_5'Flank|CD19_uc002drs.2_5'Flank					RecName: Full=Nuclear pore complex-interacting protein-like 2; Flags: Precursor;																														---	---	---	---
N4BP1	9683	broad.mit.edu	37	16	48579939	48579940	+	Intron	DEL	AA	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:48579939_48579940delAA	uc002efp.2	-							NM_153029	NP_694574			Nedd4 binding protein 1						negative regulation of proteasomal ubiquitin-dependent protein catabolic process|negative regulation of protein ubiquitination	nucleolus|PML body					0		all_cancers(37;0.179)|all_lung(18;0.11)																---	---	---	---
CYLD	1540	broad.mit.edu	37	16	50826572	50826572	+	Frame_Shift_Del	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:50826572delT	uc002egp.1	+	16	2721	c.2306delT	c.(2305-2307)ATTfs	p.I769fs	CYLD_uc010cbs.1_Frame_Shift_Del_p.I766fs|CYLD_uc002egq.1_Frame_Shift_Del_p.I766fs|CYLD_uc002egr.1_Frame_Shift_Del_p.I766fs	NM_015247	NP_056062	Q9NQC7	CYLD_HUMAN	ubiquitin carboxyl-terminal hydrolase CYLD	769					cell cycle|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|protein K63-linked deubiquitination|regulation of microtubule cytoskeleton organization|regulation of mitotic cell cycle|translation|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway	cytosol|extrinsic to internal side of plasma membrane|microtubule|perinuclear region of cytoplasm|ribosome	proline-rich region binding|protein kinase binding|structural constituent of ribosome|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding	p.I769fs*7(1)		skin(19)|large_intestine(3)|haematopoietic_and_lymphoid_tissue(3)|central_nervous_system(3)	28		all_cancers(37;0.0156)						Mis|N|F|S		cylindroma	cylindroma			Familial_Cylindromatosis|Multiple_Trichoepithelioma_Familial				---	---	---	---
RPGRIP1L	23322	broad.mit.edu	37	16	53721714	53721714	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:53721714delA	uc002ehp.2	-						RPGRIP1L_uc002eho.3_Intron|RPGRIP1L_uc010vgy.1_Intron|RPGRIP1L_uc010cbx.2_Intron|RPGRIP1L_uc010vgz.1_Intron|RPGRIP1L_uc002ehq.1_Intron	NM_015272	NP_056087			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)																---	---	---	---
Unknown	0	broad.mit.edu	37	16	55005968	55005968	+	IGR	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:55005968delT								IRX5 (37575 upstream) : IRX6 (352503 downstream)																																			---	---	---	---
CIAPIN1	57019	broad.mit.edu	37	16	57473398	57473399	+	Intron	INS	-	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:57473398_57473399insA	uc002ell.1	-						CIAPIN1_uc002elk.1_Intron|CIAPIN1_uc002elm.1_Intron|CIAPIN1_uc002eln.1_Intron|CIAPIN1_uc010cda.1_Intron|CIAPIN1_uc002elo.1_Intron|CIAPIN1_uc010vhm.1_Intron	NM_020313	NP_064709			cytokine induced apoptosis inhibitor 1						anti-apoptosis|apoptosis	cytoplasm|nucleolus					0																		---	---	---	---
CNOT1	23019	broad.mit.edu	37	16	58587613	58587613	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:58587613delA	uc002env.2	-						CNOT1_uc002enw.2_Intron|CNOT1_uc002enu.3_Intron|CNOT1_uc002enx.2_Intron|CNOT1_uc002enz.1_Intron|CNOT1_uc010vik.1_5'Flank	NM_016284	NP_057368			CCR4-NOT transcription complex, subunit 1						nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol				ovary(4)|central_nervous_system(2)	6				Kidney(780;0.0722)|OV - Ovarian serous cystadenocarcinoma(108;0.173)|Epithelial(162;0.239)														---	---	---	---
CNOT1	23019	broad.mit.edu	37	16	58622855	58622855	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:58622855delA	uc002env.2	-						CNOT1_uc002enw.2_Intron|CNOT1_uc002enu.3_Intron|CNOT1_uc002enx.2_Intron|CNOT1_uc002enz.1_Intron	NM_016284	NP_057368			CCR4-NOT transcription complex, subunit 1						nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol				ovary(4)|central_nervous_system(2)	6				Kidney(780;0.0722)|OV - Ovarian serous cystadenocarcinoma(108;0.173)|Epithelial(162;0.239)														---	---	---	---
NAE1	8883	broad.mit.edu	37	16	66844128	66844128	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:66844128delA	uc002eqf.2	-						NAE1_uc002eqe.2_Intron|NAE1_uc002eqg.2_Intron|NAE1_uc010cdv.2_Intron	NM_003905	NP_003896			NEDD8 activating enzyme E1 subunit 1 isoform a						apoptosis|cell cycle|DNA replication|mitotic cell cycle DNA replication checkpoint|protein neddylation|signal transduction	cytoplasm|insoluble fraction|plasma membrane	catalytic activity|protein heterodimerization activity			ovary(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0914)|Epithelial(162;0.214)	Adenosine triphosphate(DB00171)													---	---	---	---
PHLPP2	23035	broad.mit.edu	37	16	71710659	71710659	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:71710659delT	uc002fax.2	-						PHLPP2_uc002fav.2_Intron|PHLPP2_uc010cgf.2_Intron	NM_015020	NP_055835			PH domain and leucine rich repeat protein							cytoplasm|membrane|nucleus	metal ion binding|phosphoprotein phosphatase activity			ovary(1)|central_nervous_system(1)	2																		---	---	---	---
GCSH	2653	broad.mit.edu	37	16	81116351	81116351	+	3'UTR	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:81116351delT	uc002fgd.2	-	5					GCSH_uc002fge.2_RNA	NM_004483	NP_004474			glycine cleavage system protein H (aminomethyl							glycine cleavage complex|mitochondrion	aminomethyltransferase activity				0					Glycine(DB00145)													---	---	---	---
GCSH	2653	broad.mit.edu	37	16	81121102	81121102	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:81121102delA	uc002fgd.2	-						GCSH_uc002fge.2_Intron	NM_004483	NP_004474			glycine cleavage system protein H (aminomethyl							glycine cleavage complex|mitochondrion	aminomethyltransferase activity				0					Glycine(DB00145)													---	---	---	---
CRISPLD2	83716	broad.mit.edu	37	16	84900431	84900431	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:84900431delT	uc010voh.1	+						CRISPLD2_uc010vog.1_Intron|CRISPLD2_uc002fio.2_Intron|CRISPLD2_uc002fim.2_Intron|CRISPLD2_uc002fin.3_Intron	NM_031476	NP_113664			cysteine-rich secretory protein LCCL domain							extracellular region|transport vesicle					0																		---	---	---	---
Unknown	0	broad.mit.edu	37	16	85848160	85848160	+	IGR	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:85848160delT								COX4I1 (7555 upstream) : IRF8 (84614 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	16	87072314	87072319	+	IGR	DEL	AGAGAA	-	-	rs67597393		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:87072314_87072319delAGAGAA								FOXL1 (457011 upstream) : FBXO31 (290625 downstream)																																			---	---	---	---
ZC3H18	124245	broad.mit.edu	37	16	88666204	88666204	+	Frame_Shift_Del	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:88666204delA	uc002fky.2	+	6	1136	c.936delA	c.(934-936)TTAfs	p.L312fs	ZC3H18_uc010voy.1_Frame_Shift_Del_p.L195fs|ZC3H18_uc010voz.1_Frame_Shift_Del_p.L336fs	NM_144604	NP_653205	Q86VM9	ZCH18_HUMAN	zinc finger CCCH-type containing 18	312						nucleus	nucleic acid binding|zinc ion binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.0542)														---	---	---	---
RPH3AL	9501	broad.mit.edu	37	17	69317	69318	+	Intron	INS	-	TT	TT	rs74366498		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:69317_69318insTT	uc002frd.1	-						RPH3AL_uc010vpy.1_Intron|RPH3AL_uc002fre.1_Intron|RPH3AL_uc002frf.1_Intron|RPH3AL_uc010cjl.1_Intron	NM_006987	NP_008918			rabphilin 3A-like (without C2 domains)						exocytosis|intracellular protein transport	transport vesicle membrane	cytoskeletal protein binding|Rab GTPase binding|zinc ion binding			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.023)|all cancers(1;4.96e-06)|Epithelial(1;2.86e-05)|BRCA - Breast invasive adenocarcinoma(1;0.00453)|OV - Ovarian serous cystadenocarcinoma(1;0.0716)|LUAD - Lung adenocarcinoma(1115;0.102)|COAD - Colon adenocarcinoma(4;0.107)														---	---	---	---
MYO1C	4641	broad.mit.edu	37	17	1373321	1373321	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:1373321delA	uc002fsp.2	-						MYO1C_uc002fsn.2_Intron|MYO1C_uc002fso.2_Intron|MYO1C_uc010vqj.1_Intron	NM_001080779	NP_001074248			myosin IC isoform a						mRNA transport|protein transport|transmembrane transport	basal plasma membrane|cytoplasm|filamentous actin|lateral plasma membrane|nuclear pore|nucleolus|nucleoplasm|stereocilium membrane	actin binding|ATP binding|calmodulin binding|motor activity				0				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)														---	---	---	---
MYO1C	4641	broad.mit.edu	37	17	1387335	1387335	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:1387335delA	uc002fsp.2	-						MYO1C_uc002fsn.2_Intron|MYO1C_uc002fso.2_Intron|MYO1C_uc010vqj.1_Intron|MYO1C_uc010vqk.1_Intron	NM_001080779	NP_001074248			myosin IC isoform a						mRNA transport|protein transport|transmembrane transport	basal plasma membrane|cytoplasm|filamentous actin|lateral plasma membrane|nuclear pore|nucleolus|nucleoplasm|stereocilium membrane	actin binding|ATP binding|calmodulin binding|motor activity				0				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)														---	---	---	---
ZZEF1	23140	broad.mit.edu	37	17	4009253	4009253	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:4009253delT	uc002fxe.2	-						ZZEF1_uc002fxk.1_Intron	NM_015113	NP_055928			zinc finger, ZZ type with EF hand domain 1								calcium ion binding|zinc ion binding			ovary(2)|central_nervous_system(1)|pancreas(1)	4																		---	---	---	---
WSCD1	23302	broad.mit.edu	37	17	6023442	6023442	+	Intron	DEL	C	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:6023442delC	uc010cli.2	+						WSCD1_uc002gcn.2_Intron|WSCD1_uc002gco.2_Intron|WSCD1_uc010clj.2_Intron	NM_015253	NP_056068			WSC domain containing 1							integral to membrane	sulfotransferase activity				0																		---	---	---	---
DULLARD	23399	broad.mit.edu	37	17	7150790	7150790	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:7150790delT	uc002gfd.2	-						DULLARD_uc002gfe.2_Intron|DULLARD_uc002gff.2_Intron|DULLARD_uc002gfc.2_Intron	NM_001143775	NP_001137247			dullard homolog						nuclear envelope organization|protein dephosphorylation	endoplasmic reticulum membrane|integral to membrane|nuclear membrane	protein serine/threonine phosphatase activity				0																		---	---	---	---
SLC25A35	399512	broad.mit.edu	37	17	8199740	8199740	+	5'Flank	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:8199740delT	uc002gla.3	-						SLC25A35_uc002gku.1_5'Flank|SLC25A35_uc002gkt.2_5'Flank|SLC25A35_uc002gkz.1_5'Flank	NM_201520	NP_958928			solute carrier family 25, member 35						transport	integral to membrane|mitochondrial inner membrane					0																		---	---	---	---
FAM18B2	201158	broad.mit.edu	37	17	15406175	15406175	+	3'UTR	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:15406175delT	uc002goq.2	-	6					CDRT4_uc010vvw.1_Intron|FAM18B2_uc010vvx.1_Intron	NM_145301	NP_660344			hypothetical protein LOC201158 isoform 1							integral to membrane					0				UCEC - Uterine corpus endometrioid carcinoma (92;0.0872)|BRCA - Breast invasive adenocarcinoma(8;0.0581)|READ - Rectum adenocarcinoma(1115;0.0967)														---	---	---	---
TRIM16	10626	broad.mit.edu	37	17	15508389	15508389	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:15508389delA	uc002gor.1	-						CDRT1_uc002gov.3_Intron|CDRT1_uc002gou.2_Intron					SubName: Full=Putative uncharacterized protein; Flags: Fragment;						histone H3 acetylation|histone H4 acetylation|positive regulation of interleukin-1 beta secretion|positive regulation of keratinocyte differentiation|positive regulation of retinoic acid receptor signaling pathway|positive regulation of transcription, DNA-dependent|response to growth hormone stimulus|response to organophosphorus|response to retinoic acid	cytoplasm|plasma membrane|PML body	DNA binding|interleukin-1 binding|NACHT domain binding|zinc ion binding			ovary(2)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (92;0.0839)|Epithelial(1;8.4e-29)|all cancers(1;3.06e-28)|Colorectal(1;1.57e-19)|OV - Ovarian serous cystadenocarcinoma(1;6.1e-17)|COAD - Colon adenocarcinoma(1;3.38e-12)|READ - Rectum adenocarcinoma(2;1.46e-05)|BRCA - Breast invasive adenocarcinoma(8;0.0559)														---	---	---	---
TTC19	54902	broad.mit.edu	37	17	15909737	15909737	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:15909737delA	uc002gph.1	+						TTC19_uc010cox.1_Intron	NM_017775	NP_060245			tetratricopeptide repeat domain 19						cell cycle|cytokinesis|mitochondrial respiratory chain complex III assembly	centrosome|midbody|mitochondrial inner membrane	protein binding			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (92;0.0837)														---	---	---	---
Unknown	0	broad.mit.edu	37	17	25289230	25289233	+	IGR	DEL	TCTA	-	-	rs138697975		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:25289230_25289233delTCTA								None (None upstream) : WSB1 (331873 downstream)																																			---	---	---	---
KIAA0100	9703	broad.mit.edu	37	17	26966334	26966334	+	Frame_Shift_Del	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:26966334delT	uc002hbu.2	-	11	1327	c.1228delA	c.(1228-1230)AGAfs	p.R410fs	KIAA0100_uc002hbv.2_Frame_Shift_Del_p.R410fs	NM_014680	NP_055495	Q14667	K0100_HUMAN	hypothetical protein LOC9703 precursor	410						extracellular region				ovary(2)|breast(1)|skin(1)	4	Lung NSC(42;0.00431)																	---	---	---	---
EFCAB5	374786	broad.mit.edu	37	17	28434833	28434833	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:28434833delT	uc002het.2	+						EFCAB5_uc010cse.2_Intron|EFCAB5_uc010csf.2_Intron	NM_198529	NP_940931			EF-hand calcium binding domain 5 isoform a								calcium ion binding			ovary(1)|skin(1)	2																		---	---	---	---
C17orf75	64149	broad.mit.edu	37	17	30665238	30665238	+	Frame_Shift_Del	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:30665238delT	uc002hhg.2	-	4	511	c.480delA	c.(478-480)AAAfs	p.K160fs		NM_022344	NP_071739	Q9HAS0	NJMU_HUMAN	hypothetical protein LOC64149	160					spermatogenesis					ovary(1)	1		Breast(31;0.116)|Ovarian(249;0.182)	BRCA - Breast invasive adenocarcinoma(9;0.239)															---	---	---	---
MYO1D	4642	broad.mit.edu	37	17	30981703	30981703	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:30981703delT	uc002hho.1	-						MYO1D_uc002hhp.1_Intron	NM_015194	NP_056009			myosin ID							myosin complex	actin binding|ATP binding|calmodulin binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3			BRCA - Breast invasive adenocarcinoma(9;0.0362)															---	---	---	---
ACACA	31	broad.mit.edu	37	17	35548923	35548923	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:35548923delT	uc002hnm.2	-						ACACA_uc002hnk.2_Intron|ACACA_uc002hnl.2_Intron|ACACA_uc002hnn.2_Intron|ACACA_uc002hno.2_Intron|ACACA_uc010cuy.2_Intron	NM_198836	NP_942133			acetyl-Coenzyme A carboxylase alpha isoform 2						acetyl-CoA metabolic process|energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|triglyceride biosynthetic process	cytosol	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			large_intestine(1)|ovary(1)	2		Breast(25;0.00157)|Ovarian(249;0.15)			Biotin(DB00121)													---	---	---	---
SMARCE1	6605	broad.mit.edu	37	17	38786451	38786451	+	Intron	DEL	A	-	-	rs4890092	by1000genomes	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:38786451delA	uc002hux.2	-						SMARCE1_uc010wff.1_Intron|SMARCE1_uc010wfg.1_Intron|SMARCE1_uc002huy.2_Intron|SMARCE1_uc010wfh.1_Intron|SMARCE1_uc010wfi.1_Intron	NM_003079	NP_003070			SWI/SNF-related matrix-associated						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)																---	---	---	---
ACLY	47	broad.mit.edu	37	17	40043690	40043691	+	Intron	INS	-	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:40043690_40043691insA	uc002hyg.2	-						ACLY_uc002hyh.2_Intron|ACLY_uc002hyi.2_Intron|ACLY_uc010wfx.1_Intron|ACLY_uc010wfy.1_Intron	NM_001096	NP_001087			ATP citrate lyase isoform 1						ATP catabolic process|cellular carbohydrate metabolic process|citrate metabolic process|coenzyme A metabolic process|energy reserve metabolic process|long-chain fatty-acyl-CoA biosynthetic process|positive regulation of cellular metabolic process|triglyceride biosynthetic process	citrate lyase complex|cytosol|nucleus	ATP binding|ATP citrate synthase activity|citrate (pro-3S)-lyase activity|metal ion binding|protein binding|succinate-CoA ligase (ADP-forming) activity			ovary(2)|central_nervous_system(1)	3		Breast(137;0.000143)																---	---	---	---
CNTNAP1	8506	broad.mit.edu	37	17	40836955	40836955	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:40836955delA	uc002iay.2	+						CNTNAP1_uc010wgs.1_Intron	NM_003632	NP_003623			contactin associated protein 1 precursor						axon guidance|cell adhesion	paranode region of axon	receptor activity|receptor binding|SH3 domain binding|SH3/SH2 adaptor activity			ovary(3)|breast(3)|upper_aerodigestive_tract(1)|lung(1)	8		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.143)														---	---	---	---
ACBD4	79777	broad.mit.edu	37	17	43213686	43213686	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:43213686delT	uc002iid.2	+						ACBD4_uc010wjj.1_Intron|ACBD4_uc002iie.2_Intron|ACBD4_uc002iif.2_Intron|ACBD4_uc002iic.2_Intron|ACBD4_uc010dae.2_5'UTR	NM_001135707	NP_001129179			acyl-Coenzyme A binding domain containing 4								fatty-acyl-CoA binding			ovary(1)|kidney(1)	2																		---	---	---	---
ARHGAP27	201176	broad.mit.edu	37	17	43480938	43480938	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:43480938delA	uc002iix.2	-						ARHGAP27_uc010dak.2_Intron|ARHGAP27_uc010wjl.1_Intron	NM_199282	NP_954976			Rho GTPase activating protein 27 isoform a						positive regulation of Cdc42 GTPase activity|receptor-mediated endocytosis|signal transduction	cytoplasm|membrane	Rac GTPase activator activity|SH3 domain binding				0	Renal(3;0.0405)																	---	---	---	---
SKAP1	8631	broad.mit.edu	37	17	46474290	46474290	+	Intron	DEL	A	-	-	rs148098474		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:46474290delA	uc002ini.1	-						SKAP1_uc002inj.1_Intron|SKAP1_uc010dbd.1_Intron|SKAP1_uc010dbe.1_Intron	NM_003726	NP_003717			src kinase associated phosphoprotein 1 isoform						positive regulation of transcription from RNA polymerase II promoter|T cell receptor signaling pathway	cytoplasm|nucleus|plasma membrane	antigen binding|protein kinase binding|SH2 domain binding				0																		---	---	---	---
UBE2Z	65264	broad.mit.edu	37	17	47000129	47000129	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:47000129delA	uc002ioi.2	+							NM_023079	NP_075567			ubiquitin-conjugating enzyme E2Z						apoptosis	cytoplasm|nucleus	ATP binding|ubiquitin-protein ligase activity				0																		---	---	---	---
SLC35B1	10237	broad.mit.edu	37	17	47780109	47780109	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:47780109delA	uc002iph.1	-						SLC35B1_uc002ipi.1_Intron|SLC35B1_uc002ipj.1_Intron	NM_005827	NP_005818			solute carrier family 35, member B1							endoplasmic reticulum membrane|integral to membrane|microsome	UDP-galactose transmembrane transporter activity				0																		---	---	---	---
TMEM49	81671	broad.mit.edu	37	17	57916893	57916893	+	Intron	DEL	C	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:57916893delC	uc002ixu.3	+						TMEM49_uc010wog.1_Intron|TMEM49_uc010woh.1_Intron|TMEM49_uc010woi.1_Intron|TMEM49_uc010woj.1_Intron|TMEM49_uc002ixv.2_RNA|MIR21_hsa-mir-21|MI0000077_5'Flank	NM_030938	NP_112200			transmembrane protein 49						autophagy|cell adhesion	endoplasmic reticulum|ER-Golgi intermediate compartment membrane|integral to membrane|plasma membrane|vacuolar membrane					0	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;1.15e-09)|all cancers(12;1.15e-08)															---	---	---	---
PPM1D	8493	broad.mit.edu	37	17	58733814	58733814	+	Intron	DEL	A	-	-	rs76607874		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:58733814delA	uc002iyt.1	+						PPM1D_uc010ddm.1_Intron	NM_003620	NP_003611			protein phosphatase 1D						negative regulation of cell proliferation|protein dephosphorylation|response to radiation	nucleus|protein serine/threonine phosphatase complex	metal ion binding|protein binding|protein serine/threonine phosphatase activity			upper_aerodigestive_tract(1)	1	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;6.75e-12)|all cancers(12;1.96e-10)															---	---	---	---
BCAS3	54828	broad.mit.edu	37	17	59465992	59465992	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:59465992delA	uc002iyv.3	+						BCAS3_uc002iyu.3_Intron|BCAS3_uc002iyw.3_Frame_Shift_Del_p.G887fs|BCAS3_uc002iyy.3_Intron|BCAS3_uc002iyz.3_Intron|BCAS3_uc002iza.3_Intron|BCAS3_uc002izb.3_Intron|BCAS3_uc002izc.3_Intron|BCAS3_uc002izd.3_Intron	NM_001099432	NP_001092902			breast carcinoma amplified sequence 3 isoform 1							nucleus				ovary(2)|central_nervous_system(2)|skin(1)	5			BRCA - Breast invasive adenocarcinoma(1;3.11e-12)|Epithelial(12;8.2e-07)|all cancers(12;5.33e-06)															---	---	---	---
INTS2	57508	broad.mit.edu	37	17	59946936	59946936	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:59946936delA	uc002izn.2	-						INTS2_uc002izm.2_Intron	NM_020748	NP_065799			integrator complex subunit 2						snRNA processing	integral to membrane|integrator complex|nuclear membrane	protein binding			ovary(1)|lung(1)|pancreas(1)	3																		---	---	---	---
CCDC47	57003	broad.mit.edu	37	17	61838392	61838392	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:61838392delA	uc002jbs.3	-						CCDC47_uc010ddx.2_Intron|CCDC47_uc002jbt.2_Intron	NM_020198	NP_064583			coiled-coil domain containing 47 precursor							integral to membrane	protein binding				0																		---	---	---	---
DDX42	11325	broad.mit.edu	37	17	61887068	61887068	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:61887068delT	uc002jbu.2	+						DDX42_uc002jbv.2_Intron|DDX42_uc002jbw.1_Intron|DDX42_uc002jbx.2_Intron|DDX42_uc002jby.2_5'Flank	NM_007372	NP_031398			DEAD box polypeptide 42 protein						protein localization|regulation of anti-apoptosis	Cajal body|cytoplasm|nuclear speck	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding			ovary(2)|skin(2)|large_intestine(1)	5																		---	---	---	---
AXIN2	8313	broad.mit.edu	37	17	63532568	63532568	+	Frame_Shift_Del	DEL	G	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:63532568delG	uc002jfi.2	-	8	2300	c.2011delC	c.(2011-2013)CGCfs	p.R671fs	AXIN2_uc002jfh.2_Frame_Shift_Del_p.R606fs	NM_004655	NP_004646	Q9Y2T1	AXIN2_HUMAN	axin 2	671					cellular protein localization|cellular response to organic cyclic compound|dorsal/ventral axis specification|intramembranous ossification|maintenance of DNA repeat elements|mRNA stabilization|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|negative regulation of cell proliferation|negative regulation of osteoblast differentiation|odontogenesis|positive regulation of cell death|positive regulation of epithelial to mesenchymal transition|positive regulation of protein phosphorylation|regulation of centromeric sister chromatid cohesion|regulation of mismatch repair|Wnt receptor signaling pathway involved in somitogenesis	Axin-APC-beta-catenin-GSK3B complex|cell cortex|centrosome|cytoplasmic membrane-bounded vesicle|cytoplasmic microtubule|nucleus|plasma membrane|postsynaptic density	armadillo repeat domain binding|beta-catenin binding|GTPase activator activity|protein kinase binding|signal transducer activity|ubiquitin protein ligase binding			central_nervous_system(1)|skin(1)	2														Oligodontia_Ectodermal_Dysplasia_and_Colorectal_Polyp_syndrome				---	---	---	---
CCDC46	201134	broad.mit.edu	37	17	64059082	64059082	+	Frame_Shift_Del	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:64059082delT	uc002jfl.2	-	11	1292	c.1073delA	c.(1072-1074)AAGfs	p.K358fs	CCDC46_uc010deo.2_Frame_Shift_Del_p.K100fs|CCDC46_uc002jfm.2_Frame_Shift_Del_p.K358fs|CCDC46_uc010dep.2_Frame_Shift_Del_p.K316fs	NM_145036	NP_659473	Q8N8E3	CE112_HUMAN	coiled-coil domain containing 46 isoform a	358	Potential.					centrosome					0			BRCA - Breast invasive adenocarcinoma(6;1.53e-06)															---	---	---	---
APOH	350	broad.mit.edu	37	17	64216930	64216930	+	Intron	DEL	A	-	-	rs78195703		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:64216930delA	uc002jfn.3	-							NM_000042	NP_000033			apolipoprotein H precursor						blood coagulation, intrinsic pathway|negative regulation of angiogenesis|negative regulation of blood coagulation|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|negative regulation of fibrinolysis|negative regulation of myeloid cell apoptosis|negative regulation of smooth muscle cell apoptosis|plasminogen activation|positive regulation of lipoprotein lipase activity|triglyceride metabolic process|triglyceride transport	cell surface|chylomicron|high-density lipoprotein particle|very-low-density lipoprotein particle	eukaryotic cell surface binding|glycoprotein binding|heparin binding|lipoprotein lipase activator activity|phospholipid binding				0			BRCA - Breast invasive adenocarcinoma(6;9.74e-08)															---	---	---	---
LOC651250	651250	broad.mit.edu	37	17	66124428	66124428	+	RNA	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:66124428delA	uc002jgq.2	+	6		c.3551delA			LOC651250_uc002kit.2_RNA|LOC651250_uc002jgo.1_Intron	NR_027418				Homo sapiens cDNA FLJ33831 fis, clone CTONG2003937.												0																		---	---	---	---
ABCA9	10350	broad.mit.edu	37	17	67041282	67041282	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:67041282delA	uc002jhu.2	-						ABCA9_uc010dez.2_Intron|ABCA9_uc002jhv.2_Intron	NM_080283	NP_525022			ATP-binding cassette, sub-family A, member 9						transport	integral to membrane	ATP binding|ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6	Breast(10;1.47e-12)																	---	---	---	---
ABCA6	23460	broad.mit.edu	37	17	67125767	67125767	+	Frame_Shift_Del	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:67125767delA	uc002jhw.1	-	7	1092	c.917delT	c.(916-918)TTAfs	p.L306fs		NM_080284	NP_525023	Q8N139	ABCA6_HUMAN	ATP-binding cassette, sub-family A, member 6	306	Helical; (Potential).				transport	integral to membrane	ATP binding|ATPase activity			upper_aerodigestive_tract(2)|large_intestine(2)|ovary(2)|skin(1)	7	Breast(10;5.65e-12)																	---	---	---	---
ABCA5	23461	broad.mit.edu	37	17	67252169	67252169	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:67252169delT	uc002jif.2	-						ABCA5_uc002jib.2_Intron|ABCA5_uc002jic.2_Intron|ABCA5_uc002jid.2_Intron|ABCA5_uc002jie.2_Intron|ABCA5_uc002jig.2_Intron	NM_018672	NP_061142			ATP-binding cassette, sub-family A , member 5						cholesterol efflux|high-density lipoprotein particle remodeling|negative regulation of macrophage derived foam cell differentiation	Golgi membrane|integral to membrane|late endosome membrane|lysosomal membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;3.72e-11)																	---	---	---	---
TBC1D16	125058	broad.mit.edu	37	17	77958504	77958505	+	Intron	DEL	AA	-	-	rs10528420		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:77958504_77958505delAA	uc002jxj.2	-							NM_019020	NP_061893			TBC1 domain family, member 16							intracellular	Rab GTPase activator activity				0	all_neural(118;0.167)		OV - Ovarian serous cystadenocarcinoma(97;0.00739)|BRCA - Breast invasive adenocarcinoma(99;0.0819)															---	---	---	---
FASN	2194	broad.mit.edu	37	17	80037910	80037911	+	Intron	INS	-	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:80037910_80037911insG	uc002kdu.2	-						FASN_uc002kdv.1_Intron	NM_004104	NP_004095			fatty acid synthase						energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|pantothenate metabolic process|positive regulation of cellular metabolic process|triglyceride biosynthetic process	cytosol|Golgi apparatus|melanosome|plasma membrane	3-hydroxypalmitoyl-[acyl-carrier-protein] dehydratase activity|3-oxoacyl-[acyl-carrier-protein] reductase (NADPH) activity|3-oxoacyl-[acyl-carrier-protein] synthase activity|[acyl-carrier-protein] S-acetyltransferase activity|[acyl-carrier-protein] S-malonyltransferase activity|acyl carrier activity|cofactor binding|enoyl-[acyl-carrier-protein] reductase (NADPH, B-specific) activity|myristoyl-[acyl-carrier-protein] hydrolase activity|oleoyl-[acyl-carrier-protein] hydrolase activity|palmitoyl-[acyl-carrier-protein] hydrolase activity|phosphopantetheine binding|protein binding|zinc ion binding			central_nervous_system(1)	1	all_neural(118;0.0878)|Ovarian(332;0.227)|all_lung(278;0.246)		OV - Ovarian serous cystadenocarcinoma(97;0.0211)|BRCA - Breast invasive adenocarcinoma(99;0.0237)		Cerulenin(DB01034)|Orlistat(DB01083)|Pyrazinamide(DB00339)													---	---	---	---
Unknown	0	broad.mit.edu	37	18	3025533	3025533	+	IGR	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:3025533delA								LPIN2 (13588 upstream) : MYOM1 (41273 downstream)																																			---	---	---	---
KIAA0802	23255	broad.mit.edu	37	18	8785011	8785011	+	Intron	DEL	T	-	-	rs66769622		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:8785011delT	uc002knr.2	+						KIAA0802_uc002knq.2_Intron|KIAA0802_uc010dkw.1_Intron	NM_015210	NP_056025			hypothetical protein LOC23255												0																		---	---	---	---
SPIRE1	56907	broad.mit.edu	37	18	12463258	12463258	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:12463258delT	uc002kre.2	-						SPIRE1_uc002krc.2_Intron|SPIRE1_uc010wzw.1_Intron|SPIRE1_uc010wzx.1_Intron|SPIRE1_uc010wzy.1_Intron	NM_001128626	NP_001122098			spire homolog 1 isoform a							cytoskeleton|perinuclear region of cytoplasm	actin binding				0																		---	---	---	---
C18orf45	85019	broad.mit.edu	37	18	20889480	20889481	+	Intron	DEL	TT	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:20889480_20889481delTT	uc002kuf.2	-						C18orf45_uc010xaq.1_Intron|C18orf45_uc010xar.1_Intron|C18orf45_uc002kug.2_Intron|C18orf45_uc002kuh.2_Intron|C18orf45_uc002kue.2_Intron	NM_032933	NP_116322			hypothetical protein LOC85019							integral to membrane					0	all_cancers(21;0.000238)|all_epithelial(16;5.29e-06)|Lung NSC(20;0.00925)|Colorectal(14;0.0202)|all_lung(20;0.0255)|Ovarian(20;0.127)																	---	---	---	---
DSC3	1825	broad.mit.edu	37	18	28574038	28574039	+	3'UTR	INS	-	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:28574038_28574039insA	uc002kwj.3	-	16					DSC3_uc002kwi.3_3'UTR	NM_001941	NP_001932			desmocollin 3 isoform Dsc3a preproprotein						homophilic cell adhesion|protein stabilization	desmosome|integral to membrane|membrane fraction	calcium ion binding|gamma-catenin binding			ovary(2)|skin(2)	4			OV - Ovarian serous cystadenocarcinoma(10;0.125)															---	---	---	---
MEP1B	4225	broad.mit.edu	37	18	29797209	29797210	+	Intron	INS	-	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:29797209_29797210insT	uc002kxj.3	+							NM_005925	NP_005916			meprin A beta precursor						digestion|proteolysis	extracellular space|integral to plasma membrane	metalloendopeptidase activity|zinc ion binding			ovary(2)	2																		---	---	---	---
FAM59A	64762	broad.mit.edu	37	18	29848873	29848873	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:29848873delT	uc002kxl.2	-						FAM59A_uc002kxk.1_Intron	NM_022751	NP_073588			family with sequence similarity 59, member A											ovary(1)|skin(1)	2																		---	---	---	---
C18orf34	374864	broad.mit.edu	37	18	30873148	30873148	+	Frame_Shift_Del	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:30873148delT	uc002kxn.2	-	11	1293	c.1151delA	c.(1150-1152)AATfs	p.N384fs	C18orf34_uc010xbr.1_Frame_Shift_Del_p.N384fs|C18orf34_uc010dmf.1_Intron|C18orf34_uc002kxo.2_Frame_Shift_Del_p.N384fs|C18orf34_uc002kxp.2_Frame_Shift_Del_p.N384fs	NM_001105528	NP_001098998	Q5BJE1	CR034_HUMAN	hypothetical protein LOC374864 isoform 1	384	Potential.									ovary(1)	1																		---	---	---	---
MOCOS	55034	broad.mit.edu	37	18	33848647	33848647	+	Frame_Shift_Del	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:33848647delA	uc002kzq.3	+	15	2689	c.2666delA	c.(2665-2667)TAAfs	p.*889fs		NM_017947	NP_060417	Q96EN8	MOCOS_HUMAN	molybdenum cofactor sulfurase	889					Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cytosol	lyase activity|Mo-molybdopterin cofactor sulfurase activity|molybdenum ion binding|pyridoxal phosphate binding			skin(1)	1					Pyridoxal Phosphate(DB00114)													---	---	---	---
KIAA1632	57724	broad.mit.edu	37	18	43437680	43437680	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:43437680delT	uc002lbm.2	-							NM_020964	NP_066015			hypothetical protein LOC57724						autophagy						0																		---	---	---	---
CCDC68	80323	broad.mit.edu	37	18	52608329	52608329	+	Intron	DEL	C	-	-	rs142551755		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:52608329delC	uc002lfs.2	-						CCDC68_uc002lft.2_Intron	NM_001143829	NP_001137301			coiled-coil domain containing 68											skin(1)	1				Colorectal(16;0.0256)|READ - Rectum adenocarcinoma(59;0.21)														---	---	---	---
LMAN1	3998	broad.mit.edu	37	18	57000584	57000584	+	Intron	DEL	A	-	-	rs76213902		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:57000584delA	uc002lhz.2	-							NM_005570	NP_005561			lectin, mannose-binding, 1 precursor						blood coagulation|ER to Golgi vesicle-mediated transport|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine|protein transport	endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|ER-Golgi intermediate compartment membrane|Golgi membrane|integral to membrane	mannose binding|metal ion binding|unfolded protein binding			skin(1)	1		Colorectal(73;0.0946)			Antihemophilic Factor(DB00025)													---	---	---	---
CDH19	28513	broad.mit.edu	37	18	64218500	64218500	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:64218500delA	uc002lkc.1	-						CDH19_uc010dql.1_Intron|CDH19_uc010xey.1_Intron|CDH19_uc002lkd.2_Intron	NM_021153	NP_066976			cadherin 19, type 2 preproprotein						homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2		Esophageal squamous(42;0.0132)																---	---	---	---
CCDC102B	79839	broad.mit.edu	37	18	66503867	66503867	+	Intron	DEL	T	-	-	rs55813972	by1000genomes	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:66503867delT	uc002lkk.2	+						CCDC102B_uc002lki.2_Intron|CCDC102B_uc002lkj.1_Intron	NM_001093729	NP_001087198			coiled-coil domain containing 102B											ovary(1)|lung(1)|skin(1)	3		Esophageal squamous(42;0.0559)|Colorectal(73;0.0604)																---	---	---	---
SHC2	25759	broad.mit.edu	37	19	419088	419088	+	Intron	DEL	G	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:419088delG	uc002loq.3	-						SHC2_uc002lop.3_Intron	NM_012435	NP_036567			SHC (Src homology 2 domain containing)						insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol					0		all_cancers(10;1.13e-36)|all_epithelial(18;1.46e-23)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.1e-06)|all_lung(49;1.55e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		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)														---	---	---	---
AZU1	566	broad.mit.edu	37	19	829323	829325	+	Intron	DEL	GGG	-	-	rs71749785		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:829323_829325delGGG	uc002lpz.1	+							NM_001700	NP_001691			azurocidin 1 preproprotein						activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|anti-apoptosis|cellular extravasation|defense response to Gram-negative bacterium|glial cell migration|induction of positive chemotaxis|inflammatory response|macrophage chemotaxis|microglial cell activation|monocyte activation|positive regulation of cell adhesion|positive regulation of fractalkine biosynthetic process|positive regulation of interleukin-1 beta biosynthetic process|positive regulation of MHC class II biosynthetic process|positive regulation of phagocytosis|positive regulation of tumor necrosis factor biosynthetic process|proteolysis|regulation of vascular permeability	azurophil granule|extracellular region	heparin binding|serine-type endopeptidase activity|toxin binding			pancreas(1)	1		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;0.000172)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		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)														---	---	---	---
APC2	10297	broad.mit.edu	37	19	1452862	1452863	+	Intron	INS	-	C	C	rs148977773	by1000genomes	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:1452862_1452863insC	uc002lsr.1	+						APC2_uc002lss.1_Intron|APC2_uc002lst.1_5'UTR|APC2_uc002lsu.1_5'UTR	NM_005883	NP_005874			adenomatosis polyposis coli 2						negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|Wnt receptor signaling pathway	actin filament|catenin complex|cytoplasmic microtubule|Golgi membrane|lamellipodium membrane|perinuclear region of cytoplasm	beta-catenin binding|microtubule binding			breast(3)|pancreas(1)	4		Acute lymphoblastic leukemia(61;3.02e-13)|all_hematologic(61;4.32e-09)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)														---	---	---	---
CSNK1G2	1455	broad.mit.edu	37	19	1953014	1953014	+	Intron	DEL	A	-	-	rs77965237		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:1953014delA	uc002lul.3	+						C19orf34_uc002lum.2_Intron	NM_001319	NP_001310			casein kinase 1, gamma 2						sphingolipid metabolic process|Wnt receptor signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity			stomach(1)	1		Ovarian(11;2.11e-07)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)														---	---	---	---
ZNF77	58492	broad.mit.edu	37	19	2938962	2938962	+	Intron	DEL	A	-	-	rs67121017		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:2938962delA	uc002lws.3	-							NM_021217	NP_067040			zinc finger protein 77						regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|zinc ion binding			ovary(1)	1				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)|GBM - Glioblastoma multiforme(1328;2.11e-07)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|Lung(535;0.174)|STAD - Stomach adenocarcinoma(1328;0.18)														---	---	---	---
PTPRS	5802	broad.mit.edu	37	19	5223420	5223421	+	Intron	INS	-	G	G	rs145066232	by1000genomes	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:5223420_5223421insG	uc002mbv.2	-						PTPRS_uc002mbu.1_Intron|PTPRS_uc010xin.1_Intron|PTPRS_uc002mbw.2_Intron|PTPRS_uc002mbx.2_Intron|PTPRS_uc002mby.2_Intron	NM_002850	NP_002841			protein tyrosine phosphatase, receptor type,						cell adhesion	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0321)|Lung(535;0.182)														---	---	---	---
ARHGEF18	23370	broad.mit.edu	37	19	7511782	7511785	+	Intron	DEL	AAAA	-	-	rs111788607		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:7511782_7511785delAAAA	uc002mgi.2	+						ARHGEF18_uc010xjm.1_Intron|ARHGEF18_uc002mgh.2_Intron|ARHGEF18_uc002mgj.1_5'Flank	NM_001130955	NP_001124427			Rho/Rac guanine nucleotide exchange factor 18						actin cytoskeleton organization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of cell shape|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity			ovary(1)	1		Renal(5;0.0902)																---	---	---	---
OR7E24	26648	broad.mit.edu	37	19	9361741	9361741	+	Frame_Shift_Del	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:9361741delT	uc002mlb.1	+	1	22	c.22delT	c.(22-24)TTTfs	p.F8fs		NM_001079935	NP_001073404	Q6IFN5	O7E24_HUMAN	olfactory receptor, family 7, subfamily E,	8	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1																		---	---	---	---
COL5A3	50509	broad.mit.edu	37	19	10091542	10091542	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:10091542delA	uc002mmq.1	-							NM_015719	NP_056534			collagen, type V, alpha 3 preproprotein						collagen fibril organization|skin development	collagen type V	collagen binding|extracellular matrix structural constituent			ovary(7)|lung(1)|central_nervous_system(1)|skin(1)	10			Epithelial(33;7.11e-05)															---	---	---	---
TMEM205	374882	broad.mit.edu	37	19	11455832	11455832	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:11455832delT	uc002mrb.2	-						TMEM205_uc002mra.2_Intron|TMEM205_uc002mqz.2_Intron|TMEM205_uc002mrc.2_Intron|CCDC159_uc010xlr.1_5'Flank|CCDC159_uc010xls.1_5'Flank|CCDC159_uc010xlt.1_5'Flank|CCDC159_uc010xlu.1_5'Flank|CCDC159_uc010xlv.1_5'Flank	NM_001145416	NP_001138888			transmembrane protein 205							integral to membrane					0																		---	---	---	---
ZNF564	163050	broad.mit.edu	37	19	12637603	12637604	+	Frame_Shift_Del	DEL	AT	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:12637603_12637604delAT	uc002mty.2	-	4	1528_1529	c.1318_1319delAT	c.(1318-1320)ATGfs	p.M440fs	ZNF709_uc002mtx.3_Intron	NM_144976	NP_659413	Q8TBZ8	ZN564_HUMAN	zinc finger protein 564	440	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1																		---	---	---	---
RNASEH2A	10535	broad.mit.edu	37	19	12923822	12923822	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:12923822delA	uc002mvg.1	+						RNASEH2A_uc002mvf.1_Intron	NM_006397	NP_006388			ribonuclease H2, large subunit						DNA replication|RNA catabolic process	nucleus|ribonuclease H2 complex	metal ion binding|ribonuclease H activity|RNA binding			breast(2)|central_nervous_system(1)	3																		---	---	---	---
GCDH	2639	broad.mit.edu	37	19	13005288	13005288	+	Intron	DEL	A	-	-	rs35075245		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:13005288delA	uc002mvq.2	+						GCDH_uc010xms.1_Intron|GCDH_uc002mvp.2_Intron|GCDH_uc010xmt.1_Intron|GCDH_uc010xmu.1_Intron	NM_000159	NP_000150			glutaryl-Coenzyme A dehydrogenase isoform a						lysine catabolic process	mitochondrial matrix	flavin adenine dinucleotide binding|glutaryl-CoA dehydrogenase activity|protein binding				0																		---	---	---	---
DCAF15	90379	broad.mit.edu	37	19	14067112	14067112	+	Intron	DEL	C	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:14067112delC	uc002mxt.2	+						PODNL1_uc010xnj.1_5'Flank|PODNL1_uc002mxs.2_5'Flank	NM_138353	NP_612362			DDB1 and CUL4 associated factor 15											central_nervous_system(1)	1																		---	---	---	---
EMR3	84658	broad.mit.edu	37	19	14762192	14762192	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:14762192delA	uc002mzi.3	-						EMR3_uc010dzp.2_Intron|EMR3_uc010xnv.1_Intron	NM_032571	NP_115960			egf-like module-containing mucin-like receptor						neuropeptide signaling pathway	extracellular space|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(5)|skin(1)	6																		---	---	---	---
HAUS8	93323	broad.mit.edu	37	19	17163386	17163387	+	Intron	INS	-	A	A	rs74967504		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:17163386_17163387insA	uc002nfe.2	-						HAUS8_uc002nff.2_Intron|HAUS8_uc002nfg.1_Intron|HAUS8_uc002nfh.1_Intron	NM_033417	NP_219485			sarcoma antigen NY-SAR-48 isoform a						cell division|centrosome organization|mitosis|spindle assembly	centrosome|HAUS complex|microtubule|spindle pole					0																OREG0025339	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
ABHD8	79575	broad.mit.edu	37	19	17411598	17411599	+	Intron	INS	-	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:17411598_17411599insT	uc002ngb.3	-							NM_024527	NP_078803			abhydrolase domain containing 8								hydrolase activity				0																		---	---	---	---
DDA1	79016	broad.mit.edu	37	19	17426607	17426607	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:17426607delA	uc002ngd.2	+						DDA1_uc002nge.2_Intron	NM_024050	NP_076955			DET1 and DDB1 associated 1											ovary(1)	1																		---	---	---	---
ZNF626	199777	broad.mit.edu	37	19	20806648	20806649	+	3'UTR	DEL	CA	-	-	rs71893877		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:20806648_20806649delCA	uc002npb.1	-	4					ZNF626_uc002npc.1_3'UTR	NM_001076675	NP_001070143			zinc finger protein 626 isoform 1						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	19	21416501	21416501	+	IGR	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:21416501delA								ZNF431 (47696 upstream) : ZNF708 (57462 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	19	23031051	23031052	+	IGR	INS	-	G	G	rs61291973	by1000genomes	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:23031051_23031052insG								ZNF99 (78267 upstream) : ZNF91 (490367 downstream)																																			---	---	---	---
DPY19L3	147991	broad.mit.edu	37	19	32968299	32968299	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:32968299delT	uc002ntg.2	+						DPY19L3_uc002nth.1_Intron|DPY19L3_uc002nti.1_Intron|DPY19L3_uc002ntj.1_5'Flank	NM_207325	NP_997208			dpy-19-like 3							integral to membrane				ovary(4)	4	Esophageal squamous(110;0.162)																	---	---	---	---
Unknown	0	broad.mit.edu	37	19	42107414	42107415	+	IGR	DEL	CA	-	-	rs72172011		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:42107414_42107415delCA								CEACAM21 (14218 upstream) : CEACAM4 (17929 downstream)																																			---	---	---	---
KCNN4	3783	broad.mit.edu	37	19	44272893	44272893	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:44272893delT	uc002oxl.2	-						KCNN4_uc010eiz.2_Intron	NM_002250	NP_002241			intermediate conductance calcium-activated						defense response	voltage-gated potassium channel complex	calcium-activated potassium channel activity|calmodulin binding			ovary(2)	2		Prostate(69;0.0352)			Clotrimazole(DB00257)|Halothane(DB01159)|Quinine(DB00468)													---	---	---	---
MARK4	57787	broad.mit.edu	37	19	45767749	45767749	+	Intron	DEL	A	-	-	rs77123461		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:45767749delA	uc002pbb.1	+						MARK4_uc002paz.1_Intron|MARK4_uc002pba.1_Intron|MARK4_uc002pbc.1_5'Flank					RecName: Full=MAP/microtubule affinity-regulating kinase 4;          EC=2.7.11.1; AltName: Full=MAP/microtubule affinity-regulating kinase-like 1;						microtubule bundle formation|nervous system development|positive regulation of programmed cell death	centrosome|neuron projection	ATP binding|gamma-tubulin binding|microtubule binding|protein serine/threonine kinase activity|tau-protein kinase activity|ubiquitin binding			central_nervous_system(2)|large_intestine(1)	3		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0102)														---	---	---	---
CKM	1158	broad.mit.edu	37	19	45822685	45822685	+	Intron	DEL	C	-	-	rs68016783		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:45822685delC	uc002pbd.2	-							NM_001824	NP_001815			muscle creatine kinase						creatine metabolic process	cytosol	ATP binding|creatine kinase activity			skin(1)	1		Ovarian(192;0.0336)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;2.29e-44)|Epithelial(262;1.05e-38)|GBM - Glioblastoma multiforme(486;3.56e-07)	Creatine(DB00148)													---	---	---	---
GLTSCR2	29997	broad.mit.edu	37	19	48254709	48254709	+	Intron	DEL	G	-	-	rs112625343	by1000genomes	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:48254709delG	uc002phm.2	+						GLTSCR2_uc002phk.2_Intron|GLTSCR2_uc002phl.2_Intron|GLTSCR2_uc010elj.2_Intron|GLTSCR2_uc010elk.1_5'Flank	NM_015710	NP_056525			glioma tumor suppressor candidate region gene 2							nucleolus				central_nervous_system(1)	1		all_cancers(25;1.47e-06)|all_lung(116;6.89e-05)|all_epithelial(76;0.000108)|Lung NSC(112;0.000117)|all_neural(266;0.0332)|Ovarian(192;0.086)		all cancers(93;0.000301)|OV - Ovarian serous cystadenocarcinoma(262;0.00031)|Epithelial(262;0.0149)|GBM - Glioblastoma multiforme(486;0.0278)														---	---	---	---
TRPM4	54795	broad.mit.edu	37	19	49686205	49686205	+	Intron	DEL	C	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:49686205delC	uc002pmw.2	+						TRPM4_uc010emu.2_Intron|TRPM4_uc010yak.1_Intron|TRPM4_uc002pmx.2_Intron|TRPM4_uc010emv.2_Intron|TRPM4_uc010yal.1_Intron|TRPM4_uc002pmy.2_Intron	NM_017636	NP_060106			transient receptor potential cation channel,						dendritic cell chemotaxis|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell proliferation|protein sumoylation|regulation of T cell cytokine production	endoplasmic reticulum|Golgi apparatus|integral to membrane|plasma membrane	ATP binding|calcium activated cation channel activity|calmodulin binding			ovary(1)|central_nervous_system(1)	2		all_lung(116;8.54e-05)|Lung NSC(112;0.000139)|all_neural(266;0.0506)|Ovarian(192;0.15)		all cancers(93;2.88e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000222)|GBM - Glioblastoma multiforme(486;0.00339)|Epithelial(262;0.00751)														---	---	---	---
TEAD2	8463	broad.mit.edu	37	19	49844754	49844754	+	Intron	DEL	C	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:49844754delC	uc002pnj.2	-						uc002pnb.1_5'Flank|TEAD2_uc002png.2_Intron|TEAD2_uc002pnh.2_Intron|TEAD2_uc002pni.2_Intron|TEAD2_uc010yao.1_Intron|TEAD2_uc010emw.2_Intron	NM_003598	NP_003589			TEA domain family member 2						hippo signaling cascade		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(2)|ovary(1)	3		all_lung(116;7.65e-05)|Lung NSC(112;0.000132)|all_neural(266;0.0506)|Ovarian(192;0.15)		OV - Ovarian serous cystadenocarcinoma(262;0.00093)|GBM - Glioblastoma multiforme(486;0.0467)														---	---	---	---
ZNF480	147657	broad.mit.edu	37	19	52819262	52819262	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:52819262delT	uc010ydl.1	+						ZNF480_uc002pyv.2_Intron|ZNF480_uc010ydm.1_Intron|ZNF480_uc010epn.2_Intron|uc002pyw.1_Intron	NM_144684	NP_653285			zinc finger protein 480						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(134;0.00212)|OV - Ovarian serous cystadenocarcinoma(262;0.00369)														---	---	---	---
ZNF160	90338	broad.mit.edu	37	19	53573669	53573670	+	Intron	DEL	TT	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:53573669_53573670delTT	uc010eqk.2	-						ZNF160_uc002qaq.3_Intron|ZNF160_uc002qar.3_Intron	NM_001102603	NP_001096073			zinc finger protein 160						hemopoiesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(134;0.02)														---	---	---	---
MIR520H	574493	broad.mit.edu	37	19	54244751	54244751	+	5'Flank	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:54244751delT	hsa-mir-520h|MI0003175	+						uc010yeb.1_5'Flank																	0																		---	---	---	---
ZNF784	147808	broad.mit.edu	37	19	56133713	56133713	+	Frame_Shift_Del	DEL	C	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:56133713delC	uc002qll.1	-	2	390	c.376delG	c.(376-378)GAGfs	p.E126fs	ZNF784_uc010etb.1_RNA	NM_203374	NP_976308	Q8NCA9	ZN784_HUMAN	zinc finger protein 784	126					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			BRCA - Breast invasive adenocarcinoma(297;0.18)	GBM - Glioblastoma multiforme(193;0.105)														---	---	---	---
Unknown	0	broad.mit.edu	37	19	58727943	58727943	+	IGR	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:58727943delA								ZNF274 (3016 upstream) : ZNF544 (12127 downstream)																																			---	---	---	---
SIRPA	140885	broad.mit.edu	37	20	1908732	1908732	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:1908732delT	uc002wfq.2	+						SIRPA_uc010zps.1_Intron|SIRPA_uc002wfr.2_Intron|SIRPA_uc002wfs.2_Intron|SIRPA_uc002wft.2_Intron	NM_001040022	NP_001035111			signal-regulatory protein alpha precursor						blood coagulation|cell adhesion|cell junction assembly|leukocyte migration	integral to membrane|plasma membrane	SH3 domain binding			ovary(1)	1				Colorectal(46;0.018)|READ - Rectum adenocarcinoma(1;0.0556)														---	---	---	---
Unknown	0	broad.mit.edu	37	20	2056532	2056532	+	IGR	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:2056532delA								PDYN (81829 upstream) : STK35 (25996 downstream)																																			---	---	---	---
TGM3	7053	broad.mit.edu	37	20	2320882	2320883	+	Intron	INS	-	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:2320882_2320883insC	uc002wfx.3	+							NM_003245	NP_003236			transglutaminase 3 precursor						cell envelope organization|hair follicle morphogenesis|keratinization|peptide cross-linking|protein tetramerization	cytoplasm|extrinsic to internal side of plasma membrane	acyltransferase activity|calcium ion binding|GDP binding|GTP binding|GTPase activity|magnesium ion binding|protein-glutamine gamma-glutamyltransferase activity			large_intestine(4)|ovary(3)|breast(1)|skin(1)	9					L-Glutamine(DB00130)													---	---	---	---
Unknown	0	broad.mit.edu	37	20	5513437	5513440	+	IGR	DEL	AAAA	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:5513437_5513440delAAAA								LOC149837 (28195 upstream) : GPCPD1 (11641 downstream)																																			---	---	---	---
GPCPD1	56261	broad.mit.edu	37	20	5560876	5560876	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:5560876delT	uc002wme.3	-						GPCPD1_uc002wmd.3_Intron	NM_019593	NP_062539			hypothetical protein LOC56261						glycerol metabolic process|lipid metabolic process		carbohydrate binding|glycerophosphodiester phosphodiesterase activity				0																		---	---	---	---
C20orf26	26074	broad.mit.edu	37	20	20340735	20340735	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:20340735delA	uc002wru.2	+						C20orf26_uc002wrw.2_Intron	NM_015585	NP_056400			hypothetical protein LOC26074											ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)														---	---	---	---
XRN2	22803	broad.mit.edu	37	20	21327250	21327250	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:21327250delT	uc002wsf.1	+						XRN2_uc002wsg.1_Intron|XRN2_uc010zsk.1_Intron	NM_012255	NP_036387			5'-3' exoribonuclease 2						cell growth|DNA catabolic process, exonucleolytic|mRNA processing|regulation of transcription, DNA-dependent|RNA catabolic process|spermatogenesis|transcription termination, DNA-dependent	nucleolus	5'-3' exoribonuclease activity|nucleic acid binding|protein binding|zinc ion binding			skin(1)	1																		---	---	---	---
MAPRE1	22919	broad.mit.edu	37	20	31427832	31427833	+	Intron	INS	-	AG	AG			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:31427832_31427833insAG	uc002wyh.2	+							NM_012325	NP_036457			microtubule-associated protein, RP/EB family,						cell division|cell proliferation|G2/M transition of mitotic cell cycle|mitotic prometaphase|negative regulation of microtubule polymerization|protein localization to microtubule	centrosome|cortical microtubule cytoskeleton|cytosol	microtubule plus-end binding|protein C-terminus binding				0																		---	---	---	---
ITCH	83737	broad.mit.edu	37	20	32996717	32996717	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:32996717delT	uc010geu.1	+						ITCH_uc002xak.2_Intron|ITCH_uc010zuj.1_Intron	NM_031483	NP_113671			itchy homolog E3 ubiquitin protein ligase						apoptosis|entry of virus into host cell|inflammatory response|innate immune response|negative regulation of apoptosis|negative regulation of defense response to virus|negative regulation of JNK cascade|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|protein K29-linked ubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of cell growth|regulation of protein deubiquitination|response to virus	cytosol|nucleus|plasma membrane	CXCR chemokine receptor binding|ribonucleoprotein binding|ubiquitin-protein ligase activity			breast(4)|lung(1)|central_nervous_system(1)	6																		---	---	---	---
PIGU	128869	broad.mit.edu	37	20	33222327	33222327	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:33222327delA	uc002xas.2	-						PIGU_uc010zul.1_Intron|PIGU_uc002xat.2_Intron|PIGU_uc010gev.1_Intron	NM_080476	NP_536724			phosphatidylinositol glycan anchor biosynthesis,						attachment of GPI anchor to protein|C-terminal protein lipidation|regulation of JAK-STAT cascade	GPI-anchor transamidase complex|plasma membrane					0																		---	---	---	---
ACSS2	55902	broad.mit.edu	37	20	33462701	33462701	+	5'Flank	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:33462701delT	uc002xbd.2	+						GGT7_uc002xay.2_5'Flank|GGT7_uc002xaz.1_5'Flank|GGT7_uc002xba.1_5'Flank|ACSS2_uc002xbc.2_5'Flank|ACSS2_uc010zum.1_5'Flank|ACSS2_uc010gey.2_5'Flank|ACSS2_uc002xbe.2_5'Flank|ACSS2_uc002xbf.2_5'Flank	NM_018677	NP_061147			acyl-CoA synthetase short-chain family member 2						ethanol oxidation|lipid biosynthetic process|xenobiotic metabolic process	cytosol|nucleus	acetate-CoA ligase activity|ATP binding|protein binding				0					Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)											OREG0025882	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
SPAG4	6676	broad.mit.edu	37	20	34208477	34208477	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:34208477delA	uc002xdb.1	+						SPAG4_uc010zvi.1_Intron	NM_003116	NP_003107			sperm associated antigen 4						spermatogenesis	cilium|flagellar axoneme|integral to membrane	structural molecule activity				0	Lung NSC(9;0.0053)|all_lung(11;0.00785)		BRCA - Breast invasive adenocarcinoma(18;0.0127)															---	---	---	---
RBL1	5933	broad.mit.edu	37	20	35684440	35684440	+	Intron	DEL	A	-	-	rs78217757		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:35684440delA	uc002xgi.2	-						RBL1_uc010zvt.1_Intron|RBL1_uc002xgj.1_Intron	NM_002895	NP_002886			retinoblastoma-like protein 1 isoform a						cell cycle|chromatin modification|interspecies interaction between organisms|regulation of cell cycle|regulation of lipid kinase activity|transcription, DNA-dependent		transcription factor binding			lung(5)|skin(3)|ovary(2)	10		Myeloproliferative disorder(115;0.00878)																---	---	---	---
SERINC3	10955	broad.mit.edu	37	20	43138337	43138337	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:43138337delT	uc002xme.2	-						SERINC3_uc002xmf.1_Intron|SERINC3_uc010ggs.1_Intron|SERINC3_uc010zwp.1_Intron	NM_198941	NP_945179			tumor differentially expressed protein 1							integral to membrane|plasma membrane	protein binding			skin(3)	3		Myeloproliferative disorder(115;0.0122)	Colorectal(3;0.000291)|COAD - Colon adenocarcinoma(18;0.00189)															---	---	---	---
SLC9A8	23315	broad.mit.edu	37	20	48439505	48439505	+	Intron	DEL	C	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:48439505delC	uc002xuv.1	+						SLC9A8_uc010zym.1_Intron|SLC9A8_uc010zyj.1_Intron|SLC9A8_uc010zyk.1_Intron|SLC9A8_uc010zyl.1_Intron|SLC9A8_uc010gib.1_Intron	NM_015266	NP_056081			sodium/hydrogen exchanger 8							Golgi membrane|integral to membrane	sodium:hydrogen antiporter activity			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(9;3.91e-07)															---	---	---	---
Unknown	0	broad.mit.edu	37	20	61398985	61398985	+	IGR	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:61398985delA								NTSR1 (4863 upstream) : C20orf20 (28820 downstream)																																			---	---	---	---
ZNF512B	57473	broad.mit.edu	37	20	62593923	62593924	+	Intron	INS	-	G	G	rs11908102	by1000genomes	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:62593923_62593924insG	uc002yhl.1	-							NM_020713	NP_065764			zinc finger protein 512B						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(38;2.14e-11)|all_epithelial(29;3.41e-13)|Lung NSC(23;3.41e-09)|all_lung(23;1.06e-08)																	---	---	---	---
Unknown	0	broad.mit.edu	37	21	9483288	9483288	+	IGR	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:9483288delA								None (None upstream) : None (None downstream)																																			---	---	---	---
NRIP1	8204	broad.mit.edu	37	21	16338330	16338330	+	Frame_Shift_Del	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:16338330delT	uc002yjx.2	-	4	2782	c.2184delA	c.(2182-2184)AAAfs	p.K728fs		NM_003489	NP_003480	P48552	NRIP1_HUMAN	nuclear receptor interacting protein 1	728					androgen receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		androgen receptor binding|estrogen receptor binding|glucocorticoid receptor binding|transcription coactivator activity|transcription corepressor activity				0				Epithelial(23;1.19e-05)|all cancers(11;4.64e-05)|COAD - Colon adenocarcinoma(22;0.000232)|Colorectal(24;0.0006)|OV - Ovarian serous cystadenocarcinoma(11;0.00418)|Lung(58;0.199)|LUSC - Lung squamous cell carcinoma(23;0.24)														---	---	---	---
SFRS15	57466	broad.mit.edu	37	21	33074758	33074758	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:33074758delA	uc002ypd.2	-						SFRS15_uc002ype.2_Intron|SFRS15_uc010glu.2_Intron|SFRS15_uc002ypf.1_5'Flank|SFRS15_uc002ypg.2_Intron	NM_020706	NP_065757			splicing factor, arginine/serine-rich 15 isoform							nucleus	nucleotide binding|RNA binding				0																		---	---	---	---
DOPEY2	9980	broad.mit.edu	37	21	37599894	37599894	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:37599894delA	uc002yvg.2	+						DOPEY2_uc011aeb.1_Intron	NM_005128	NP_005119			pad-1-like						endoplasmic reticulum organization|Golgi to endosome transport|multicellular organismal development|protein transport	Golgi membrane				ovary(1)|central_nervous_system(1)	2																		---	---	---	---
BACE2	25825	broad.mit.edu	37	21	42540489	42540489	+	Frame_Shift_Del	DEL	C	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:42540489delC	uc002yyw.2	+	1	762	c.299delC	c.(298-300)ACCfs	p.T100fs	BACE2_uc002yyx.2_Frame_Shift_Del_p.T100fs|BACE2_uc002yyy.2_Frame_Shift_Del_p.T100fs	NM_012105	NP_036237	Q9Y5Z0	BACE2_HUMAN	beta-site APP-cleaving enzyme 2 isoform A	100	Extracellular (Potential).				membrane protein ectodomain proteolysis|negative regulation of amyloid precursor protein biosynthetic process|peptide hormone processing	cell surface|endoplasmic reticulum|endosome|Golgi apparatus|integral to membrane	aspartic-type endopeptidase activity			ovary(2)	2		Prostate(19;1.57e-07)|all_epithelial(19;0.0251)																---	---	---	---
U2AF1	7307	broad.mit.edu	37	21	44514504	44514504	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:44514504delT	uc002zda.1	-						U2AF1_uc002zcy.1_Intron|U2AF1_uc002zcz.1_Intron|U2AF1_uc002zdb.1_Intron|U2AF1_uc010gpi.1_3'UTR	NM_001025203	NP_001020374			U2 small nuclear RNA auxillary factor 1 isoform						mRNA 3'-end processing|mRNA export from nucleus|termination of RNA polymerase II transcription	Cajal body|catalytic step 2 spliceosome|nuclear speck	nucleotide binding|RNA binding|zinc ion binding				0																		---	---	---	---
RRP1B	23076	broad.mit.edu	37	21	45093516	45093516	+	Intron	DEL	A	-	-	rs71666834		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:45093516delA	uc002zdk.2	+							NM_015056	NP_055871			ribosomal RNA processing 1 homolog B						rRNA processing	cytosol|nucleolus|preribosome, small subunit precursor	protein binding			skin(1)	1				STAD - Stomach adenocarcinoma(101;0.178)														---	---	---	---
TRAPPC10	7109	broad.mit.edu	37	21	45499777	45499777	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:45499777delA	uc002zea.2	+						TRAPPC10_uc010gpo.2_Intron|TRAPPC10_uc011afa.1_5'Flank	NM_003274	NP_003265			trafficking protein particle complex 10						vesicle-mediated transport	Golgi apparatus|integral to membrane	binding|sodium ion transmembrane transporter activity			ovary(1)|skin(1)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	22	16419352	16419353	+	IGR	DEL	TT	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:16419352_16419353delTT								POTEH (131415 upstream) : OR11H1 (29473 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	22	16487825	16487826	+	IGR	INS	-	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:16487825_16487826insT								OR11H1 (38021 upstream) : CCT8L2 (583822 downstream)																																			---	---	---	---
MED15	51586	broad.mit.edu	37	22	20929656	20929656	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:20929656delT	uc002zsp.2	+						MED15_uc002zsq.2_Intron|MED15_uc010gso.2_Intron|MED15_uc002zsr.2_Intron|MED15_uc011ahs.1_Intron|MED15_uc002zss.2_Intron|MED15_uc011ahu.1_Intron|MED15_uc002zst.2_Intron	NM_001003891	NP_001003891			mediator complex subunit 15 isoform a						regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|mediator complex	protein binding			skin(1)	1	all_cancers(11;2.07e-24)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0221)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)|Epithelial(17;0.209)															---	---	---	---
GGT5	2687	broad.mit.edu	37	22	24621438	24621438	+	Intron	DEL	C	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:24621438delC	uc002zzo.3	-						GGT5_uc002zzp.3_Intron|GGT5_uc002zzr.3_Intron|GGT5_uc002zzq.3_Intron|GGT5_uc011ajm.1_Intron	NM_004121	NP_004112			gamma-glutamyltransferase 5 isoform b						glutathione biosynthetic process|hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process	integral to membrane|plasma membrane	acyltransferase activity|gamma-glutamyltransferase activity			ovary(2)|skin(1)	3																		---	---	---	---
Unknown	0	broad.mit.edu	37	22	25092133	25092134	+	IGR	INS	-	TCC	TCC	rs140281622	by1000genomes	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:25092133_25092134insTCC								POM121L10P (37019 upstream) : PIWIL3 (22867 downstream)																																			---	---	---	---
ASCC2	84164	broad.mit.edu	37	22	30196926	30196927	+	Intron	DEL	CT	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:30196926_30196927delCT	uc003agr.2	-						ASCC2_uc003ags.2_Intron|ASCC2_uc003agt.2_Intron|ASCC2_uc011akr.1_Intron	NM_032204	NP_115580			activating signal cointegrator 1 complex subunit						regulation of transcription, DNA-dependent|transcription, DNA-dependent						0			OV - Ovarian serous cystadenocarcinoma(5;0.000103)|Epithelial(10;0.0169)|all cancers(5;0.0259)															---	---	---	---
HORMAD2	150280	broad.mit.edu	37	22	30507905	30507905	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:30507905delT	uc003agy.2	+							NM_152510	NP_689723			HORMA domain containing 2						meiosis|mitosis	chromosome|nucleus					0			Epithelial(10;0.125)															---	---	---	---
SFI1	9814	broad.mit.edu	37	22	31985776	31985776	+	Intron	DEL	A	-	-	rs59686262		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:31985776delA	uc003ale.2	+						SFI1_uc003ald.1_Intron|SFI1_uc003alf.2_Intron|SFI1_uc003alg.2_Intron|SFI1_uc011alp.1_Intron|SFI1_uc011alq.1_Intron|SFI1_uc003alh.2_Intron|SFI1_uc010gwi.2_Intron	NM_001007467	NP_001007468			spindle assembly associated Sfi1 homolog isoform						G2/M transition of mitotic cell cycle	centriole|cytosol				central_nervous_system(1)	1																		---	---	---	---
APOL1	8542	broad.mit.edu	37	22	36653619	36653619	+	Intron	DEL	G	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:36653619delG	uc003apf.2	+						APOL1_uc011amn.1_Intron|APOL1_uc003apc.2_Intron|APOL1_uc003ape.2_Intron|APOL1_uc011amo.1_Intron|APOL1_uc011amp.1_Intron|APOL1_uc011amq.1_Intron|APOL1_uc010gwx.2_Intron	NM_003661	NP_003652			apolipoprotein L1 isoform a precursor						cholesterol metabolic process|cytolysis|innate immune response|killing of cells of other organism|lipid transport|lipoprotein metabolic process	high-density lipoprotein particle|very-low-density lipoprotein particle	chloride channel activity|lipid binding|protein binding			breast(2)|ovary(1)	3																		---	---	---	---
MYH9	4627	broad.mit.edu	37	22	36712840	36712840	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:36712840delA	uc003apg.2	-						MYH9_uc003aph.1_Intron	NM_002473	NP_002464			myosin, heavy polypeptide 9, non-muscle						actin cytoskeleton reorganization|actin filament-based movement|angiogenesis|axon guidance|blood vessel endothelial cell migration|cytokinesis|integrin-mediated signaling pathway|leukocyte migration|membrane protein ectodomain proteolysis|monocyte differentiation|platelet formation|protein transport|regulation of cell shape	actomyosin contractile ring|cleavage furrow|cytosol|myosin complex|nucleus|ruffle|stress fiber|uropod	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity|protein anchor|protein homodimerization activity			breast(3)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)|pancreas(1)	11								T	ALK	ALCL		Deafness|autosomal dominant 17|Epstein syndrome|Fechtner syndrome|May-Hegglin anomaly|Sebastian syndrome		Hereditary_Macrothrombocytopenia_MYH9-associated				---	---	---	---
KDELR3	11015	broad.mit.edu	37	22	38877028	38877028	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:38877028delA	uc003avv.2	+						KDELR3_uc003avu.2_Intron	NM_006855	NP_006846			KDEL receptor 3 isoform a						protein retention in ER lumen|protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|integral to membrane	ER retention sequence binding|receptor activity			ovary(2)	2	Melanoma(58;0.0286)																	---	---	---	---
DDX17	10521	broad.mit.edu	37	22	38895455	38895455	+	Frame_Shift_Del	DEL	C	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:38895455delC	uc003avy.3	-	3	591	c.488delG	c.(487-489)GGAfs	p.G163fs	DDX17_uc003avx.3_Frame_Shift_Del_p.G163fs|DDX17_uc011anu.1_Frame_Shift_Del_p.G76fs	NM_001098504	NP_001091974	Q92841	DDX17_HUMAN	DEAD box polypeptide 17 isoform 3	84					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)																	---	---	---	---
XPNPEP3	63929	broad.mit.edu	37	22	41264850	41264850	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:41264850delA	uc003azh.2	+						XPNPEP3_uc011aox.1_Intron|XPNPEP3_uc003azi.2_Intron|XPNPEP3_uc011aoy.1_Intron|XPNPEP3_uc010gyh.1_Intron	NM_022098	NP_071381			X-prolyl aminopeptidase (aminopeptidase P) 3,						cellular process	mitochondrion	aminopeptidase activity|manganese ion binding|metallopeptidase activity				0																		---	---	---	---
MIR1249	100302149	broad.mit.edu	37	22	45596846	45596846	+	RNA	DEL	G	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:45596846delG	hsa-mir-1249|MI0006384	-			c.55delG			C22orf9_uc003bfx.1_Intron|C22orf9_uc010gzw.1_Intron|C22orf9_uc003bfv.1_Intron|C22orf9_uc003bfw.1_Intron|C22orf9_uc010gzx.2_Intron																	0																		---	---	---	---
FBLN1	2192	broad.mit.edu	37	22	45930872	45930872	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:45930872delA	uc003bgj.1	+						FBLN1_uc003bgg.1_Intron|FBLN1_uc003bgh.2_Intron|FBLN1_uc010gzz.2_Intron|FBLN1_uc003bgi.1_Intron	NM_006486	NP_006477			fibulin 1 isoform D						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)														---	---	---	---
MOV10L1	54456	broad.mit.edu	37	22	50555574	50555575	+	Intron	INS	-	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:50555574_50555575insT	uc003bjj.2	+						MOV10L1_uc003bjk.3_Intron|MOV10L1_uc011arp.1_Intron|MOV10L1_uc011arq.1_Intron|MOV10L1_uc010hao.1_Intron	NM_018995	NP_061868			MOV10-like 1 isoform 1						germ cell development|multicellular organismal development|spermatogenesis		ATP binding|ATP-dependent RNA helicase activity|magnesium ion binding|RNA binding			ovary(2)|skin(1)	3		all_cancers(38;3.31e-11)|all_epithelial(38;5.69e-10)|all_lung(38;3.73e-05)|Breast(42;0.000525)|Lung NSC(38;0.000954)|Ovarian(80;0.0367)|Lung SC(80;0.114)		LUAD - Lung adenocarcinoma(64;0.0215)|BRCA - Breast invasive adenocarcinoma(115;0.24)														---	---	---	---
ADM2	79924	broad.mit.edu	37	22	50921041	50921041	+	Frame_Shift_Del	DEL	C	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:50921041delC	uc003blj.2	+	2	421	c.156delC	c.(154-156)CACfs	p.H52fs	ADM2_uc011ary.1_Frame_Shift_Del_p.H52fs	NM_024866	NP_079142	Q7Z4H4	ADM2_HUMAN	adrenomedullin 2 precursor	52					positive regulation of angiogenesis	extracellular region	hormone activity				0		all_cancers(38;4.58e-14)|all_epithelial(38;1.12e-12)|all_lung(38;3.07e-05)|Breast(42;6.27e-05)|Lung NSC(38;0.000813)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)														---	---	---	---
Unknown	0	broad.mit.edu	37	X	970154	970154	+	IGR	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:970154delT								SHOX (350009 upstream) : CRLF2 (344733 downstream)																																			---	---	---	---
IL3RA	3563	broad.mit.edu	37	X	1501564	1501565	+	3'UTR	DEL	TT	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:1501564_1501565delTT	uc004cps.2	+	12					IL3RA_uc011mhd.1_3'UTR	NM_002183	NP_002174			interleukin 3 receptor, alpha precursor							integral to membrane|plasma membrane	interleukin-3 receptor activity			skin(2)|lung(1)	3		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)			Sargramostim(DB00020)													---	---	---	---
MID1	4281	broad.mit.edu	37	X	10591346	10591349	+	Intron	DEL	GAAG	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:10591346_10591349delGAAG	uc004ctk.3	-						MID1_uc004ctg.3_5'Flank|MID1_uc004cth.3_5'Flank|MID1_uc004cti.3_Intron|MID1_uc004ctj.3_Intron|MID1_uc011mie.1_Intron	NM_001098624	NP_001092094			midline 1						microtubule cytoskeleton organization|pattern specification process|positive regulation of stress-activated MAPK cascade	cytoplasm|microtubule|microtubule associated complex|spindle	ligase activity|ubiquitin protein ligase binding|zinc ion binding			ovary(2)|pancreas(1)	3																		---	---	---	---
GEMIN8	54960	broad.mit.edu	37	X	14039512	14039512	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:14039512delA	uc004cwb.2	-						GEMIN8_uc004cwc.2_Intron|GEMIN8_uc004cwd.2_Intron	NM_017856	NP_060326			gem (nuclear organelle) associated protein 8						spliceosomal snRNP assembly	Cajal body|cytoplasm|SMN complex|spliceosomal complex	protein binding				0																		---	---	---	---
ACE2	59272	broad.mit.edu	37	X	15584646	15584646	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:15584646delA	uc004cxa.1	-						ACE2_uc004cxb.2_Intron	NM_021804	NP_068576			angiotensin I converting enzyme 2 precursor						angiotensin-mediated drinking behavior|proteolysis|receptor biosynthetic process|regulation of cell proliferation|virion attachment, binding of host cell surface receptor	cell surface|extracellular space|integral to membrane|membrane raft|plasma membrane	carboxypeptidase activity|glycoprotein binding|metallopeptidase activity|peptidyl-dipeptidase activity|viral receptor activity|zinc ion binding			ovary(3)	3	Hepatocellular(33;0.183)				Moexipril(DB00691)													---	---	---	---
REPS2	9185	broad.mit.edu	37	X	17095142	17095142	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:17095142delT	uc004cxv.1	+						REPS2_uc004cxw.1_Intron|REPS2_uc011miw.1_Intron	NM_004726	NP_004717			RALBP1 associated Eps domain containing 2						epidermal growth factor receptor signaling pathway|protein complex assembly	cytoplasm	calcium ion binding|protein binding			skin(2)|central_nervous_system(1)	3	Hepatocellular(33;0.183)																	---	---	---	---
CDKL5	6792	broad.mit.edu	37	X	18665265	18665265	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:18665265delT	uc004cym.2	+						CDKL5_uc004cyn.2_Intron|RS1_uc004cyo.2_Intron	NM_003159	NP_003150			cyclin-dependent kinase-like 5						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)																	---	---	---	---
CXorf23	256643	broad.mit.edu	37	X	19955695	19955695	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:19955695delT	uc004czp.2	-						CXorf23_uc010nfn.2_Intron|CXorf23_uc011mjg.1_Intron|CXorf23_uc004czo.2_Intron	NM_198279	NP_938020			hypothetical protein LOC256643							mitochondrion				lung(1)|skin(1)	2																		---	---	---	---
KLHL15	80311	broad.mit.edu	37	X	24006015	24006015	+	3'UTR	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:24006015delT	uc004dba.3	-	4						NM_030624	NP_085127			kelch-like 15											ovary(1)|breast(1)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	X	27537964	27537964	+	IGR	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:27537964delA								SMEK3P (56506 upstream) : DCAF8L2 (226962 downstream)																																			---	---	---	---
DMD	1756	broad.mit.edu	37	X	31462877	31462877	+	Intron	DEL	C	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:31462877delC	uc004dda.1	-						DMD_uc004dcq.1_Intron|DMD_uc004dcr.1_Intron|DMD_uc004dcs.1_Intron|DMD_uc004dct.1_Intron|DMD_uc004dcu.1_Intron|DMD_uc004dcv.1_Intron|DMD_uc004dcw.2_Intron|DMD_uc004dcx.2_Intron|DMD_uc004dcz.2_Intron|DMD_uc004dcy.1_Intron|DMD_uc004ddb.1_Intron	NM_004006	NP_003997			dystrophin Dp427m isoform						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)																---	---	---	---
SYTL5	94122	broad.mit.edu	37	X	37913443	37913443	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:37913443delT	uc004ddu.2	+						SYTL5_uc004ddv.2_Intron|SYTL5_uc004ddx.2_Intron	NM_001163335	NP_001156807			synaptotagmin-like 5 isoform 1						intracellular protein transport	membrane	metal ion binding|Rab GTPase binding			skin(1)	1																		---	---	---	---
USP9X	8239	broad.mit.edu	37	X	41069679	41069679	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:41069679delT	uc004dfb.2	+						USP9X_uc004dfc.2_Intron	NM_001039590	NP_001034679			ubiquitin specific protease 9, X-linked isoform						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																		---	---	---	---
CASK	8573	broad.mit.edu	37	X	41519589	41519590	+	Intron	INS	-	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:41519589_41519590insA	uc004dfl.3	-						CASK_uc004dfk.3_Intron|CASK_uc004dfm.3_Intron|CASK_uc004dfn.3_Intron	NM_003688	NP_003679			calcium/calmodulin-dependent serine protein						cell adhesion	actin cytoskeleton|cytoplasm|nucleus|plasma membrane	ATP binding|calmodulin binding|guanylate kinase activity|protein serine/threonine kinase activity			ovary(3)|lung(2)|stomach(1)	6																		---	---	---	---
PORCN	64840	broad.mit.edu	37	X	48369586	48369587	+	Intron	DEL	CT	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:48369586_48369587delCT	uc010nie.1	+						PORCN_uc004djq.1_Intron|PORCN_uc004djr.1_Intron|PORCN_uc004djs.1_Intron|PORCN_uc004djt.1_Intron|PORCN_uc011mlx.1_Intron|PORCN_uc004dju.1_Intron|PORCN_uc004djv.1_Intron|PORCN_uc004djw.1_Intron	NM_203475	NP_982301			porcupine isoform D						Wnt receptor signaling pathway	endoplasmic reticulum membrane|integral to membrane	acyltransferase activity			ovary(2)|central_nervous_system(1)	3																OREG0019764	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
Unknown	0	broad.mit.edu	37	X	52639464	52639464	+	IGR	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:52639464delT								XAGE1D (395513 upstream) : SSX8 (12521 downstream)																																			---	---	---	---
HUWE1	10075	broad.mit.edu	37	X	53589990	53589990	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:53589990delT	uc004dsp.2	-						HUWE1_uc004dsn.2_Intron	NM_031407	NP_113584			HECT, UBA and WWE domain containing 1						base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17																		---	---	---	---
Unknown	0	broad.mit.edu	37	X	54868437	54868437	+	IGR	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:54868437delT								MAGED2 (25992 upstream) : TRO (78812 downstream)																																			---	---	---	---
RRAGB	10325	broad.mit.edu	37	X	55753729	55753729	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:55753729delT	uc004dup.2	+						RRAGB_uc004duq.2_Intron	NM_016656	NP_057740			Ras-related GTP binding B long isoform						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																		---	---	---	---
FAAH2	158584	broad.mit.edu	37	X	57368049	57368050	+	Intron	DEL	TT	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:57368049_57368050delTT	uc004dvc.2	+							NM_174912	NP_777572			fatty acid amide hydrolase 2							integral to membrane	carbon-nitrogen ligase activity, with glutamine as amido-N-donor|hydrolase activity			ovary(3)	3															HNSCC(52;0.14)			---	---	---	---
Unknown	0	broad.mit.edu	37	X	64548402	64548402	+	IGR	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:64548402delT								ZC4H2 (293809 upstream) : ZC3H12B (160304 downstream)																																			---	---	---	---
XIST	7503	broad.mit.edu	37	X	73071979	73071980	+	RNA	INS	-	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:73071979_73071980insA	uc004ebm.1	-	1		c.609_610insT				NR_001564				Homo sapiens cDNA: FLJ21545 fis, clone COL06195.												0																		---	---	---	---
ATRX	546	broad.mit.edu	37	X	76814402	76814402	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:76814402delT	uc004ecp.3	-						ATRX_uc004ecq.3_Intron|ATRX_uc004eco.3_Intron	NM_000489	NP_000480			transcriptional regulator ATRX isoform 1						DNA methylation|DNA recombination|DNA repair|regulation of transcription, DNA-dependent	nuclear heterochromatin	ATP binding|chromo shadow domain binding|DNA binding|DNA helicase activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(14)|pancreas(12)|lung(1)|breast(1)|skin(1)|kidney(1)	30					Phosphatidylserine(DB00144)			Mis|F|N		Pancreatic neuroendocrine tumors		ATR-X (alpha thalassemia/mental retardation) syndrome						---	---	---	---
ITM2A	9452	broad.mit.edu	37	X	78616691	78616691	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:78616691delA	uc004edh.2	-						ITM2A_uc011mqr.1_Intron	NM_004867	NP_004858			integral membrane protein 2A							integral to membrane	protein binding			lung(2)	2																		---	---	---	---
BRWD3	254065	broad.mit.edu	37	X	79963089	79963089	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:79963089delT	uc004edt.2	-						BRWD3_uc010nmi.1_Intron|BRWD3_uc004edo.2_Intron|BRWD3_uc004edp.2_Intron|BRWD3_uc004edq.2_Intron|BRWD3_uc010nmj.1_Intron|BRWD3_uc004edr.2_Intron|BRWD3_uc004eds.2_Intron|BRWD3_uc004edu.2_Intron|BRWD3_uc004edv.2_Intron|BRWD3_uc004edw.2_Intron|BRWD3_uc004edx.2_Intron|BRWD3_uc004edy.2_Intron|BRWD3_uc004edz.2_Intron|BRWD3_uc004eea.2_Intron|BRWD3_uc004eeb.2_Intron	NM_153252	NP_694984			bromodomain and WD repeat domain containing 3											ovary(4)	4																		---	---	---	---
TMSB15B	286527	broad.mit.edu	37	X	103220212	103220212	+	3'UTR	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:103220212delT	uc010noz.2	+	3					TMSB15B_uc004elo.3_RNA|TMSB15B_uc004elq.3_RNA	NM_194324	NP_919305			thymosin beta15b						actin cytoskeleton organization|sequestering of actin monomers	cytoplasm|cytoskeleton	actin binding			skin(1)	1																		---	---	---	---
COL4A5	1287	broad.mit.edu	37	X	107911787	107911787	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:107911787delT	uc004enz.1	+						COL4A5_uc011mso.1_Intron	NM_033380	NP_203699			type IV collagen alpha 5 isoform 2 precursor						axon guidance	collagen type IV	extracellular matrix structural constituent|protein binding			ovary(3)|central_nervous_system(1)	4														Alport_syndrome_with_Diffuse_Leiomyomatosis				---	---	---	---
CHRDL1	91851	broad.mit.edu	37	X	110035534	110035534	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:110035534delA	uc004eou.3	-						CHRDL1_uc004eov.2_5'Flank|CHRDL1_uc004eow.2_Intron|CHRDL1_uc010nps.2_Intron|CHRDL1_uc004eot.2_Intron|CHRDL1_uc011mss.1_Intron|CHRDL1_uc004eox.3_Intron	NM_001143981	NP_001137453			chordin-like 1 isoform 1 precursor						BMP signaling pathway|cell differentiation|nervous system development|ossification	extracellular region					0																		---	---	---	---
PLS3	5358	broad.mit.edu	37	X	114844800	114844800	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:114844800delT	uc004eqd.2	+						PLS3_uc010nqf.2_Intron|PLS3_uc010nqg.2_Intron|PLS3_uc011mtf.1_Intron|PLS3_uc004eqe.2_Intron|PLS3_uc011mtg.1_Intron|PLS3_uc011mth.1_Intron	NM_005032	NP_005023			plastin 3							cytoplasm	actin binding|calcium ion binding			lung(1)|breast(1)	2																		---	---	---	---
WDR44	54521	broad.mit.edu	37	X	117520459	117520459	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:117520459delT	uc004eqn.2	+						WDR44_uc004eqo.2_Intron|WDR44_uc011mtr.1_Intron	NM_019045	NP_061918			WD repeat domain 44 protein							cytosol|endosome membrane|Golgi apparatus|perinuclear region of cytoplasm				lung(2)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)	5																		---	---	---	---
IL13RA1	3597	broad.mit.edu	37	X	117880827	117880827	+	Intron	DEL	A	-	-	rs144642926	by1000genomes	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:117880827delA	uc004eqs.2	+						IL13RA1_uc004eqr.1_Intron|IL13RA1_uc004eqt.1_Intron	NM_001560	NP_001551			interleukin 13 receptor, alpha 1 precursor							interleukin-13 receptor complex	cytokine receptor activity				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	X	118012394	118012394	+	IGR	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:118012394delT								ZCCHC12 (51464 upstream) : LONRF3 (96319 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	X	119549571	119549571	+	IGR	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:119549571delT								ATP1B4 (33349 upstream) : LAMP2 (10433 downstream)																																			---	---	---	---
MBNL3	55796	broad.mit.edu	37	X	131513715	131513715	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:131513715delA	uc004ewv.3	-						uc004ewr.1_Intron|MBNL3_uc004eww.2_Intron|MBNL3_uc004ews.2_Intron|MBNL3_uc004ewt.2_Intron|MBNL3_uc011muz.1_Intron|MBNL3_uc004ewu.3_Intron	NM_018388	NP_060858			muscleblind-like 3 isoform G						mRNA processing|multicellular organismal development|regulation of RNA splicing|RNA splicing	Golgi apparatus|nucleus	nucleic acid binding|zinc ion binding				0	Acute lymphoblastic leukemia(192;0.000127)																	---	---	---	---
PLAC1	10761	broad.mit.edu	37	X	133700780	133700780	+	Intron	DEL	A	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:133700780delA	uc004exo.1	-						PLAC1_uc004exp.1_Intron	NM_021796	NP_068568			placenta-specific 1 precursor						placenta development	extracellular region				pancreas(1)	1	Acute lymphoblastic leukemia(192;0.000127)																	---	---	---	---
MAP7D3	79649	broad.mit.edu	37	X	135322790	135322790	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:135322790delT	uc004ezt.2	-						MAP7D3_uc004ezs.2_Intron|MAP7D3_uc011mwc.1_Intron|MAP7D3_uc010nsa.1_Intron	NM_024597	NP_078873			MAP7 domain containing 3							cytoplasm|spindle				ovary(2)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;0.000127)																	---	---	---	---
ARHGEF6	9459	broad.mit.edu	37	X	135765124	135765124	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:135765124delT	uc004fab.2	-						ARHGEF6_uc011mwd.1_Intron|ARHGEF6_uc011mwe.1_Intron	NM_004840	NP_004831			Rac/Cdc42 guanine nucleotide exchange factor 6						apoptosis|cell junction assembly|induction of apoptosis by extracellular signals|JNK cascade|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity				0	Acute lymphoblastic leukemia(192;0.000127)																	---	---	---	---
MTMR1	8776	broad.mit.edu	37	X	149898766	149898766	+	Intron	DEL	T	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:149898766delT	uc004fei.2	+						MTMR1_uc011mya.1_Intron|MTMR1_uc004feg.1_Intron|MTMR1_uc004feh.1_Intron|MTMR1_uc004fej.2_Intron|MTMR1_uc010ntf.2_Intron	NM_003828	NP_003819			myotubularin-related protein 1							plasma membrane	protein tyrosine phosphatase activity			ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)																	---	---	---	---
NAA10	8260	broad.mit.edu	37	X	153196178	153196178	+	Intron	DEL	C	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:153196178delC	uc004fjm.1	-						NAA10_uc004fjn.1_Intron	NM_003491	NP_003482			alpha-N-acetyltransferase 1A						DNA packaging|internal protein amino acid acetylation|N-terminal protein amino acid acetylation	cytoplasm|nucleus	peptide alpha-N-acetyltransferase activity|protein binding			ovary(1)	1																		---	---	---	---
FLNA	2316	broad.mit.edu	37	X	153577261	153577261	+	Frame_Shift_Del	DEL	C	-	-			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:153577261delC	uc004fkk.2	-	48	8149	c.7900delG	c.(7900-7902)GACfs	p.D2634fs	FLNA_uc004fki.2_Frame_Shift_Del_p.D674fs|FLNA_uc011mzn.1_Frame_Shift_Del_p.D767fs|FLNA_uc010nuu.1_Frame_Shift_Del_p.D2626fs	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2	2634	Self-association site, tail.|Filamin 24.			D -> H (in Ref. 2; CAA37495).	actin crosslink formation|actin cytoskeleton reorganization|cell junction assembly|cytoplasmic sequestering of protein|establishment of protein localization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of protein catabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|platelet activation|platelet degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription factor import into nucleus|protein localization at cell surface|protein stabilization|receptor clustering	cell cortex|cytosol|extracellular region|nucleus|plasma membrane	actin filament binding|Fc-gamma receptor I complex binding|glycoprotein binding|GTP-Ral binding|protein homodimerization activity|Rac GTPase binding|signal transducer activity|transcription factor binding			breast(6)	6	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-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)																	---	---	---	---
NOC2L	26155	broad.mit.edu	37	1	887854	887854	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:887854C>T	uc001abz.3	-	10	1188	c.1129G>A	c.(1129-1131)GCC>ACC	p.A377T	NOC2L_uc001aby.3_Missense_Mutation_p.A174T|NOC2L_uc009vjq.2_Missense_Mutation_p.A377T	NM_015658	NP_056473	Q9Y3T9	NOC2L_HUMAN	nucleolar complex associated 2 homolog	377						nucleolus	protein binding			ovary(1)|skin(1)	2	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;0.00459)|Epithelial(90;1.86e-38)|OV - Ovarian serous cystadenocarcinoma(86;6.08e-23)|Colorectal(212;0.000161)|COAD - Colon adenocarcinoma(227;0.000194)|BRCA - Breast invasive adenocarcinoma(365;0.000475)|Kidney(185;0.00231)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0344)|Lung(427;0.2)														---	---	---	---
KLHL17	339451	broad.mit.edu	37	1	899343	899343	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:899343G>A	uc001aca.1	+	9	1506	c.1399G>A	c.(1399-1401)GCT>ACT	p.A467T	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	467	Interaction with F-actin (By similarity).|Kelch 3.				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)														---	---	---	---
AGRN	375790	broad.mit.edu	37	1	980540	980540	+	Splice_Site	SNP	G	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:980540G>T	uc001ack.1	+	13	2305	c.2255_splice	c.e13-1	p.G752_splice		NM_198576	NP_940978			agrin precursor						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)														---	---	---	---
WDR8	49856	broad.mit.edu	37	1	3551767	3551767	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:3551767C>T	uc001ako.2	-	7	803	c.695G>A	c.(694-696)AGC>AAC	p.S232N	WDR8_uc001akn.3_Missense_Mutation_p.S232N|WDR8_uc010nzi.1_3'UTR	NM_017818	NP_060288	Q9P2S5	WRP73_HUMAN	WD repeat domain 8	232	WD 4.					centrosome	protein binding				0	all_cancers(77;0.0128)|all_epithelial(69;0.00526)|Ovarian(185;0.0634)|Lung NSC(156;0.162)|all_lung(157;0.172)	all_epithelial(116;7.37e-22)|all_lung(118;8.23e-09)|Lung NSC(185;3.55e-06)|Breast(487;0.000659)|Renal(390;0.00121)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Lung SC(97;0.0262)|Ovarian(437;0.0308)|Medulloblastoma(700;0.211)		Epithelial(90;4.11e-38)|OV - Ovarian serous cystadenocarcinoma(86;4.16e-22)|GBM - Glioblastoma multiforme(42;1.05e-14)|Colorectal(212;1.19e-05)|BRCA - Breast invasive adenocarcinoma(365;2.67e-05)|COAD - Colon adenocarcinoma(227;5.82e-05)|Kidney(185;0.000364)|KIRC - Kidney renal clear cell carcinoma(229;0.00223)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.203)														---	---	---	---
RERE	473	broad.mit.edu	37	1	8418331	8418331	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:8418331C>T	uc001ape.2	-	21	5074	c.4264G>A	c.(4264-4266)GTG>ATG	p.V1422M	RERE_uc001apf.2_Missense_Mutation_p.V1422M|RERE_uc001apd.2_Missense_Mutation_p.V868M	NM_012102	NP_036234	Q9P2R6	RERE_HUMAN	atrophin-1 like protein isoform a	1422					multicellular organismal development|NLS-bearing substrate import into nucleus	mitochondrion	poly-glutamine tract binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Ovarian(185;0.0661)	all_epithelial(116;1.17e-21)|all_lung(118;1.4e-06)|Lung NSC(185;3.06e-06)|Renal(390;0.000147)|Breast(348;0.000206)|Colorectal(325;0.00187)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;9.64e-67)|GBM - Glioblastoma multiforme(8;9.89e-33)|Colorectal(212;1.45e-07)|COAD - Colon adenocarcinoma(227;3.42e-05)|Kidney(185;6e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000533)|KIRC - Kidney renal clear cell carcinoma(229;0.00106)|STAD - Stomach adenocarcinoma(132;0.00118)|READ - Rectum adenocarcinoma(331;0.0419)|Lung(427;0.195)														---	---	---	---
PIK3CD	5293	broad.mit.edu	37	1	9784908	9784908	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:9784908G>A	uc001aqb.3	+	23	3119	c.2911G>A	c.(2911-2913)GGG>AGG	p.G971R	PIK3CD_uc010oaf.1_Missense_Mutation_p.G970R|PIK3CD_uc001aqe.3_Missense_Mutation_p.G995R	NM_005026	NP_005017	O00329	PK3CD_HUMAN	catalytic phosphatidylinositol 3-kinase delta	971	PI3K/PI4K.				phosphatidylinositol-mediated signaling|protein phosphorylation	phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(4)|skin(2)|central_nervous_system(1)	7	all_lung(157;0.222)	all_lung(118;2.44e-05)|Lung NSC(185;4.08e-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;0.0231)|Colorectal(212;7.52e-08)|COAD - Colon adenocarcinoma(227;1.78e-05)|Kidney(185;0.000322)|KIRC - Kidney renal clear cell carcinoma(229;0.00114)|BRCA - Breast invasive adenocarcinoma(304;0.0021)|STAD - Stomach adenocarcinoma(132;0.00395)|READ - Rectum adenocarcinoma(331;0.0419)												OREG0013083	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
KIF1B	23095	broad.mit.edu	37	1	10356694	10356694	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:10356694G>A	uc001aqx.3	+	20	2034	c.1832G>A	c.(1831-1833)AGG>AAG	p.R611K	KIF1B_uc001aqv.3_Missense_Mutation_p.R565K|KIF1B_uc001aqw.3_Missense_Mutation_p.R565K|KIF1B_uc001aqy.2_Missense_Mutation_p.R585K|KIF1B_uc001aqz.2_Missense_Mutation_p.R611K|KIF1B_uc001ara.2_Missense_Mutation_p.R571K|KIF1B_uc001arb.2_Missense_Mutation_p.R597K	NM_015074	NP_055889	O60333	KIF1B_HUMAN	kinesin family member 1B isoform b	611	FHA.				anterograde axon cargo transport|apoptosis|neuromuscular synaptic transmission|neuron-neuron synaptic transmission	cytoplasmic vesicle membrane|microtubule|microtubule associated complex|mitochondrion	ATP binding|ATPase activity|kinesin binding|microtubule motor activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	Ovarian(185;0.203)	all_lung(284;1.31e-05)|Lung NSC(185;2.2e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0259)|Colorectal(212;9.79e-07)|COAD - Colon adenocarcinoma(227;0.000143)|BRCA - Breast invasive adenocarcinoma(304;0.000413)|Kidney(185;0.00134)|KIRC - Kidney renal clear cell carcinoma(229;0.0037)|STAD - Stomach adenocarcinoma(132;0.0113)|READ - Rectum adenocarcinoma(331;0.0642)														---	---	---	---
MIIP	60672	broad.mit.edu	37	1	12081901	12081901	+	Intron	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:12081901C>T	uc001ato.1	+							NM_021933	NP_068752			invasion inhibitory protein 45											ovary(1)	1																		---	---	---	---
ARHGEF19	128272	broad.mit.edu	37	1	16534699	16534699	+	Missense_Mutation	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:16534699T>C	uc001ayc.1	-	3	571	c.434A>G	c.(433-435)CAG>CGG	p.Q145R	ARHGEF19_uc009voo.1_5'Flank|ARHGEF19_uc001ayb.1_5'Flank	NM_153213	NP_694945	Q8IW93	ARHGJ_HUMAN	Rho guanine nucleotide exchange factor (GEF) 19	145					regulation of actin cytoskeleton organization	intracellular	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			skin(2)|ovary(1)	3		Colorectal(325;0.000147)|Renal(390;0.00145)|Breast(348;0.00224)|Lung NSC(340;0.00566)|all_lung(284;0.00831)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0646)		UCEC - Uterine corpus endometrioid carcinoma (279;0.018)|Colorectal(212;3.48e-07)|COAD - Colon adenocarcinoma(227;2.19e-05)|BRCA - Breast invasive adenocarcinoma(304;9.46e-05)|Kidney(64;0.000171)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(313;0.0117)|READ - Rectum adenocarcinoma(331;0.0649)														---	---	---	---
ATP13A2	23400	broad.mit.edu	37	1	17313329	17313329	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:17313329G>A	uc001baa.2	-	27	3396	c.3206C>T	c.(3205-3207)GCG>GTG	p.A1069V	ATP13A2_uc001azz.1_Missense_Mutation_p.A216V|ATP13A2_uc001bab.2_Missense_Mutation_p.A1064V|ATP13A2_uc001bac.2_Missense_Mutation_p.A1025V	NM_022089	NP_071372	Q9NQ11	AT132_HUMAN	ATPase type 13A2 isoform 1	1069	Cytoplasmic (Potential).				ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			skin(2)|ovary(1)|central_nervous_system(1)	4		Colorectal(325;0.000147)|Breast(348;0.00104)|Renal(390;0.00145)|Lung NSC(340;0.00566)|all_lung(284;0.00797)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0646)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00462)|COAD - Colon adenocarcinoma(227;1.11e-05)|BRCA - Breast invasive adenocarcinoma(304;1.99e-05)|Kidney(64;0.000171)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00645)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.182)														---	---	---	---
ECE1	1889	broad.mit.edu	37	1	21551931	21551931	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:21551931G>A	uc001bek.2	-	17	1927	c.1852C>T	c.(1852-1854)CGG>TGG	p.R618W	ECE1_uc001bem.2_Missense_Mutation_p.R602W|ECE1_uc001bej.2_Missense_Mutation_p.R606W|ECE1_uc001bei.2_Missense_Mutation_p.R615W|ECE1_uc010odl.1_Missense_Mutation_p.R618W	NM_001397	NP_001388	P42892	ECE1_HUMAN	endothelin converting enzyme 1 isoform 1	618	Extracellular (Potential).				bradykinin catabolic process|calcitonin catabolic process|ear development|embryonic digit morphogenesis|endothelin maturation|heart development|positive regulation of receptor recycling|substance P catabolic process	early endosome|external side of plasma membrane|integral to membrane|intrinsic to endosome membrane|membrane fraction|perinuclear region of cytoplasm|plasma membrane|Weibel-Palade body	metal ion binding|metalloendopeptidase activity|protein homodimerization activity			ovary(2)|skin(1)	3		Lung NSC(340;1.14e-05)|all_lung(284;1.23e-05)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00147)|Ovarian(437;0.00432)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0183)|OV - Ovarian serous cystadenocarcinoma(117;4.83e-27)|COAD - Colon adenocarcinoma(152;1.36e-06)|GBM - Glioblastoma multiforme(114;1.47e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000162)|STAD - Stomach adenocarcinoma(196;0.00326)|KIRC - Kidney renal clear cell carcinoma(1967;0.00755)|READ - Rectum adenocarcinoma(331;0.0678)|Lung(427;0.206)														---	---	---	---
RAP1GAP	5909	broad.mit.edu	37	1	21945544	21945544	+	Missense_Mutation	SNP	G	A	A	rs145342478		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:21945544G>A	uc001bex.2	-	5	298	c.40C>T	c.(40-42)CGC>TGC	p.R14C	RAP1GAP_uc001bev.2_Missense_Mutation_p.R14C|RAP1GAP_uc001bew.2_Missense_Mutation_p.R78C|RAP1GAP_uc001bey.2_Missense_Mutation_p.R14C|RAP1GAP_uc001bez.1_Missense_Mutation_p.R45C	NM_002885	NP_002876	P47736	RPGP1_HUMAN	RAP1 GTPase activating protein isoform c	14	GoLoco.				regulation of Ras GTPase activity|signal transduction	cytosol|Golgi membrane|membrane fraction	GTPase activator activity|GTPase activity|protein homodimerization activity|Ras GTPase binding			breast(2)|ovary(1)	3		Colorectal(325;0.000147)|Renal(390;0.000734)|Lung NSC(340;0.000861)|all_lung(284;0.000901)|Breast(348;0.012)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0427)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0192)|OV - Ovarian serous cystadenocarcinoma(117;2.3e-26)|COAD - Colon adenocarcinoma(152;1.59e-05)|GBM - Glioblastoma multiforme(114;2.7e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000354)|STAD - Stomach adenocarcinoma(196;0.00645)|KIRC - Kidney renal clear cell carcinoma(1967;0.00862)|READ - Rectum adenocarcinoma(331;0.0625)|Lung(427;0.146)														---	---	---	---
HSPG2	3339	broad.mit.edu	37	1	22155944	22155944	+	Missense_Mutation	SNP	G	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:22155944G>T	uc001bfj.2	-	87	11964	c.11924C>A	c.(11923-11925)CCT>CAT	p.P3975H	HSPG2_uc001bfi.2_Translation_Start_Site|HSPG2_uc009vqd.2_Missense_Mutation_p.P3976H	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	3975	Laminin G-like 2.				angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)													---	---	---	---
HSPG2	3339	broad.mit.edu	37	1	22176578	22176578	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:22176578C>T	uc001bfj.2	-	57	7442	c.7402G>A	c.(7402-7404)GTC>ATC	p.V2468I	HSPG2_uc009vqd.2_Missense_Mutation_p.V2469I	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	2468	Ig-like C2-type 10.				angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)													---	---	---	---
EPHA8	2046	broad.mit.edu	37	1	22903024	22903024	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:22903024C>T	uc001bfx.1	+	3	599	c.474C>T	c.(472-474)GAC>GAT	p.D158D	EPHA8_uc001bfw.2_Silent_p.D158D	NM_020526	NP_065387	P29322	EPHA8_HUMAN	ephrin receptor EphA8 isoform 1 precursor	158	Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			central_nervous_system(5)|breast(3)|lung(2)|large_intestine(1)|stomach(1)|skin(1)	13		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;7.29e-27)|Colorectal(126;1.61e-07)|COAD - Colon adenocarcinoma(152;1.14e-05)|GBM - Glioblastoma multiforme(114;1.74e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000554)|KIRC - Kidney renal clear cell carcinoma(1967;0.00272)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)														---	---	---	---
GRHL3	57822	broad.mit.edu	37	1	24664602	24664602	+	Intron	SNP	C	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:24664602C>A	uc001biy.2	+						GRHL3_uc001bix.2_Intron|GRHL3_uc001biz.2_Intron	NM_021180	NP_067003			sister-of-mammalian grainyhead protein isoform						regulation of actin cytoskeleton organization|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1		Colorectal(325;3.46e-05)|Renal(390;0.0007)|Lung NSC(340;0.00171)|all_lung(284;0.00226)|Ovarian(437;0.00348)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.19)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;8.72e-25)|Colorectal(126;4.38e-08)|COAD - Colon adenocarcinoma(152;1.84e-06)|GBM - Glioblastoma multiforme(114;0.000132)|BRCA - Breast invasive adenocarcinoma(304;0.00105)|STAD - Stomach adenocarcinoma(196;0.00151)|KIRC - Kidney renal clear cell carcinoma(1967;0.00377)|READ - Rectum adenocarcinoma(331;0.0656)|Lung(427;0.143)														---	---	---	---
TMEM57	55219	broad.mit.edu	37	1	25818035	25818035	+	Silent	SNP	C	T	T	rs149775144	by1000genomes	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:25818035C>T	uc001bkk.2	+	10	1954	c.1752C>T	c.(1750-1752)TCC>TCT	p.S584S	TMEM57_uc009vru.2_Silent_p.S357S|TMEM57_uc009vrv.2_Silent_p.S226S	NM_018202	NP_060672	Q8N5G2	MACOI_HUMAN	transmembrane protein 57	584						axon|integral to membrane|neuron projection terminus|nuclear membrane|synapse part					0		Colorectal(325;0.000147)|Renal(390;0.00211)|Lung NSC(340;0.00715)|all_lung(284;0.00989)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.051)|Breast(348;0.0675)|all_neural(195;0.201)		UCEC - Uterine corpus endometrioid carcinoma (279;0.042)|OV - Ovarian serous cystadenocarcinoma(117;1.85e-26)|Colorectal(126;2.99e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000751)|STAD - Stomach adenocarcinoma(196;0.000766)|BRCA - Breast invasive adenocarcinoma(304;0.000986)|GBM - Glioblastoma multiforme(114;0.0191)|READ - Rectum adenocarcinoma(331;0.0649)														---	---	---	---
FAM54B	56181	broad.mit.edu	37	1	26158526	26158526	+	3'UTR	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:26158526A>G	uc001bkq.3	+	7					FAM54B_uc001bkr.3_3'UTR|FAM54B_uc010oet.1_3'UTR|FAM54B_uc009vrz.2_3'UTR|FAM54B_uc001bks.3_3'UTR|FAM54B_uc001bkt.3_3'UTR|FAM54B_uc001bku.3_3'UTR|FAM54B_uc001bkv.3_3'UTR	NM_001099625	NP_001093095			hypothetical protein LOC56181 isoform a											pancreas(1)	1		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;0.0415)|OV - Ovarian serous cystadenocarcinoma(117;1.96e-25)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|BRCA - Breast invasive adenocarcinoma(304;0.00095)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0649)														---	---	---	---
PTPRU	10076	broad.mit.edu	37	1	29606106	29606106	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:29606106C>T	uc001bru.2	+	10	1812	c.1702C>T	c.(1702-1704)CGG>TGG	p.R568W	PTPRU_uc001brv.2_Missense_Mutation_p.R568W|PTPRU_uc001brw.2_Missense_Mutation_p.R568W|PTPRU_uc009vtq.2_Missense_Mutation_p.R568W|PTPRU_uc009vtr.2_Missense_Mutation_p.R568W	NM_005704	NP_005695	Q92729	PTPRU_HUMAN	protein tyrosine phosphatase, receptor type, U	568	Extracellular (Potential).|Fibronectin type-III 3.				canonical Wnt receptor signaling pathway|cell differentiation|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transmembrane receptor protein tyrosine phosphatase signaling pathway	cell-cell junction|integral to plasma membrane	beta-catenin binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(3)|ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	7		Colorectal(325;0.000399)|Lung NSC(340;0.00953)|all_lung(284;0.0112)|Breast(348;0.0126)|all_neural(195;0.0199)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0563)|Medulloblastoma(700;0.123)		Colorectal(126;6.99e-07)|COAD - Colon adenocarcinoma(152;3.18e-05)|STAD - Stomach adenocarcinoma(196;0.0234)|READ - Rectum adenocarcinoma(331;0.0686)|BRCA - Breast invasive adenocarcinoma(304;0.0871)														---	---	---	---
PTPRU	10076	broad.mit.edu	37	1	29632103	29632103	+	Intron	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:29632103A>G	uc001bru.2	+						PTPRU_uc001brv.2_Intron|PTPRU_uc001brw.2_Intron|PTPRU_uc009vtq.2_Intron|PTPRU_uc009vtr.2_Intron	NM_005704	NP_005695			protein tyrosine phosphatase, receptor type, U						canonical Wnt receptor signaling pathway|cell differentiation|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transmembrane receptor protein tyrosine phosphatase signaling pathway	cell-cell junction|integral to plasma membrane	beta-catenin binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(3)|ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	7		Colorectal(325;0.000399)|Lung NSC(340;0.00953)|all_lung(284;0.0112)|Breast(348;0.0126)|all_neural(195;0.0199)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0563)|Medulloblastoma(700;0.123)		Colorectal(126;6.99e-07)|COAD - Colon adenocarcinoma(152;3.18e-05)|STAD - Stomach adenocarcinoma(196;0.0234)|READ - Rectum adenocarcinoma(331;0.0686)|BRCA - Breast invasive adenocarcinoma(304;0.0871)														---	---	---	---
GJB4	127534	broad.mit.edu	37	1	35227149	35227149	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:35227149C>T	uc001bxv.1	+	2	664	c.294C>T	c.(292-294)CGC>CGT	p.R98R	GJB4_uc001bxw.3_Silent_p.R98R	NM_153212	NP_694944	Q9NTQ9	CXB4_HUMAN	gap junction protein, beta 4	98	Helical; (Potential).				cell communication	connexon complex|integral to membrane	gap junction channel activity			ovary(2)|central_nervous_system(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.234)																---	---	---	---
GRIK3	2899	broad.mit.edu	37	1	37270641	37270641	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:37270641C>T	uc001caz.2	-	15	2647	c.2512G>A	c.(2512-2514)GTG>ATG	p.V838M	GRIK3_uc001cba.1_Missense_Mutation_p.V838M	NM_000831	NP_000822	Q13003	GRIK3_HUMAN	glutamate receptor, ionotropic, kainate 3	838	Helical; (Potential).				negative regulation of synaptic transmission, glutamatergic|regulation of membrane potential|synaptic transmission	cell junction|dendrite cytoplasm|integral to plasma membrane|perikaryon|postsynaptic membrane|terminal button	adenylate cyclase inhibiting metabotropic glutamate receptor activity|extracellular-glutamate-gated ion channel activity|G-protein-coupled receptor binding|kainate selective glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)|breast(1)	7		Myeloproliferative disorder(586;0.0258)|all_neural(195;0.169)			L-Glutamic Acid(DB00142)													---	---	---	---
HIVEP3	59269	broad.mit.edu	37	1	41976128	41976128	+	Silent	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:41976128G>A	uc001cgz.3	-	9	8428	c.7215C>T	c.(7213-7215)AAC>AAT	p.N2405N	HIVEP3_uc001cha.3_Silent_p.N2404N|HIVEP3_uc001cgy.2_RNA	NM_024503	NP_078779	Q5T1R4	ZEP3_HUMAN	human immunodeficiency virus type I enhancer	2405					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6	Ovarian(52;0.00769)|all_hematologic(146;0.109)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0367)																---	---	---	---
DPH2	1802	broad.mit.edu	37	1	44437052	44437052	+	Intron	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:44437052C>T	uc001ckz.2	+						DPH2_uc001cla.2_Intron|DPH2_uc010okk.1_Intron|DPH2_uc001clb.2_Intron	NM_001384	NP_001375			diphthamide biosynthesis protein 2 isoform a						peptidyl-diphthamide biosynthetic process from peptidyl-histidine	cytoplasm				ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0511)																---	---	---	---
ATP6V0B	533	broad.mit.edu	37	1	44442008	44442008	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:44442008G>A	uc001cld.2	+	4	346	c.235G>A	c.(235-237)GGA>AGA	p.G79R	ATP6V0B_uc001clc.2_Missense_Mutation_p.G79R|ATP6V0B_uc001cle.2_Missense_Mutation_p.G32R|ATP6V0B_uc001clf.2_Missense_Mutation_p.G32R|B4GALT2_uc001clg.2_5'Flank|B4GALT2_uc001clh.2_5'Flank	NM_004047	NP_004038	Q99437	VATO_HUMAN	ATPase, H+ transporting, lysosomal 21kDa, V0	79	Lumenal (Potential).				ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	endosome membrane|integral to membrane|proton-transporting V-type ATPase, V0 domain|vacuolar membrane	hydrogen ion transmembrane transporter activity			breast(1)	1	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0511)																---	---	---	---
POMGNT1	55624	broad.mit.edu	37	1	46660558	46660558	+	Missense_Mutation	SNP	G	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:46660558G>T	uc001cpe.2	-	7	774	c.610C>A	c.(610-612)CTG>ATG	p.L204M	POMGNT1_uc010olx.1_Missense_Mutation_p.L182M|POMGNT1_uc010oly.1_RNA|POMGNT1_uc010olz.1_Missense_Mutation_p.L61M|POMGNT1_uc001cpg.2_Missense_Mutation_p.L204M|POMGNT1_uc001cpf.2_Intron|POMGNT1_uc001cph.1_5'Flank|POMGNT1_uc001cpi.1_5'Flank	NM_017739	NP_060209	Q8WZA1	PMGT1_HUMAN	O-linked mannose	204	Lumenal (Potential).				protein N-linked glycosylation|protein O-linked glycosylation	Golgi membrane|integral to membrane|microsome	alpha-1,3-mannosylglycoprotein 2-beta-N-acetylglucosaminyltransferase activity|beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,3-N-acetylglucosaminyltransferase activity			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)																	---	---	---	---
CYP4X1	260293	broad.mit.edu	37	1	47489571	47489571	+	Nonsense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:47489571C>T	uc001cqt.2	+	1	332	c.82C>T	c.(82-84)CAG>TAG	p.Q28*	CYP4X1_uc001cqr.2_Intron|CYP4X1_uc001cqs.2_Intron	NM_178033	NP_828847	Q8N118	CP4X1_HUMAN	cytochrome P450, family 4, subfamily X,	28						endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding			ovary(1)|skin(1)	2																		---	---	---	---
FAM159A	348378	broad.mit.edu	37	1	53122577	53122577	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:53122577C>T	uc001cuf.2	+	3	538	c.438C>T	c.(436-438)AGC>AGT	p.S146S	FAM159A_uc001cug.1_Intron|FAM159A_uc001cuh.2_Intron	NM_001042693	NP_001036158	Q6UWV7	F159A_HUMAN	hypothetical protein LOC348378	146						integral to membrane					0																		---	---	---	---
ECHDC2	55268	broad.mit.edu	37	1	53370323	53370323	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:53370323G>A	uc001cup.3	-	7	943	c.697C>T	c.(697-699)CCC>TCC	p.P233S	ECHDC2_uc001cun.2_Missense_Mutation_p.P156S|ECHDC2_uc001cuo.3_Missense_Mutation_p.P202S|ECHDC2_uc010onk.1_Missense_Mutation_p.P187S	NM_018281	NP_060751	Q86YB7	ECHD2_HUMAN	enoyl Coenzyme A hydratase domain containing 2	233					fatty acid metabolic process	mitochondrion	lyase activity			central_nervous_system(1)	1																		---	---	---	---
SLC44A5	204962	broad.mit.edu	37	1	75708704	75708704	+	Intron	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:75708704C>T	uc001dgu.2	-						SLC44A5_uc001dgt.2_Intron|SLC44A5_uc001dgs.2_Intron|SLC44A5_uc001dgr.2_Intron|SLC44A5_uc010oqz.1_Intron|SLC44A5_uc010ora.1_Intron|SLC44A5_uc010orb.1_Intron	NM_152697	NP_689910			solute carrier family 44, member 5 isoform A							integral to membrane|plasma membrane	choline transmembrane transporter activity			ovary(2)|skin(2)	4																		---	---	---	---
AK5	26289	broad.mit.edu	37	1	78001620	78001620	+	Missense_Mutation	SNP	C	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:78001620C>A	uc001dhn.2	+	13	1774	c.1517C>A	c.(1516-1518)CCT>CAT	p.P506H	AK5_uc001dho.2_Missense_Mutation_p.P480H	NM_174858	NP_777283	Q9Y6K8	KAD5_HUMAN	adenylate kinase 5 isoform 1	506					ADP biosynthetic process|ATP metabolic process|dADP biosynthetic process|nucleobase, nucleoside and nucleotide interconversion|pyrimidine ribonucleotide biosynthetic process|signal transduction	centrosome|cytosol	adenylate kinase activity|ATP binding|cAMP-dependent protein kinase regulator activity|nucleoside kinase activity			skin(1)	1																		---	---	---	---
ZZZ3	26009	broad.mit.edu	37	1	78098938	78098938	+	Silent	SNP	C	T	T	rs143272664	byFrequency	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:78098938C>T	uc001dhq.2	-	5	578	c.102G>A	c.(100-102)GCG>GCA	p.A34A	ZZZ3_uc001dhr.2_Intron|ZZZ3_uc009wbz.1_Silent_p.A34A|ZZZ3_uc001dhp.2_Silent_p.A34A	NM_015534	NP_056349	Q8IYH5	ZZZ3_HUMAN	zinc finger, ZZ-type containing 3	34					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|large_intestine(1)	5																		---	---	---	---
BRDT	676	broad.mit.edu	37	1	92445140	92445140	+	Silent	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:92445140G>A	uc001dok.3	+	8	1462	c.1113G>A	c.(1111-1113)ACG>ACA	p.T371T	BRDT_uc001dol.3_Silent_p.T371T|BRDT_uc010osz.1_Silent_p.T375T|BRDT_uc009wdf.2_Silent_p.T298T|BRDT_uc010ota.1_Silent_p.T325T|BRDT_uc010otb.1_Silent_p.T325T|BRDT_uc001dom.3_Silent_p.T371T	NM_207189	NP_997072	Q58F21	BRDT_HUMAN	testis-specific bromodomain protein	371					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein serine/threonine kinase activity|transcription coactivator activity			stomach(2)|ovary(1)|lung(1)	4		all_lung(203;0.00531)|Lung NSC(277;0.0194)		all cancers(265;0.0228)|Epithelial(280;0.133)														---	---	---	---
MTF2	22823	broad.mit.edu	37	1	93602291	93602291	+	Missense_Mutation	SNP	C	T	T	rs1046801		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:93602291C>T	uc009wdj.2	+	15	1781	c.1489C>T	c.(1489-1491)CGG>TGG	p.R497W	MTF2_uc010oth.1_Missense_Mutation_p.R395W|MTF2_uc009wdk.2_Missense_Mutation_p.R440W|MTF2_uc001dpi.3_Missense_Mutation_p.R224W|MTF2_uc010oti.1_Missense_Mutation_p.R395W|MTF2_uc001dpj.3_Missense_Mutation_p.R395W|MTF2_uc001dpl.3_Missense_Mutation_p.R395W|MTF2_uc001dpm.3_Missense_Mutation_p.R166W	NM_007358	NP_031384	Q9Y483	MTF2_HUMAN	metal response element binding transcription	497						nucleus	DNA binding|zinc ion binding			ovary(2)	2		all_lung(203;0.00196)|Lung NSC(277;0.00902)|Melanoma(281;0.099)|Ovarian(761;0.109)|all_neural(321;0.185)|Glioma(108;0.203)		all cancers(265;0.00076)|GBM - Glioblastoma multiforme(16;0.00157)|Epithelial(280;0.0886)														---	---	---	---
DNTTIP2	30836	broad.mit.edu	37	1	94342747	94342747	+	Silent	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:94342747T>C	uc001dqf.2	-	2	782	c.744A>G	c.(742-744)CAA>CAG	p.Q248Q	DNTTIP2_uc010otm.1_RNA|DNTTIP2_uc009wdo.1_Silent_p.Q43Q	NM_014597	NP_055412	Q5QJE6	TDIF2_HUMAN	deoxynucleotidyltransferase, terminal,	248					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0		all_lung(203;0.0111)|Lung NSC(277;0.0347)		all cancers(265;0.00679)|GBM - Glioblastoma multiforme(16;0.0278)|Epithelial(280;0.128)														---	---	---	---
CDC14A	8556	broad.mit.edu	37	1	100856294	100856294	+	Missense_Mutation	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:100856294A>G	uc001dtg.3	+	4	711	c.223A>G	c.(223-225)AGT>GGT	p.S75G	CDC14A_uc009web.2_RNA|CDC14A_uc010oui.1_Missense_Mutation_p.S17G|CDC14A_uc001dte.3_Missense_Mutation_p.S75G|CDC14A_uc001dtf.2_Missense_Mutation_p.S75G|CDC14A_uc009wed.1_5'UTR|CDC14A_uc009wee.2_Missense_Mutation_p.S75G|CDC14A_uc009wec.1_Missense_Mutation_p.S75G	NM_003672	NP_003663	Q9UNH5	CC14A_HUMAN	CDC14 homolog A isoform 1	75	A.				cell cycle|cell division|cell proliferation	centrosome|nucleus|spindle	protein binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			large_intestine(1)	1		all_epithelial(167;3.71e-06)|all_lung(203;0.00097)|Lung NSC(277;0.001)		Epithelial(280;0.0676)|all cancers(265;0.127)|COAD - Colon adenocarcinoma(174;0.201)|Lung(183;0.227)|Colorectal(144;0.241)														---	---	---	---
COL11A1	1301	broad.mit.edu	37	1	103379199	103379199	+	Silent	SNP	A	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:103379199A>C	uc001dul.2	-	53	4344	c.4026T>G	c.(4024-4026)GGT>GGG	p.G1342G	COL11A1_uc001duk.2_Silent_p.G538G|COL11A1_uc001dum.2_Silent_p.G1354G|COL11A1_uc001dun.2_Silent_p.G1303G|COL11A1_uc009weh.2_Silent_p.G1226G	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	1342	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)														---	---	---	---
NTNG1	22854	broad.mit.edu	37	1	107937799	107937799	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:107937799C>T	uc001dvh.3	+	4	1629	c.911C>T	c.(910-912)ACT>ATT	p.T304I	NTNG1_uc001dvf.3_Missense_Mutation_p.T304I|NTNG1_uc010out.1_Missense_Mutation_p.T304I|NTNG1_uc001dvc.3_Missense_Mutation_p.T304I|NTNG1_uc001dvi.2_5'UTR|NTNG1_uc001dve.2_RNA|NTNG1_uc009wek.2_RNA|NTNG1_uc001dvg.2_RNA|NTNG1_uc009wem.2_5'UTR|NTNG1_uc001dvd.1_Missense_Mutation_p.T304I	NM_001113226	NP_001106697	Q9Y2I2	NTNG1_HUMAN	netrin G1 isoform 1	304	Laminin EGF-like 1.				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)														---	---	---	---
EPS8L3	79574	broad.mit.edu	37	1	110302334	110302334	+	Missense_Mutation	SNP	T	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:110302334T>G	uc001dyr.1	-	4	366	c.221A>C	c.(220-222)GAC>GCC	p.D74A	EPS8L3_uc001dys.1_Missense_Mutation_p.D74A|EPS8L3_uc001dyq.1_Missense_Mutation_p.D74A|EPS8L3_uc009wfm.1_Missense_Mutation_p.D40A|EPS8L3_uc009wfn.1_Missense_Mutation_p.D40A|EPS8L3_uc009wfo.1_Intron	NM_133181	NP_573444	Q8TE67	ES8L3_HUMAN	epidermal growth factor receptor pathway	74						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)														---	---	---	---
ALX3	257	broad.mit.edu	37	1	110603359	110603359	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:110603359G>A	uc001dzb.2	-	4	1116	c.1028C>T	c.(1027-1029)ACG>ATG	p.T343M		NM_006492	NP_006483	O95076	ALX3_HUMAN	aristaless-like homeobox 3	343						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(81;2.35e-05)|all_epithelial(167;7.69e-06)|all_lung(203;0.000116)|Lung NSC(277;0.000233)		Lung(183;0.015)|all cancers(265;0.0706)|Epithelial(280;0.0758)|Colorectal(144;0.113)|LUSC - Lung squamous cell carcinoma(189;0.135)														---	---	---	---
CEPT1	10390	broad.mit.edu	37	1	111726093	111726093	+	Missense_Mutation	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:111726093A>G	uc001eah.1	+	8	1223	c.1015A>G	c.(1015-1017)ATG>GTG	p.M339V	CEPT1_uc001eai.1_Missense_Mutation_p.M339V|CEPT1_uc001eaj.1_Missense_Mutation_p.M339V|CEPT1_uc009wfz.1_Missense_Mutation_p.M73V	NM_001007794	NP_001007795	Q9Y6K0	CEPT1_HUMAN	choline/ethanolaminephosphotransferase	339						endoplasmic reticulum membrane|integral to membrane|nuclear membrane	diacylglycerol cholinephosphotransferase activity|ethanolaminephosphotransferase activity|metal ion binding				0		all_cancers(81;2.27e-05)|all_epithelial(167;7.36e-06)|all_lung(203;0.00018)|Lung NSC(277;0.000359)		Lung(183;0.0173)|Colorectal(144;0.0375)|all cancers(265;0.0701)|LUSC - Lung squamous cell carcinoma(189;0.0888)|Epithelial(280;0.103)|COAD - Colon adenocarcinoma(174;0.141)	Choline(DB00122)													---	---	---	---
ADAMTSL4	54507	broad.mit.edu	37	1	150531794	150531794	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:150531794G>A	uc001eux.2	+	17	3031	c.2795G>A	c.(2794-2796)CGT>CAT	p.R932H	ADAMTSL4_uc009wlw.2_Missense_Mutation_p.R955H|ADAMTSL4_uc010pcg.1_Missense_Mutation_p.R893H|ADAMTSL4_uc009wlx.2_Missense_Mutation_p.R95H	NM_019032	NP_061905	Q6UY14	ATL4_HUMAN	thrombospondin repeat containing 1 isoform 1	932	TSP type-1 5.				apoptosis|positive regulation of apoptosis		metalloendopeptidase activity|protease binding			ovary(1)|skin(1)	2	all_cancers(9;3.13e-53)|all_epithelial(9;3.74e-43)|all_lung(15;2.43e-34)|Lung NSC(24;8.86e-31)|Breast(34;0.000326)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0241)|Epithelial(6;3.18e-23)|all cancers(9;1.79e-22)|OV - Ovarian serous cystadenocarcinoma(6;1.13e-14)|BRCA - Breast invasive adenocarcinoma(12;0.000503)|LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.206)													OREG0013787	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
TCHH	7062	broad.mit.edu	37	1	152081704	152081704	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:152081704C>T	uc001ezp.2	-	2	3989	c.3989G>A	c.(3988-3990)CGC>CAC	p.R1330H	TCHH_uc009wne.1_Missense_Mutation_p.R1330H	NM_007113	NP_009044	Q07283	TRHY_HUMAN	trichohyalin	1330	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)															---	---	---	---
HRNR	388697	broad.mit.edu	37	1	152186045	152186045	+	Missense_Mutation	SNP	C	G	G	rs143834557		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:152186045C>G	uc001ezt.1	-	3	8136	c.8060G>C	c.(8059-8061)CGC>CCC	p.R2687P		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	2687	29.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)															---	---	---	---
SLC27A3	11000	broad.mit.edu	37	1	153751246	153751246	+	Missense_Mutation	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:153751246A>G	uc001fcz.2	+	7	1737	c.1672A>G	c.(1672-1674)AAG>GAG	p.K558E	SLC27A3_uc009won.2_RNA	NM_024330	NP_077306	Q5K4L6	S27A3_HUMAN	solute carrier family 27 member 3	558					fatty acid metabolic process	integral to membrane|mitochondrial membrane	ligase activity|nucleotide binding			ovary(1)	1	all_lung(78;6.47e-32)|Lung NSC(65;2.52e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)															---	---	---	---
ATP8B2	57198	broad.mit.edu	37	1	154313343	154313343	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:154313343C>T	uc001fex.2	+	13	1147	c.1147C>T	c.(1147-1149)CGT>TGT	p.R383C		NM_020452	NP_065185	P98198	AT8B2_HUMAN	ATPase, class I, type 8B, member 2 isoform a	369	Cytoplasmic (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)															---	---	---	---
C1orf85	112770	broad.mit.edu	37	1	156264188	156264188	+	Missense_Mutation	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:156264188T>C	uc001foh.2	-	3	560	c.547A>G	c.(547-549)AGG>GGG	p.R183G	C1orf85_uc001fof.3_5'Flank|C1orf85_uc001fog.1_Intron|C1orf85_uc001foi.2_Missense_Mutation_p.R183G|C1orf85_uc009wrx.2_Intron|C1orf85_uc001foj.2_Missense_Mutation_p.R97G	NM_144580	NP_653181	Q8WWB7	NCUG1_HUMAN	kidney predominant protein NCU-G1 precursor	183	Lumenal (Potential).				positive regulation of transcription from RNA polymerase II promoter	cytosol|integral to membrane|lysosomal membrane|nucleus	ligand-dependent nuclear receptor activity|protein binding transcription factor activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(2)	2	Hepatocellular(266;0.158)																	---	---	---	---
NTRK1	4914	broad.mit.edu	37	1	156845323	156845323	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:156845323C>T	uc001fqh.1	+	12	1422	c.1366C>T	c.(1366-1368)CTG>TTG	p.L456L	NTRK1_uc001fqf.1_Silent_p.L420L|NTRK1_uc009wsi.1_Silent_p.L155L|NTRK1_uc001fqi.1_Silent_p.L450L|NTRK1_uc009wsk.1_Silent_p.L450L	NM_002529	NP_002520	P04629	NTRK1_HUMAN	neurotrophic tyrosine kinase, receptor, type 1	456	Cytoplasmic (Potential).				activation of adenylate cyclase activity|activation of MAPKK activity|activation of phospholipase C activity|cell differentiation|nerve growth factor receptor signaling pathway|nervous system development|phosphatidylinositol-mediated signaling|Ras protein signal transduction	endosome|integral to plasma membrane	ATP binding|neurotrophin receptor activity|transmembrane receptor protein serine/threonine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(9)|ovary(6)|stomach(1)|central_nervous_system(1)	17	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)				Imatinib(DB00619)			T	TPM3|TPR|TFG	papillary thyroid					TSP Lung(10;0.080)			---	---	---	---
ARHGEF11	9826	broad.mit.edu	37	1	156906671	156906671	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:156906671C>T	uc001fqo.2	-	39	5487	c.4447G>A	c.(4447-4449)GCT>ACT	p.A1483T	ARHGEF11_uc010phu.1_Missense_Mutation_p.A899T|ARHGEF11_uc001fqn.2_Missense_Mutation_p.A1523T|MIR765_hsa-mir-765|MI0005116_5'Flank	NM_014784	NP_055599	O15085	ARHGB_HUMAN	Rho guanine nucleotide exchange factor (GEF) 11	1483					actin cytoskeleton organization|apoptosis|axon guidance|cellular component movement|cytokinesis|establishment of cell polarity|G-protein coupled receptor protein signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of transcription, DNA-dependent|regulation of cell growth|regulation of Rho protein signal transduction|Rho protein signal transduction|striated muscle contraction	cytosol|Golgi apparatus|plasma membrane	G-protein-coupled receptor binding|GTPase activator activity|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			ovary(3)|skin(2)|pleura(1)|lung(1)|kidney(1)|pancreas(1)	9	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)																	---	---	---	---
CD1D	912	broad.mit.edu	37	1	158152853	158152853	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:158152853G>A	uc001frr.2	+	5	1292	c.793G>A	c.(793-795)GCA>ACA	p.A265T	CD1D_uc009wss.2_Intron	NM_001766	NP_001757	P15813	CD1D_HUMAN	CD1D antigen precursor	265	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)																	---	---	---	---
OR10R2	343406	broad.mit.edu	37	1	158449945	158449945	+	Missense_Mutation	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:158449945A>G	uc010pik.1	+	1	278	c.278A>G	c.(277-279)TAC>TGC	p.Y93C	uc001fso.1_RNA	NM_001004472	NP_001004472	Q8NGX6	O10R2_HUMAN	olfactory receptor, family 10, subfamily R,	93	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(2)|skin(1)	3	all_hematologic(112;0.0378)																	---	---	---	---
SPTA1	6708	broad.mit.edu	37	1	158606555	158606555	+	Intron	SNP	A	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:158606555A>C	uc001fst.1	-							NM_003126	NP_003117			spectrin, alpha, erythrocytic 1						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)																	---	---	---	---
PVRL4	81607	broad.mit.edu	37	1	161047443	161047443	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:161047443G>A	uc001fxo.2	-	3	829	c.530C>T	c.(529-531)CCA>CTA	p.P177L	PVRL4_uc010pjz.1_5'Flank	NM_030916	NP_112178	Q96NY8	PVRL4_HUMAN	poliovirus receptor-related 4 precursor	177	Ig-like C2-type 1.|Extracellular (Potential).				adherens junction organization|cell adhesion|cell junction assembly	adherens junction|extracellular region|integral to membrane				ovary(2)	2	all_cancers(52;8.9e-20)|Breast(13;0.00188)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00165)															---	---	---	---
DDR2	4921	broad.mit.edu	37	1	162749971	162749971	+	Missense_Mutation	SNP	G	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:162749971G>T	uc001gcf.2	+	19	2968	c.2503G>T	c.(2503-2505)GAT>TAT	p.D835Y	DDR2_uc001gcg.2_Missense_Mutation_p.D835Y|uc001gch.1_5'Flank	NM_001014796	NP_001014796	Q16832	DDR2_HUMAN	discoidin domain receptor family, member 2	835	Cytoplasmic (Potential).|Protein kinase.				cell adhesion	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(2)|central_nervous_system(2)|ovary(1)|kidney(1)	6	all_hematologic(112;0.115)		BRCA - Breast invasive adenocarcinoma(70;0.113)															---	---	---	---
MAEL	84944	broad.mit.edu	37	1	166990949	166990949	+	Missense_Mutation	SNP	G	A	A	rs141476246	by1000genomes	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:166990949G>A	uc001gdy.1	+	12	1233	c.1162G>A	c.(1162-1164)GTT>ATT	p.V388I	MAEL_uc001gdz.1_Missense_Mutation_p.V357I|MAEL_uc009wvf.1_RNA	NM_032858	NP_116247	Q96JY0	MAEL_HUMAN	maelstrom homolog	388					cell differentiation|DNA methylation involved in gamete generation|gene silencing by RNA|multicellular organismal development|piRNA metabolic process|spermatogenesis	piP-body	DNA binding			skin(1)	1																		---	---	---	---
BAT2L2	23215	broad.mit.edu	37	1	171557571	171557571	+	Missense_Mutation	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:171557571A>G	uc010pmg.1	+	33	8386	c.8120A>G	c.(8119-8121)TAC>TGC	p.Y2707C	BAT2L2_uc010pmh.1_Missense_Mutation_p.Y1619C|BAT2L2_uc010pmi.1_Missense_Mutation_p.Y544C|BAT2L2_uc010pmj.1_Missense_Mutation_p.Y239C	NM_015172	NP_055987	Q9Y520	PRC2C_HUMAN	HBxAg transactivated protein 2	2707							protein C-terminus binding				0																		---	---	---	---
CENPL	91687	broad.mit.edu	37	1	173776423	173776423	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:173776423C>T	uc001gje.3	-	3	616	c.402G>A	c.(400-402)CCG>CCA	p.P134P	CENPL_uc009wwg.2_Silent_p.P8P|CENPL_uc001gjg.3_Silent_p.P134P|CENPL_uc001gjf.3_Silent_p.P134P	NM_033319	NP_201576	Q8N0S6	CENPL_HUMAN	centromere protein L isoform 2	134					mitotic prometaphase	chromosome, centromeric region|cytosol|nucleus					0																		---	---	---	---
TNN	63923	broad.mit.edu	37	1	175067522	175067522	+	Missense_Mutation	SNP	C	T	T	rs144603425	byFrequency	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:175067522C>T	uc001gkl.1	+	9	2023	c.1910C>T	c.(1909-1911)ACG>ATG	p.T637M	TNN_uc010pmx.1_Missense_Mutation_p.T548M	NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	637	Fibronectin type-III 5.				cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)														---	---	---	---
RASAL2	9462	broad.mit.edu	37	1	178421736	178421736	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:178421736G>A	uc001glr.2	+	9	1639	c.1514G>A	c.(1513-1515)CGG>CAG	p.R505Q	RASAL2_uc001glq.2_Missense_Mutation_p.R653Q|RASAL2_uc009wxc.2_Missense_Mutation_p.R19Q	NM_004841	NP_004832	Q9UJF2	NGAP_HUMAN	RAS protein activator like 2 isoform 1	505	Ras-GAP.				negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity			ovary(2)|breast(2)|large_intestine(1)	5																		---	---	---	---
SOAT1	6646	broad.mit.edu	37	1	179310198	179310198	+	Missense_Mutation	SNP	T	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:179310198T>A	uc001gml.2	+	7	596	c.533T>A	c.(532-534)TTT>TAT	p.F178Y	SOAT1_uc010pni.1_Missense_Mutation_p.F113Y|SOAT1_uc001gmm.2_Missense_Mutation_p.F120Y|SOAT1_uc010pnj.1_Translation_Start_Site|SOAT1_uc010pnk.1_Missense_Mutation_p.F113Y	NM_003101	NP_003092	P35610	SOAT1_HUMAN	sterol O-acyltransferase 1	178					cholesterol efflux|cholesterol esterification|cholesterol homeostasis|cholesterol metabolic process|cholesterol storage|macrophage derived foam cell differentiation|positive regulation of amyloid precursor protein biosynthetic process|very-low-density lipoprotein particle assembly	endoplasmic reticulum membrane|integral to membrane|microsome	cholesterol binding|cholesterol O-acyltransferase activity|fatty-acyl-CoA binding			central_nervous_system(1)|skin(1)	2					Ezetimibe(DB00973)|Hesperetin(DB01094)													---	---	---	---
ZNF648	127665	broad.mit.edu	37	1	182026670	182026670	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:182026670G>A	uc001goz.2	-	2	684	c.476C>T	c.(475-477)GCA>GTA	p.A159V		NM_001009992	NP_001009992	Q5T619	ZN648_HUMAN	zinc finger protein 648	159					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1																		---	---	---	---
CFHR2	3080	broad.mit.edu	37	1	196927034	196927034	+	Missense_Mutation	SNP	A	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:196927034A>C	uc001gtq.1	+	4	521	c.444A>C	c.(442-444)AAA>AAC	p.K148N	CFHR2_uc001gtr.1_Missense_Mutation_p.K24N	NM_005666	NP_005657	P36980	FHR2_HUMAN	H factor (complement)-like 3 precursor	148	Sushi 3.					extracellular region				skin(2)|ovary(1)	3																		---	---	---	---
LAD1	3898	broad.mit.edu	37	1	201358401	201358401	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:201358401C>T	uc001gwm.2	-	2	304	c.69G>A	c.(67-69)GAG>GAA	p.E23E	LAD1_uc009wzu.1_Silent_p.E45E	NM_005558	NP_005549	O00515	LAD1_HUMAN	ladinin 1	23						basement membrane	structural molecule activity				0																		---	---	---	---
IPO9	55705	broad.mit.edu	37	1	201842072	201842072	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:201842072G>A	uc001gwz.2	+	20	2743	c.2693G>A	c.(2692-2694)CGC>CAC	p.R898H		NM_018085	NP_060555	Q96P70	IPO9_HUMAN	importin 9	898					protein import into nucleus	cytoplasm|nucleus	histone binding|protein transporter activity			ovary(2)	2																		---	---	---	---
ADIPOR1	51094	broad.mit.edu	37	1	202910745	202910745	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:202910745G>A	uc001gyq.3	-	8	1351	c.1084C>T	c.(1084-1086)CGT>TGT	p.R362C	ADIPOR1_uc010pqd.1_Missense_Mutation_p.R286C|ADIPOR1_uc001gyr.3_Missense_Mutation_p.R161C|ADIPOR1_uc001gys.3_Missense_Mutation_p.R362C	NM_015999	NP_057083	Q96A54	ADR1_HUMAN	adiponectin receptor 1	362	Extracellular (Potential).				fatty acid oxidation|hormone-mediated signaling pathway	integral to membrane|plasma membrane	hormone binding|protein kinase binding|receptor activity				0			BRCA - Breast invasive adenocarcinoma(75;0.141)															---	---	---	---
TMCC2	9911	broad.mit.edu	37	1	205238475	205238475	+	Missense_Mutation	SNP	A	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:205238475A>C	uc001hbz.1	+	4	1589	c.1145A>C	c.(1144-1146)CAG>CCG	p.Q382P	TMCC2_uc010prf.1_Missense_Mutation_p.Q304P|TMCC2_uc001hca.2_Missense_Mutation_p.Q157P|TMCC2_uc001hcb.1_Missense_Mutation_p.Q142P|TMCC2_uc001hcc.1_Missense_Mutation_p.Q3P|TMCC2_uc001hcd.2_Missense_Mutation_p.Q149P	NM_014858	NP_055673	O75069	TMCC2_HUMAN	transmembrane and coiled-coil domain family 2	382						integral to membrane	protein binding			pancreas(1)	1	Breast(84;0.0871)		BRCA - Breast invasive adenocarcinoma(75;0.117)															---	---	---	---
IKBKE	9641	broad.mit.edu	37	1	206667321	206667321	+	Missense_Mutation	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:206667321A>G	uc001hdz.1	+	21	2482	c.2114A>G	c.(2113-2115)GAA>GGA	p.E705G	IKBKE_uc009xbv.1_3'UTR|IKBKE_uc001hea.1_Missense_Mutation_p.E620G	NM_014002	NP_054721	Q14164	IKKE_HUMAN	IKK-related kinase epsilon	705					DNA damage response, signal transduction resulting in induction of apoptosis|innate immune response|MyD88-independent toll-like receptor signaling pathway|negative regulation of type I interferon production|positive regulation of I-kappaB kinase/NF-kappaB cascade|Toll signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane|PML body	ATP binding|IkappaB kinase activity|NF-kappaB-inducing kinase activity|protein binding			ovary(3)|lung(3)|central_nervous_system(1)|skin(1)	8	Breast(84;0.137)																	---	---	---	---
LAMB3	3914	broad.mit.edu	37	1	209799111	209799111	+	Missense_Mutation	SNP	G	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:209799111G>T	uc001hhg.2	-	13	2248	c.1858C>A	c.(1858-1860)CTG>ATG	p.L620M	LAMB3_uc009xco.2_Missense_Mutation_p.L620M|LAMB3_uc001hhh.2_Missense_Mutation_p.L620M|LAMB3_uc010psl.1_Intron|hsa-mir-4260|MI0015859_5'Flank	NM_001017402	NP_001017402	Q13751	LAMB3_HUMAN	laminin, beta 3 precursor	620	Domain II.				cell adhesion|epidermis development|hemidesmosome assembly		structural molecule activity			central_nervous_system(2)|skin(2)|large_intestine(1)|ovary(1)	6				OV - Ovarian serous cystadenocarcinoma(81;0.0519)														---	---	---	---
LAMB3	3914	broad.mit.edu	37	1	209800867	209800867	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:209800867C>T	uc001hhg.2	-	11	1736	c.1346G>A	c.(1345-1347)GGG>GAG	p.G449E	LAMB3_uc009xco.2_Missense_Mutation_p.G449E|LAMB3_uc001hhh.2_Missense_Mutation_p.G449E|LAMB3_uc010psl.1_RNA	NM_001017402	NP_001017402	Q13751	LAMB3_HUMAN	laminin, beta 3 precursor	449	Laminin EGF-like 4.				cell adhesion|epidermis development|hemidesmosome assembly		structural molecule activity			central_nervous_system(2)|skin(2)|large_intestine(1)|ovary(1)	6				OV - Ovarian serous cystadenocarcinoma(81;0.0519)												OREG0014217	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
CENPF	1063	broad.mit.edu	37	1	214830442	214830442	+	Missense_Mutation	SNP	A	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:214830442A>T	uc001hkm.2	+	18	8826	c.8652A>T	c.(8650-8652)CAA>CAT	p.Q2884H		NM_016343	NP_057427	P49454	CENPF_HUMAN	centromere protein F	2980	Potential.|Sufficient for nuclear localization.|Sufficient for centromere localization.				cell differentiation|cell division|cell proliferation|DNA replication|G2 phase of mitotic cell cycle|kinetochore assembly|metaphase plate congression|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|muscle organ development|negative regulation of transcription, DNA-dependent|protein transport|regulation of G2/M transition of mitotic cell cycle|regulation of striated muscle tissue development|response to drug	condensed chromosome outer kinetochore|cytosol|midbody|nuclear envelope|nuclear matrix|perinuclear region of cytoplasm|spindle pole	chromatin binding|dynein binding|protein C-terminus binding|protein homodimerization activity|transcription factor binding			ovary(6)|central_nervous_system(4)|large_intestine(2)|skin(1)	13				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)														---	---	---	---
USH2A	7399	broad.mit.edu	37	1	216243645	216243645	+	Intron	SNP	A	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:216243645A>C	uc001hku.1	-							NM_206933	NP_996816			usherin isoform B						maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)											HNSCC(13;0.011)			---	---	---	---
CAPN2	824	broad.mit.edu	37	1	223954100	223954100	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:223954100C>T	uc001hob.3	+	16	1946	c.1722C>T	c.(1720-1722)ATC>ATT	p.I574I	CAPN2_uc010puy.1_Silent_p.I496I|CAPN2_uc001hoc.2_Silent_p.I155I	NM_001748	NP_001739	P17655	CAN2_HUMAN	calpain 2 isoform 1	574	Domain IV.|EF-hand 1.				proteolysis	cytoplasm|plasma membrane				lung(3)|breast(1)|skin(1)	5				GBM - Glioblastoma multiforme(131;0.109)														---	---	---	---
WNT9A	7483	broad.mit.edu	37	1	228109556	228109556	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:228109556C>T	uc001hri.2	-	4	849	c.761G>A	c.(760-762)GGC>GAC	p.G254D		NM_003395	NP_003386	O14904	WNT9A_HUMAN	wingless-type MMTV integration site family,	254					anterior/posterior pattern formation|axis specification|canonical Wnt receptor signaling pathway|cell-cell signaling|cellular response to retinoic acid|cornea development in camera-type eye|embryonic arm morphogenesis|embryonic skeletal joint morphogenesis|endoderm development|iris morphogenesis|mitotic cell cycle G1/S transition checkpoint|negative regulation of cell proliferation|negative regulation of chondrocyte differentiation|neuron differentiation|positive regulation of smoothened signaling pathway|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|G-protein-coupled receptor binding|signal transducer activity			central_nervous_system(1)|pancreas(1)	2		Prostate(94;0.0405)																---	---	---	---
WNT3A	89780	broad.mit.edu	37	1	228246675	228246675	+	Intron	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:228246675C>T	uc001hrq.1	+						WNT3A_uc001hrp.1_Intron	NM_033131	NP_149122			wingless-type MMTV integration site family,						axis specification|cell proliferation in forebrain|cell-cell signaling|cellular response to retinoic acid|convergent extension|dermatome development|dorsal/ventral neural tube patterning|embryonic pattern specification|extracellular matrix organization|hemopoietic stem cell proliferation|hippocampus development|inner ear morphogenesis|mammary gland development|midbrain-hindbrain boundary development|negative regulation of fat cell differentiation|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of neuron projection development|notochord development|palate development|paraxial mesodermal cell fate commitment|positive regulation of catenin import into nucleus|positive regulation of peptidyl-serine phosphorylation|positive regulation of protein binding|positive regulation of receptor internalization|positive regulation of transcription from RNA polymerase II promoter|signalosome assembly|tail morphogenesis|Wnt receptor signaling pathway involved in forebrain neuroblast division|Wnt receptor signaling pathway, calcium modulating pathway	cell surface|early endosome|extracellular space|late endosome|membrane raft|plasma membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|frizzled-2 binding|receptor agonist activity|signal transducer activity|transcription coactivator activity			ovary(1)	1		Prostate(94;0.0405)																---	---	---	---
HEATR1	55127	broad.mit.edu	37	1	236749680	236749680	+	Silent	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:236749680T>C	uc001hyd.1	-	15	1913	c.1788A>G	c.(1786-1788)TCA>TCG	p.S596S		NM_018072	NP_060542	Q9H583	HEAT1_HUMAN	protein BAP28	596					rRNA processing	nucleolus|ribonucleoprotein complex	protein binding			ovary(2)|skin(1)	3	Ovarian(103;0.0634)|Breast(184;0.133)	all_cancers(173;0.0255)|Prostate(94;0.175)	OV - Ovarian serous cystadenocarcinoma(106;0.00117)															---	---	---	---
WDR64	128025	broad.mit.edu	37	1	241904846	241904846	+	Silent	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:241904846G>A	uc001hze.1	+	11	1527	c.1320G>A	c.(1318-1320)TTG>TTA	p.L440L	WDR64_uc001hzf.1_Silent_p.L160L			B1ANS9	WDR64_HUMAN	RecName: Full=WD repeat-containing protein 64;	440	WD 5.									skin(1)	1	Ovarian(103;0.103)	all_cancers(173;0.0121)	OV - Ovarian serous cystadenocarcinoma(106;0.0116)															---	---	---	---
AKT3	10000	broad.mit.edu	37	1	243777027	243777027	+	Silent	SNP	G	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:243777027G>T	uc001iab.1	-	7	723	c.642C>A	c.(640-642)TCC>TCA	p.S214S	AKT3_uc001hzz.1_Silent_p.S214S	NM_005465	NP_005456	Q9Y243	AKT3_HUMAN	AKT3 kinase isoform 1	214	Protein kinase.				signal transduction	Golgi apparatus|nucleus|plasma membrane	ATP binding|protein binding|protein serine/threonine kinase activity			stomach(1)|lung(1)|breast(1)|central_nervous_system(1)	4	all_cancers(71;0.000307)|all_epithelial(71;0.000374)|all_lung(81;0.0323)|Ovarian(71;0.0619)|all_neural(11;0.101)|Lung NSC(105;0.168)	all_cancers(173;0.0274)	all cancers(7;4.3e-08)|GBM - Glioblastoma multiforme(7;5.12e-06)|OV - Ovarian serous cystadenocarcinoma(106;0.00196)															---	---	---	---
OR2G3	81469	broad.mit.edu	37	1	247769130	247769130	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:247769130C>T	uc010pyz.1	+	1	243	c.243C>T	c.(241-243)ACC>ACT	p.T81T		NM_001001914	NP_001001914	Q8NGZ4	OR2G3_HUMAN	olfactory receptor, family 2, subfamily G,	81	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)															---	---	---	---
OR2G3	81469	broad.mit.edu	37	1	247769135	247769135	+	Missense_Mutation	SNP	T	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:247769135T>G	uc010pyz.1	+	1	248	c.248T>G	c.(247-249)GTT>GGT	p.V83G		NM_001001914	NP_001001914	Q8NGZ4	OR2G3_HUMAN	olfactory receptor, family 2, subfamily G,	83	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)															---	---	---	---
OR2T6	254879	broad.mit.edu	37	1	248550954	248550954	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:248550954G>A	uc001iei.1	+	1	45	c.45G>A	c.(43-45)ATG>ATA	p.M15I		NM_001005471	NP_001005471	Q8NHC8	OR2T6_HUMAN	olfactory receptor, family 2, subfamily T,	15	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)															---	---	---	---
RRM2	6241	broad.mit.edu	37	2	10264835	10264835	+	Intron	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:10264835T>C	uc002rah.2	+							NM_001034	NP_001025			ribonucleotide reductase M2 polypeptide isoform						deoxyribonucleoside diphosphate metabolic process|deoxyribonucleotide biosynthetic process|DNA replication|nucleobase, nucleoside and nucleotide interconversion|regulation of transcription involved in G1/S phase of mitotic cell cycle	cytosol	ribonucleoside-diphosphate reductase activity|transition metal ion binding				0	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.188)|OV - Ovarian serous cystadenocarcinoma(76;0.221)														---	---	---	---
RAD51AP2	729475	broad.mit.edu	37	2	17697946	17697946	+	Silent	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:17697946T>C	uc002rcl.1	-	1	1761	c.1737A>G	c.(1735-1737)CTA>CTG	p.L579L	RAD51AP2_uc010exn.1_Silent_p.L570L	NM_001099218	NP_001092688	Q09MP3	R51A2_HUMAN	RAD51 associated protein 2	579										ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)																	---	---	---	---
FKBP1B	2281	broad.mit.edu	37	2	24285969	24285969	+	Silent	SNP	C	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:24285969C>A	uc002rer.2	+	4	370	c.234C>A	c.(232-234)ACC>ACA	p.T78T	FKBP1B_uc002res.2_3'UTR|FKBP1B_uc002ret.2_RNA|FKBP1B_uc002reu.2_RNA	NM_004116	NP_004107	P68106	FKB1B_HUMAN	FK506 binding protein 1B, 12.6 kDa isoform a	78	PPIase FKBP-type.				'de novo' protein folding|negative regulation of heart rate|negative regulation of protein phosphatase type 2B activity|protein maturation by protein folding|protein refolding|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|regulation of ryanodine-sensitive calcium-release channel activity|response to redox state	calcium channel complex|sarcoplasmic reticulum membrane	FK506 binding|peptidyl-prolyl cis-trans isomerase activity|receptor binding				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)																	---	---	---	---
SLC5A6	8884	broad.mit.edu	37	2	27430423	27430423	+	Silent	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:27430423G>A	uc002rjd.2	-	3	487	c.96C>T	c.(94-96)TTC>TTT	p.F32F	SLC5A6_uc010eyv.1_Silent_p.F32F|SLC5A6_uc002rje.1_Silent_p.F32F	NM_021095	NP_066918	Q9Y289	SC5A6_HUMAN	solute carrier family 5 (sodium-dependent	32	Helical; (Potential).				biotin metabolic process|pantothenate metabolic process	integral to plasma membrane|membrane fraction	sodium-dependent multivitamin transmembrane transporter activity			ovary(2)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Biotin(DB00121)|Lipoic Acid(DB00166)													---	---	---	---
SNX17	9784	broad.mit.edu	37	2	27598769	27598769	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:27598769C>T	uc002rkg.1	+	11	1257	c.1035C>T	c.(1033-1035)CGC>CGT	p.R345R	SNX17_uc010ylj.1_Silent_p.R325R|SNX17_uc010ylk.1_Silent_p.R131R|SNX17_uc010eza.1_Silent_p.R131R|SNX17_uc002rki.1_RNA|SNX17_uc002rkh.1_Silent_p.R131R|SNX17_uc010yll.1_Silent_p.R131R|SNX17_uc010ylm.1_Silent_p.R131R|SNX17_uc010yln.1_Silent_p.R333R|SNX17_uc010ylo.1_Silent_p.R263R|SNX17_uc010ylp.1_Silent_p.R320R|SNX17_uc010ylq.1_Silent_p.R131R	NM_014748	NP_055563	Q15036	SNX17_HUMAN	sorting nexin 17	345					cell communication|endosome transport|intracellular protein transport|regulation of endocytosis|signal transduction	cytoplasmic vesicle membrane|cytosol|early endosome|Golgi apparatus	low-density lipoprotein particle receptor binding|phosphatidylinositol binding|protein C-terminus binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)																	---	---	---	---
C2orf16	84226	broad.mit.edu	37	2	27803556	27803556	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:27803556C>T	uc002rkz.3	+	1	4168	c.4117C>T	c.(4117-4119)CGG>TGG	p.R1373W	ZNF512_uc010ylv.1_5'Flank|ZNF512_uc010ylw.1_5'Flank|ZNF512_uc002rlb.2_5'Flank|ZNF512_uc010ylx.1_5'Flank|ZNF512_uc002rlc.2_5'Flank|ZNF512_uc002rla.2_5'Flank|ZNF512_uc010yly.1_5'Flank|ZNF512_uc010ylz.1_5'Flank	NM_032266	NP_115642	Q68DN1	CB016_HUMAN	hypothetical protein LOC84226	1373										large_intestine(1)	1	Acute lymphoblastic leukemia(172;0.155)																	---	---	---	---
ATL2	64225	broad.mit.edu	37	2	38570579	38570579	+	Missense_Mutation	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:38570579A>G	uc002rqq.2	-	2	224	c.194T>C	c.(193-195)CTT>CCT	p.L65P	ATL2_uc010ynm.1_Missense_Mutation_p.L47P|ATL2_uc010ynn.1_Missense_Mutation_p.L47P|ATL2_uc010yno.1_Intron|ATL2_uc002rqs.2_Missense_Mutation_p.L65P|ATL2_uc002rqr.2_Intron	NM_001135673	NP_001129145	Q8NHH9	ATLA2_HUMAN	atlastin GTPase 2 isoform 2	65	Cytoplasmic.				endoplasmic reticulum organization|Golgi organization|protein homooligomerization	endoplasmic reticulum membrane|integral to membrane	GTP binding|GTPase activity|identical protein binding			ovary(1)|kidney(1)|skin(1)	3																		---	---	---	---
DHX57	90957	broad.mit.edu	37	2	39095410	39095410	+	Silent	SNP	T	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:39095410T>A	uc002rrf.2	-	2	237	c.138A>T	c.(136-138)GGA>GGT	p.G46G	DHX57_uc002rre.2_5'Flank|DHX57_uc002rrg.2_Silent_p.G46G	NM_198963	NP_945314	Q6P158	DHX57_HUMAN	DEAH (Asp-Glu-Ala-Asp/His) box polypeptide 57	46	Gly-rich.						ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding|zinc ion binding			ovary(1)|lung(1)|skin(1)	3		all_hematologic(82;0.248)																---	---	---	---
PRKCE	5581	broad.mit.edu	37	2	46203609	46203609	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:46203609C>T	uc002rut.2	+	3	651	c.454C>T	c.(454-456)CGG>TGG	p.R152W		NM_005400	NP_005391	Q02156	KPCE_HUMAN	protein kinase C, epsilon	152					activation of phospholipase C activity|induction of apoptosis|intracellular signal transduction|nerve growth factor receptor signaling pathway|platelet activation	cytosol|endoplasmic reticulum|plasma membrane	ATP binding|enzyme activator activity|metal ion binding|signal transducer activity			lung(4)|ovary(3)|kidney(1)|breast(1)|large_intestine(1)	10		all_hematologic(82;0.155)|Acute lymphoblastic leukemia(82;0.209)	LUSC - Lung squamous cell carcinoma(58;0.171)															---	---	---	---
SPTBN1	6711	broad.mit.edu	37	2	54873365	54873365	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:54873365G>A	uc002rxu.2	+	23	4868	c.4619G>A	c.(4618-4620)CGC>CAC	p.R1540H	SPTBN1_uc002rxx.2_Missense_Mutation_p.R1527H	NM_003128	NP_003119	Q01082	SPTB2_HUMAN	spectrin, beta, non-erythrocytic 1 isoform 1	1540	Spectrin 12.				actin filament capping|axon guidance	cytosol|nucleolus|plasma membrane|sarcomere|spectrin	actin binding|calmodulin binding|protein binding|structural constituent of cytoskeleton			ovary(3)|breast(2)|central_nervous_system(2)|skin(1)	8			Lung(47;0.24)															---	---	---	---
SPTBN1	6711	broad.mit.edu	37	2	54880747	54880747	+	Missense_Mutation	SNP	T	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:54880747T>G	uc002rxu.2	+	27	5828	c.5579T>G	c.(5578-5580)GTG>GGG	p.V1860G	SPTBN1_uc002rxx.2_Missense_Mutation_p.V1847G|SPTBN1_uc002rxy.2_Missense_Mutation_p.V5G	NM_003128	NP_003119	Q01082	SPTB2_HUMAN	spectrin, beta, non-erythrocytic 1 isoform 1	1860	Interaction with ANK2.|Spectrin 15.				actin filament capping|axon guidance	cytosol|nucleolus|plasma membrane|sarcomere|spectrin	actin binding|calmodulin binding|protein binding|structural constituent of cytoskeleton			ovary(3)|breast(2)|central_nervous_system(2)|skin(1)	8			Lung(47;0.24)															---	---	---	---
SLC1A4	6509	broad.mit.edu	37	2	65243635	65243635	+	Missense_Mutation	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:65243635A>G	uc010yqa.1	+	5	1184	c.862A>G	c.(862-864)ATC>GTC	p.I288V	SLC1A4_uc010ypy.1_Missense_Mutation_p.I68V|SLC1A4_uc010ypz.1_Intron|SLC1A4_uc010fcv.2_Missense_Mutation_p.I288V|SLC1A4_uc002sdh.2_Missense_Mutation_p.I68V	NM_003038	NP_003029	P43007	SATT_HUMAN	solute carrier family 1, member 4 isoform 1	288					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)													---	---	---	---
SPRED2	200734	broad.mit.edu	37	2	65540704	65540704	+	Silent	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:65540704G>A	uc002sdr.3	-	6	1723	c.1188C>T	c.(1186-1188)CCC>CCT	p.P396P	SPRED2_uc010fcw.2_Silent_p.P393P	NM_181784	NP_861449	Q7Z698	SPRE2_HUMAN	sprouty-related protein with EVH-1 domain 2	396	SPR.				inactivation of MAPK activity|multicellular organismal development	transport vesicle membrane	stem cell factor receptor binding			ovary(1)|lung(1)|central_nervous_system(1)	3																		---	---	---	---
DYSF	8291	broad.mit.edu	37	2	71825835	71825835	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:71825835C>T	uc002sie.2	+	33	4038	c.3662C>T	c.(3661-3663)CCG>CTG	p.P1221L	DYSF_uc010feg.2_Missense_Mutation_p.P1252L|DYSF_uc010feh.2_Missense_Mutation_p.P1207L|DYSF_uc002sig.3_Missense_Mutation_p.P1207L|DYSF_uc010yqx.1_RNA|DYSF_uc010fee.2_Missense_Mutation_p.P1221L|DYSF_uc010fef.2_Missense_Mutation_p.P1238L|DYSF_uc010fei.2_Missense_Mutation_p.P1238L|DYSF_uc010fek.2_Missense_Mutation_p.P1239L|DYSF_uc010fej.2_Missense_Mutation_p.P1208L|DYSF_uc010fel.2_Missense_Mutation_p.P1208L|DYSF_uc010feo.2_Missense_Mutation_p.P1253L|DYSF_uc010fem.2_Missense_Mutation_p.P1222L|DYSF_uc010fen.2_Missense_Mutation_p.P1239L|DYSF_uc002sif.2_Missense_Mutation_p.P1222L|DYSF_uc010yqy.1_Missense_Mutation_p.P102L	NM_003494	NP_003485	O75923	DYSF_HUMAN	dysferlin isoform 8	1221	Cytoplasmic (Potential).|C2 4.					cytoplasmic vesicle membrane|integral to membrane|sarcolemma	calcium-dependent phospholipid binding			ovary(3)|breast(2)|pancreas(1)|skin(1)	7																		---	---	---	---
EXOC6B	23233	broad.mit.edu	37	2	72562106	72562106	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:72562106C>T	uc010fep.2	-	20	2304	c.2166G>A	c.(2164-2166)ACG>ACA	p.T722T		NM_015189	NP_056004	Q9Y2D4	EXC6B_HUMAN	SEC15-like 2	722					protein transport|vesicle docking involved in exocytosis	exocyst				central_nervous_system(2)	2																		---	---	---	---
SLC4A5	57835	broad.mit.edu	37	2	74513013	74513013	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:74513013C>T	uc002sko.1	-	3	290	c.288G>A	c.(286-288)GAG>GAA	p.E96E	SLC4A5_uc002skl.2_RNA|SLC4A5_uc002skn.2_Silent_p.E96E|SLC4A5_uc010ffc.1_Silent_p.E96E|SLC4A5_uc002skp.1_Silent_p.E32E|SLC4A5_uc002sks.1_Silent_p.E96E	NM_021196	NP_067019	Q9BY07	S4A5_HUMAN	sodium bicarbonate transporter 4 isoform a	96	Cytoplasmic (Potential).					apical plasma membrane|integral to membrane	inorganic anion exchanger activity|sodium:bicarbonate symporter activity			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	9																		---	---	---	---
CTNNA2	1496	broad.mit.edu	37	2	80646695	80646695	+	Missense_Mutation	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:80646695T>C	uc010ysh.1	+	8	1264	c.1259T>C	c.(1258-1260)GTT>GCT	p.V420A	CTNNA2_uc010yse.1_Missense_Mutation_p.V420A|CTNNA2_uc010ysf.1_Missense_Mutation_p.V420A|CTNNA2_uc010ysg.1_Missense_Mutation_p.V420A|CTNNA2_uc010ysi.1_Missense_Mutation_p.V52A	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	420					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9																		---	---	---	---
CTNNA2	1496	broad.mit.edu	37	2	80835350	80835350	+	Silent	SNP	T	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:80835350T>G	uc010ysh.1	+	16	2342	c.2337T>G	c.(2335-2337)CTT>CTG	p.L779L	CTNNA2_uc010yse.1_Silent_p.L779L|CTNNA2_uc010ysf.1_Silent_p.L779L|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysi.1_Silent_p.L411L|CTNNA2_uc010ysj.1_Silent_p.L108L	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	779					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9																		---	---	---	---
ELMOD3	84173	broad.mit.edu	37	2	85617547	85617547	+	Intron	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:85617547T>C	uc002spf.3	+						ELMOD3_uc002spg.3_Intron|ELMOD3_uc002sph.3_Intron|ELMOD3_uc010ysn.1_Missense_Mutation_p.S368P|ELMOD3_uc010yso.1_Intron|ELMOD3_uc010ysp.1_Intron	NM_001135021	NP_001128493			ELMO/CED-12 domain containing 3 isoform b						phagocytosis	cytoskeleton				ovary(2)	2																		---	---	---	---
KRCC1	51315	broad.mit.edu	37	2	88327464	88327464	+	Missense_Mutation	SNP	C	T	T	rs116606730	byFrequency	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:88327464C>T	uc002sso.1	-	4	1013	c.619G>A	c.(619-621)GTA>ATA	p.V207I	KRCC1_uc002ssp.1_Missense_Mutation_p.V207I	NM_016618	NP_057702	Q9NPI7	KRCC1_HUMAN	lysine-rich coiled-coil 1	207	Lys-rich.|Potential.									ovary(1)	1																		---	---	---	---
SEMA4C	54910	broad.mit.edu	37	2	97526833	97526833	+	Missense_Mutation	SNP	C	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:97526833C>G	uc002sxh.3	-	15	2192	c.2032G>C	c.(2032-2034)GTG>CTG	p.V678L	SEMA4C_uc002sxf.3_Missense_Mutation_p.V178L|SEMA4C_uc002sxe.2_Missense_Mutation_p.V219L|SEMA4C_uc002sxg.3_Missense_Mutation_p.V731L	NM_017789	NP_060259	Q9C0C4	SEM4C_HUMAN	semaphorin 4C precursor	678	Helical; (Potential).				muscle cell differentiation|nervous system development|positive regulation of stress-activated MAPK cascade	cell junction|integral to membrane|postsynaptic density|postsynaptic membrane|synaptic vesicle membrane	receptor activity			skin(2)	2																		---	---	---	---
ZAP70	7535	broad.mit.edu	37	2	98351851	98351851	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:98351851C>T	uc002syd.1	+	10	1428	c.1221C>T	c.(1219-1221)GCC>GCT	p.A407A	ZAP70_uc010yvf.1_3'UTR|ZAP70_uc002sye.1_Silent_p.A297A|ZAP70_uc002syf.1_Silent_p.A100A	NM_001079	NP_001070	P43403	ZAP70_HUMAN	zeta-chain associated protein kinase 70kDa	407	Protein kinase.				immune response|intracellular protein kinase cascade|positive thymic T cell selection|T cell receptor signaling pathway	cytosol|T cell receptor complex	ATP binding|non-membrane spanning protein tyrosine kinase activity			lung(4)|upper_aerodigestive_tract(1)|ovary(1)	6																		---	---	---	---
TMEM131	23505	broad.mit.edu	37	2	98392382	98392382	+	Missense_Mutation	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:98392382T>C	uc002syh.3	-	32	4473	c.4244A>G	c.(4243-4245)GAC>GGC	p.D1415G		NM_015348	NP_056163	Q92545	TM131_HUMAN	RW1 protein	1415	Lys-rich.					integral to membrane				ovary(4)|central_nervous_system(2)	6																		---	---	---	---
LYG2	254773	broad.mit.edu	37	2	99858956	99858956	+	Intron	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:99858956A>G	uc002szw.1	-						MRPL30_uc002szl.1_Intron|LYG2_uc010fip.1_Intron	NM_175735	NP_783862			lysozyme G-like 2 precursor						cell wall macromolecule catabolic process|peptidoglycan catabolic process	extracellular region	lysozyme activity			ovary(1)	1																		---	---	---	---
REV1	51455	broad.mit.edu	37	2	100022484	100022484	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:100022484G>A	uc002tad.2	-	17	2911	c.2699C>T	c.(2698-2700)ACC>ATC	p.T900I	REV1_uc002tac.2_Missense_Mutation_p.T899I	NM_016316	NP_057400	Q9UBZ9	REV1_HUMAN	REV1-like isoform 1	900					DNA replication|error-prone translesion synthesis|response to UV	nucleoplasm	damaged DNA binding|DNA-directed DNA polymerase activity|magnesium ion binding|protein binding			ovary(2)	2													DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					---	---	---	---
TGFBRAP1	9392	broad.mit.edu	37	2	105883890	105883890	+	Missense_Mutation	SNP	C	T	T	rs139792932	byFrequency	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:105883890C>T	uc002tcq.2	-	12	2617	c.2533G>A	c.(2533-2535)GCC>ACC	p.A845T	TGFBRAP1_uc010fjc.2_Missense_Mutation_p.A614T|TGFBRAP1_uc002tcr.3_Missense_Mutation_p.A845T|uc002tcp.2_5'Flank	NM_004257	NP_004248	Q8WUH2	TGFA1_HUMAN	transforming growth factor, beta receptor	845					regulation of transcription, DNA-dependent|transforming growth factor beta receptor signaling pathway	cytoplasm|membrane	SMAD binding|small GTPase regulator activity|transforming growth factor beta receptor binding			central_nervous_system(1)|skin(1)	2																		---	---	---	---
CCDC138	165055	broad.mit.edu	37	2	109411120	109411120	+	Silent	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:109411120T>C	uc002ten.1	+	5	579	c.519T>C	c.(517-519)CTT>CTC	p.L173L	CCDC138_uc002teo.1_Silent_p.L173L|CCDC138_uc002tep.1_5'UTR|CCDC138_uc010fjm.1_5'UTR	NM_144978	NP_659415	Q96M89	CC138_HUMAN	coiled-coil domain containing 138	173											0																		---	---	---	---
EDAR	10913	broad.mit.edu	37	2	109527396	109527396	+	Intron	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:109527396C>T	uc002teq.3	-						EDAR_uc010fjn.2_Missense_Mutation_p.G221D|EDAR_uc010yws.1_Missense_Mutation_p.G221D	NM_022336	NP_071731			ectodysplasin A receptor precursor						apoptosis|cell differentiation	integral to membrane	protein binding|transmembrane receptor activity			skin(1)	1																		---	---	---	---
BUB1	699	broad.mit.edu	37	2	111408256	111408256	+	Missense_Mutation	SNP	C	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:111408256C>A	uc002tgc.2	-	18	2182	c.2070G>T	c.(2068-2070)GAG>GAT	p.E690D	BUB1_uc010yxh.1_Missense_Mutation_p.E670D|BUB1_uc010fkb.2_Missense_Mutation_p.E690D	NM_004336	NP_004327	O43683	BUB1_HUMAN	budding uninhibited by benzimidazoles 1	690					apoptosis|cell division|chromosome segregation|interspecies interaction between organisms|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|regulation of sister chromatid cohesion	condensed chromosome kinetochore|cytosol	ATP binding|protein binding|protein serine/threonine kinase activity			lung(2)|breast(2)|stomach(1)|ovary(1)|kidney(1)	7		Ovarian(717;0.0822)		BRCA - Breast invasive adenocarcinoma(221;0.0556)														---	---	---	---
ANAPC1	64682	broad.mit.edu	37	2	112614266	112614266	+	Intron	SNP	C	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:112614266C>A	uc002thi.2	-							NM_022662	NP_073153			anaphase promoting complex subunit 1						anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|cytosol|nucleoplasm				skin(2)	2																		---	---	---	---
IMP4	92856	broad.mit.edu	37	2	131102231	131102231	+	Nonsense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:131102231C>T	uc002tra.1	+	3	159	c.142C>T	c.(142-144)CGA>TGA	p.R48*	CCDC115_uc002tqw.1_5'Flank|CCDC115_uc010zaf.1_5'Flank|CCDC115_uc002tqx.2_5'Flank|CCDC115_uc002tqy.1_5'Flank|CCDC115_uc002tqz.1_5'Flank	NM_033416	NP_219484	Q96G21	IMP4_HUMAN	IMP4, U3 small nucleolar ribonucleoprotein,	48	Arg-rich.				rRNA processing|translation	nucleolus|ribonucleoprotein complex	aminoacyl-tRNA ligase activity|ATP binding|protein binding			central_nervous_system(2)	2	Colorectal(110;0.1)																	---	---	---	---
FAM123C	205147	broad.mit.edu	37	2	131521723	131521723	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:131521723C>T	uc002trw.2	+	2	2268	c.2078C>T	c.(2077-2079)GCC>GTC	p.A693V	FAM123C_uc010fmv.2_Missense_Mutation_p.A693V|FAM123C_uc010fms.1_Missense_Mutation_p.A693V|FAM123C_uc010fmt.1_Missense_Mutation_p.A693V|FAM123C_uc010fmu.1_Missense_Mutation_p.A693V	NM_152698	NP_689911	Q8N944	F123C_HUMAN	hypothetical protein LOC205147	693										pancreas(2)|ovary(1)	3	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.13)														---	---	---	---
THSD7B	80731	broad.mit.edu	37	2	138030222	138030222	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:138030222C>T	uc002tva.1	+	10	2293	c.2293C>T	c.(2293-2295)CCT>TCT	p.P765S	THSD7B_uc010zbj.1_Intron|THSD7B_uc002tvb.2_Missense_Mutation_p.P655S	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)														---	---	---	---
KYNU	8942	broad.mit.edu	37	2	143742717	143742717	+	Nonsense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:143742717G>A	uc002tvl.2	+	9	924	c.794G>A	c.(793-795)TGG>TAG	p.W265*	KYNU_uc002tvk.2_Nonsense_Mutation_p.W265*|KYNU_uc010fnm.2_Nonsense_Mutation_p.W265*	NM_003937	NP_003928	Q16719	KYNU_HUMAN	kynureninase (L-kynurenine hydrolase) isoform a	265					anthranilate metabolic process|NAD biosynthetic process|quinolinate biosynthetic process|response to interferon-gamma|response to vitamin B6	cytosol|mitochondrion|soluble fraction	kynureninase activity|protein homodimerization activity			skin(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.072)	L-Alanine(DB00160)|Pyridoxal Phosphate(DB00114)													---	---	---	---
ACVR2A	92	broad.mit.edu	37	2	148684747	148684747	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:148684747G>A	uc002twg.2	+	12	1715	c.1446G>A	c.(1444-1446)ATG>ATA	p.M482I	ACVR2A_uc010zbn.1_Missense_Mutation_p.M374I|ACVR2A_uc002twh.2_Missense_Mutation_p.M482I	NM_001616	NP_001607	P27037	AVR2A_HUMAN	activin A receptor, type IIA precursor	482	Cytoplasmic (Potential).|Protein kinase.				activin receptor signaling pathway|BMP signaling pathway|positive regulation of activin receptor signaling pathway|positive regulation of bone mineralization|positive regulation of erythrocyte differentiation|positive regulation of osteoblast differentiation|positive regulation of protein phosphorylation	cytoplasm|inhibin-betaglycan-ActRII complex|integral to plasma membrane	ATP binding|coreceptor activity|inhibin beta-A binding|metal ion binding|receptor signaling protein serine/threonine kinase activity|transforming growth factor beta receptor activity			stomach(8)|large_intestine(2)|lung(1)|breast(1)|kidney(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.0969)														---	---	---	---
TNFAIP6	7130	broad.mit.edu	37	2	152235983	152235983	+	Missense_Mutation	SNP	A	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:152235983A>C	uc002txk.2	+	6	846	c.770A>C	c.(769-771)AAA>ACA	p.K257T		NM_007115	NP_009046	P98066	TSG6_HUMAN	tumor necrosis factor, alpha-induced protein 6	257					cell adhesion|cell-cell signaling|inflammatory response|signal transduction		hyaluronic acid binding				0				BRCA - Breast invasive adenocarcinoma(221;0.131)														---	---	---	---
GALNT13	114805	broad.mit.edu	37	2	155099258	155099258	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:155099258C>T	uc002tyr.3	+	6	1093	c.526C>T	c.(526-528)CCA>TCA	p.P176S	GALNT13_uc002tyt.3_Missense_Mutation_p.P176S|GALNT13_uc010foc.1_5'UTR	NM_052917	NP_443149	Q8IUC8	GLT13_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	176	Lumenal (Potential).|Catalytic subdomain A.					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)|pancreas(2)|central_nervous_system(1)|skin(1)	6																		---	---	---	---
SCN2A	6326	broad.mit.edu	37	2	166166916	166166916	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:166166916G>A	uc002udc.2	+	7	1071	c.781G>A	c.(781-783)GTG>ATG	p.V261M	SCN2A_uc002udd.2_Missense_Mutation_p.V261M|SCN2A_uc002ude.2_Missense_Mutation_p.V261M	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	261	I.|Helical; Name=S5 of repeat I; (Potential).		V -> M (in BFIC3).		myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)													---	---	---	---
XIRP2	129446	broad.mit.edu	37	2	167992440	167992440	+	Missense_Mutation	SNP	T	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:167992440T>G	uc002udx.2	+	2	448	c.430T>G	c.(430-432)TTG>GTG	p.L144V	XIRP2_uc010fpn.2_Missense_Mutation_p.L144V|XIRP2_uc010fpo.2_Missense_Mutation_p.L144V|XIRP2_uc010fpp.2_Missense_Mutation_p.L144V|XIRP2_uc002udy.2_5'UTR	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	Error:Variant_position_missing_in_A4UGR9_after_alignment					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14																		---	---	---	---
XIRP2	129446	broad.mit.edu	37	2	168102105	168102105	+	Missense_Mutation	SNP	A	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:168102105A>C	uc002udx.2	+	8	4221	c.4203A>C	c.(4201-4203)GAA>GAC	p.E1401D	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.E1226D|XIRP2_uc010fpq.2_Missense_Mutation_p.E1179D|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_5'Flank	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	1226					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14																		---	---	---	---
SP5	389058	broad.mit.edu	37	2	171572954	171572954	+	Silent	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:171572954G>A	uc002uge.2	+	2	403	c.237G>A	c.(235-237)GCG>GCA	p.A79A	LOC440925_uc002ugd.2_5'Flank	NM_001003845	NP_001003845	Q6BEB4	SP5_HUMAN	Sp5 transcription factor	79					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0																		---	---	---	---
HOXD12	3238	broad.mit.edu	37	2	176965452	176965452	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:176965452C>T	uc010zev.1	+	2	777	c.777C>T	c.(775-777)CGC>CGT	p.R259R	HOXD12_uc010zew.1_3'UTR	NM_021193	NP_067016	P35452	HXD12_HUMAN	homeobox D12	259	Homeobox.					nuclear chromosome	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	Colorectal(32;0.0521)|READ - Rectum adenocarcinoma(9;0.0678)														---	---	---	---
TTN	7273	broad.mit.edu	37	2	179427391	179427391	+	Missense_Mutation	SNP	G	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179427391G>T	uc010zfg.1	-	275	75988	c.75764C>A	c.(75763-75765)ACT>AAT	p.T25255N	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.T18950N|TTN_uc010zfi.1_Missense_Mutation_p.T18883N|TTN_uc010zfj.1_Missense_Mutation_p.T18758N	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	26182							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)															---	---	---	---
TTN	7273	broad.mit.edu	37	2	179584282	179584282	+	Silent	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179584282A>G	uc010zfg.1	-	79	20429	c.20205T>C	c.(20203-20205)TCT>TCC	p.S6735S	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Silent_p.S3396S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	7662							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)															---	---	---	---
NCKAP1	10787	broad.mit.edu	37	2	183792931	183792931	+	Silent	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:183792931A>G	uc002upc.2	-	29	3496	c.3094T>C	c.(3094-3096)TTG>CTG	p.L1032L	NCKAP1_uc002upb.2_Silent_p.L1038L	NM_013436	NP_038464	Q9Y2A7	NCKP1_HUMAN	NCK-associated protein 1 isoform 1	1032					apoptosis|central nervous system development	integral to membrane|lamellipodium membrane	protein binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0942)|Epithelial(96;0.209)															---	---	---	---
ZNF804A	91752	broad.mit.edu	37	2	185802457	185802457	+	Silent	SNP	T	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:185802457T>A	uc002uph.2	+	4	2928	c.2334T>A	c.(2332-2334)TCT>TCA	p.S778S		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	778						intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11																		---	---	---	---
COL5A2	1290	broad.mit.edu	37	2	189921760	189921760	+	Intron	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:189921760A>G	uc002uqk.2	-						COL5A2_uc010frx.2_Intron	NM_000393	NP_000384			alpha 2 type V collagen preproprotein						axon guidance|collagen fibril organization|eye morphogenesis|skin development	collagen type V	extracellular matrix structural constituent			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.127)															---	---	---	---
C2orf60	129450	broad.mit.edu	37	2	200800752	200800752	+	Missense_Mutation	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:200800752A>G	uc002uvi.3	-	7	859	c.593T>C	c.(592-594)CTG>CCG	p.L198P	C2orf60_uc002uvj.3_Missense_Mutation_p.L35P|C2orf60_uc002uvk.3_RNA|C2orf60_uc010fss.2_Missense_Mutation_p.L35P	NM_001039693	NP_001034782	A2RUC4	TYW5_HUMAN	hypothetical protein LOC129450	198	JmjC.				wybutosine biosynthetic process		iron ion binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein homodimerization activity|tRNA binding				0																		---	---	---	---
BZW1	9689	broad.mit.edu	37	2	201681935	201681935	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:201681935G>A	uc010zhg.1	+	6	657	c.605G>A	c.(604-606)AGC>AAC	p.S202N	BZW1_uc002uwc.2_Missense_Mutation_p.S170N|BZW1_uc010zhh.1_Missense_Mutation_p.S170N	NM_014670	NP_055485	Q7L1Q6	BZW1_HUMAN	basic leucine zipper and W2 domains 1	170					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm	protein binding				0																		---	---	---	---
ORC2L	4999	broad.mit.edu	37	2	201784950	201784950	+	Silent	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:201784950A>G	uc002uwr.2	-	15	1718	c.1461T>C	c.(1459-1461)AAT>AAC	p.N487N	ORC2L_uc010zhj.1_Silent_p.N487N	NM_006190	NP_006181	Q13416	ORC2_HUMAN	origin recognition complex, subunit 2	487					cell cycle checkpoint|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|S phase of mitotic cell cycle	nuclear origin of replication recognition complex|nucleoplasm	DNA replication origin binding|protein binding				0																		---	---	---	---
CDK15	65061	broad.mit.edu	37	2	202712142	202712142	+	Missense_Mutation	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:202712142A>G	uc002uyt.2	+	9	939	c.890A>G	c.(889-891)CAA>CGA	p.Q297R	CDK15_uc010ftm.2_Missense_Mutation_p.Q162R|CDK15_uc002uys.2_Missense_Mutation_p.Q246R|CDK15_uc010ftn.1_Missense_Mutation_p.Q246R|CDK15_uc010fto.1_Missense_Mutation_p.Q276R	NM_139158	NP_631897	Q96Q40	CDK15_HUMAN	PFTAIRE protein kinase 2	297	Protein kinase.						ATP binding|cyclin-dependent protein kinase activity|metal ion binding|protein binding			breast(2)|ovary(1)|lung(1)|kidney(1)	5					Adenosine triphosphate(DB00171)													---	---	---	---
BMPR2	659	broad.mit.edu	37	2	203242245	203242245	+	Nonsense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:203242245G>A	uc002uzf.3	+	1	1196	c.48G>A	c.(46-48)TGG>TGA	p.W16*	BMPR2_uc010ftr.2_Nonsense_Mutation_p.W16*|BMPR2_uc002uze.2_Nonsense_Mutation_p.W16*	NM_001204	NP_001195	Q13873	BMPR2_HUMAN	bone morphogenetic protein receptor type II	16					anterior/posterior pattern formation|BMP signaling pathway|cellular response to starvation|lung alveolus development|mesoderm formation|negative regulation of cell growth|negative regulation of systemic arterial blood pressure|negative regulation of vasoconstriction|positive regulation of BMP signaling pathway|positive regulation of bone mineralization|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of epithelial cell migration|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|regulation of lung blood pressure|transcription from RNA polymerase II promoter|vascular endothelial growth factor receptor signaling pathway	integral to plasma membrane	ATP binding|metal ion binding|transforming growth factor beta receptor activity			ovary(4)|breast(2)|large_intestine(1)|stomach(1)|pancreas(1)	9																		---	---	---	---
BMPR2	659	broad.mit.edu	37	2	203407105	203407105	+	Nonsense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:203407105C>T	uc002uzf.3	+	10	2496	c.1348C>T	c.(1348-1350)CAG>TAG	p.Q450*	BMPR2_uc010ftr.2_Nonsense_Mutation_p.Q450*	NM_001204	NP_001195	Q13873	BMPR2_HUMAN	bone morphogenetic protein receptor type II	450	Protein kinase.|Cytoplasmic (Potential).				anterior/posterior pattern formation|BMP signaling pathway|cellular response to starvation|lung alveolus development|mesoderm formation|negative regulation of cell growth|negative regulation of systemic arterial blood pressure|negative regulation of vasoconstriction|positive regulation of BMP signaling pathway|positive regulation of bone mineralization|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of epithelial cell migration|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|regulation of lung blood pressure|transcription from RNA polymerase II promoter|vascular endothelial growth factor receptor signaling pathway	integral to plasma membrane	ATP binding|metal ion binding|transforming growth factor beta receptor activity			ovary(4)|breast(2)|large_intestine(1)|stomach(1)|pancreas(1)	9																		---	---	---	---
INO80D	54891	broad.mit.edu	37	2	206869417	206869417	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:206869417G>A	uc002vaz.3	-	11	3164	c.2759C>T	c.(2758-2760)ACG>ATG	p.T920M		NM_017759	NP_060229	Q53TQ3	IN80D_HUMAN	INO80 complex subunit D	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					DNA recombination|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(1)	1																		---	---	---	---
CRYGC	1420	broad.mit.edu	37	2	208994242	208994242	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:208994242G>A	uc002vco.3	-	2	213	c.175C>T	c.(175-177)CGG>TGG	p.R59W		NM_020989	NP_066269	P07315	CRGC_HUMAN	crystallin, gamma C	59	Beta/gamma crystallin 'Greek key' 2.				visual perception	cytoplasm|nucleus	protein binding|structural constituent of eye lens				0				LUSC - Lung squamous cell carcinoma(261;0.0703)|Epithelial(149;0.0858)|Lung(261;0.133)														---	---	---	---
ZNF142	7701	broad.mit.edu	37	2	219507069	219507069	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:219507069C>T	uc002vin.2	-	8	4606	c.4170G>A	c.(4168-4170)CGG>CGA	p.R1390R	ZNF142_uc002vil.2_Silent_p.R1351R|ZNF142_uc010fvt.2_Silent_p.R1227R|ZNF142_uc002vim.2_Silent_p.R1227R	NM_001105537	NP_001099007	P52746	ZN142_HUMAN	zinc finger protein 142	1390	C2H2-type 23.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|ovary(1)|skin(1)	4		Renal(207;0.0474)		Epithelial(149;5.21e-07)|all cancers(144;0.000106)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)														---	---	---	---
CCDC108	255101	broad.mit.edu	37	2	219892428	219892428	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:219892428G>A	uc002vjl.1	-	13	2239	c.2155C>T	c.(2155-2157)CCG>TCG	p.P719S	CCDC108_uc010fwa.1_Missense_Mutation_p.P162S|CCDC108_uc010zkp.1_Missense_Mutation_p.P708S|CCDC108_uc010zkq.1_Missense_Mutation_p.P654S	NM_194302	NP_919278	Q6ZU64	CC108_HUMAN	coiled-coil domain containing 108 isoform 1	719						integral to membrane	structural molecule activity			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Renal(207;0.0915)		Epithelial(149;1.12e-06)|all cancers(144;0.000196)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)														---	---	---	---
COL4A3	1285	broad.mit.edu	37	2	228118042	228118042	+	Missense_Mutation	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:228118042A>G	uc002vom.1	+	12	838	c.676A>G	c.(676-678)AAA>GAA	p.K226E	COL4A3_uc002von.1_Missense_Mutation_p.K226E|COL4A3_uc002voo.1_Missense_Mutation_p.K226E|COL4A3_uc002vop.1_Missense_Mutation_p.K226E|uc002voq.1_Intron|uc002vor.1_Intron	NM_000091	NP_000082	Q01955	CO4A3_HUMAN	alpha 3 type IV collagen isoform 1 precursor	226	Triple-helical region.				activation of caspase activity|axon guidance|blood circulation|cell adhesion|cell proliferation|cell surface receptor linked signaling pathway|glomerular basement membrane development|induction of apoptosis|negative regulation of angiogenesis|negative regulation of cell proliferation|sensory perception of sound	collagen type IV	extracellular matrix structural constituent|integrin binding|metalloendopeptidase inhibitor activity			skin(2)|ovary(1)	3		all_lung(227;0.00101)|Lung NSC(271;0.00278)|Renal(207;0.0112)|Ovarian(221;0.0129)|all_hematologic(139;0.211)|Esophageal squamous(248;0.247)		Epithelial(121;1.17e-46)|all cancers(144;6.87e-42)|Lung(261;0.0137)|LUSC - Lung squamous cell carcinoma(224;0.0187)														---	---	---	---
COL4A3	1285	broad.mit.edu	37	2	228141189	228141189	+	Silent	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:228141189A>G	uc002vom.1	+	27	2178	c.2016A>G	c.(2014-2016)CCA>CCG	p.P672P	COL4A3_uc002von.1_Silent_p.P672P|COL4A3_uc002voo.1_Silent_p.P672P|COL4A3_uc002vop.1_Silent_p.P672P|uc002voq.1_Intron|uc002vor.1_Intron	NM_000091	NP_000082	Q01955	CO4A3_HUMAN	alpha 3 type IV collagen isoform 1 precursor	672	Triple-helical region.				activation of caspase activity|axon guidance|blood circulation|cell adhesion|cell proliferation|cell surface receptor linked signaling pathway|glomerular basement membrane development|induction of apoptosis|negative regulation of angiogenesis|negative regulation of cell proliferation|sensory perception of sound	collagen type IV	extracellular matrix structural constituent|integrin binding|metalloendopeptidase inhibitor activity			skin(2)|ovary(1)	3		all_lung(227;0.00101)|Lung NSC(271;0.00278)|Renal(207;0.0112)|Ovarian(221;0.0129)|all_hematologic(139;0.211)|Esophageal squamous(248;0.247)		Epithelial(121;1.17e-46)|all cancers(144;6.87e-42)|Lung(261;0.0137)|LUSC - Lung squamous cell carcinoma(224;0.0187)														---	---	---	---
SP100	6672	broad.mit.edu	37	2	231328834	231328834	+	Silent	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:231328834A>G	uc002vqt.2	+	11	1251	c.1110A>G	c.(1108-1110)GAA>GAG	p.E370E	SP100_uc002vqs.2_Silent_p.E370E|SP100_uc002vqu.1_Silent_p.E370E|SP100_uc002vqq.1_Silent_p.E370E|SP100_uc002vqr.1_Silent_p.E345E|SP100_uc010zmc.1_Silent_p.E345E|SP100_uc002vqv.1_Silent_p.E334E	NM_003113	NP_003104	P23497	SP100_HUMAN	nuclear antigen Sp100 isoform 2	370					DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|interspecies interaction between organisms|negative regulation of cellular component movement|negative regulation of DNA binding|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|negative regulation of transcription, DNA-dependent|negative regulation of viral transcription|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|response to cytokine stimulus|response to retinoic acid|response to type I interferon	cytoplasm|nuclear periphery|nucleolus|PML body	chromo shadow domain binding|DNA binding|identical protein binding|kinase binding|protein homodimerization activity|transcription coactivator activity|transcription corepressor activity|transcription factor binding			ovary(4)|central_nervous_system(1)	5		Renal(207;0.0112)|all_lung(227;0.0335)|all_hematologic(139;0.0749)|Lung NSC(271;0.142)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;1.13e-12)|all cancers(144;2.71e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00942)														---	---	---	---
SP100	6672	broad.mit.edu	37	2	231404101	231404101	+	Intron	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:231404101A>G	uc002vqu.1	+						SP100_uc010fxp.1_Intron	NM_001080391	NP_001073860			nuclear antigen Sp100 isoform 1						DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|interspecies interaction between organisms|negative regulation of cellular component movement|negative regulation of DNA binding|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|negative regulation of transcription, DNA-dependent|negative regulation of viral transcription|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|response to cytokine stimulus|response to retinoic acid|response to type I interferon	cytoplasm|nuclear periphery|nucleolus|PML body	chromo shadow domain binding|DNA binding|identical protein binding|kinase binding|protein homodimerization activity|transcription coactivator activity|transcription corepressor activity|transcription factor binding			ovary(4)|central_nervous_system(1)	5		Renal(207;0.0112)|all_lung(227;0.0335)|all_hematologic(139;0.0749)|Lung NSC(271;0.142)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;1.13e-12)|all cancers(144;2.71e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00942)														---	---	---	---
B3GNT7	93010	broad.mit.edu	37	2	232263248	232263248	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:232263248G>A	uc002vrs.2	+	2	998	c.818G>A	c.(817-819)CGG>CAG	p.R273Q		NM_145236	NP_660279	Q8NFL0	B3GN7_HUMAN	UDP-GlcNAc:betaGal	273	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to membrane	galactosyltransferase activity				0		Renal(207;0.025)|all_hematologic(139;0.094)|Acute lymphoblastic leukemia(138;0.164)|Medulloblastoma(418;0.232)		Epithelial(121;3.22e-11)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.0139)														---	---	---	---
DIS3L2	129563	broad.mit.edu	37	2	233201245	233201245	+	Missense_Mutation	SNP	G	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:233201245G>T	uc010fxz.2	+	21	2839	c.2563G>T	c.(2563-2565)GCC>TCC	p.A855S	DIS3L2_uc002vsm.3_RNA|DIS3L2_uc002vso.2_RNA|DIS3L2_uc002vsp.1_RNA	NM_152383	NP_689596	Q8IYB7	DI3L2_HUMAN	DIS3 mitotic control homolog (S.	855							exonuclease activity|ribonuclease activity|RNA binding			ovary(1)|breast(1)|central_nervous_system(1)	3		all_hematologic(139;0.00809)|Renal(207;0.0113)|Acute lymphoblastic leukemia(138;0.0195)|all_lung(227;0.0465)|Lung NSC(271;0.136)		Epithelial(121;1.6e-13)|BRCA - Breast invasive adenocarcinoma(100;0.00104)|LUSC - Lung squamous cell carcinoma(224;0.0109)|Lung(119;0.0149)														---	---	---	---
NEU2	4759	broad.mit.edu	37	2	233898990	233898990	+	Silent	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:233898990G>A	uc010zmn.1	+	2	366	c.366G>A	c.(364-366)ACG>ACA	p.T122T		NM_005383	NP_005374	Q9Y3R4	NEUR2_HUMAN	neuraminidase 2	122							exo-alpha-sialidase activity				0		Breast(86;0.00279)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0271)|Acute lymphoblastic leukemia(138;0.0326)|Lung NSC(271;0.0839)		Epithelial(121;7.17e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000311)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00942)|GBM - Glioblastoma multiforme(43;0.0488)														---	---	---	---
IQCA1	79781	broad.mit.edu	37	2	237272542	237272542	+	Silent	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:237272542G>A	uc002vvz.1	-	15	1932	c.1750C>T	c.(1750-1752)CTG>TTG	p.L584L	IQCA1_uc002vwb.2_Silent_p.L592L|IQCA1_uc002vwa.1_RNA|IQCA1_uc010zni.1_Silent_p.L543L	NM_024726	NP_079002	Q86XH1	IQCA1_HUMAN	IQ motif containing with AAA domain 1	584							ATP binding			ovary(1)	1																		---	---	---	---
CHL1	10752	broad.mit.edu	37	3	382603	382603	+	Intron	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:382603A>G	uc003bou.2	+						CHL1_uc003bot.2_Intron|CHL1_uc003bow.1_Intron|CHL1_uc011asi.1_Intron	NM_006614	NP_006605			cell adhesion molecule with homology to L1CAM						axon guidance|cell adhesion|signal transduction	integral to membrane|plasma membrane|proteinaceous extracellular matrix				skin(5)|central_nervous_system(4)|large_intestine(2)|ovary(1)	12		all_cancers(2;1.14e-06)|all_epithelial(2;0.00367)|all_lung(1;0.061)|Lung NSC(2;0.201)		Epithelial(13;5.36e-06)|all cancers(10;1.4e-05)|OV - Ovarian serous cystadenocarcinoma(96;0.00323)|COAD - Colon adenocarcinoma(1;0.00925)|Colorectal(20;0.0198)														---	---	---	---
FANCD2	2177	broad.mit.edu	37	3	10074520	10074520	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:10074520C>T	uc003buw.2	+	3	147	c.69C>T	c.(67-69)ACC>ACT	p.T23T	FANCD2_uc003bux.1_Silent_p.T23T|FANCD2_uc003buy.1_Silent_p.T23T|FANCD2_uc003buv.2_Silent_p.T23T	NM_033084	NP_149075	Q9BXW9	FACD2_HUMAN	Fanconi anemia complementation group D2 isoform	23	Interaction with FANCE.				DNA repair|response to gamma radiation	nucleoplasm	protein binding|protein binding			central_nervous_system(2)|ovary(1)|skin(1)	4				OV - Ovarian serous cystadenocarcinoma(96;0.148)				D|Mis|N|F			AML|leukemia		Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				---	---	---	---
TGFBR2	7048	broad.mit.edu	37	3	30713390	30713390	+	Missense_Mutation	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:30713390A>G	uc003ceo.2	+	4	1097	c.715A>G	c.(715-717)ACA>GCA	p.T239A	TGFBR2_uc003cen.2_Missense_Mutation_p.T264A	NM_003242	NP_003233	P37173	TGFR2_HUMAN	transforming growth factor, beta receptor II	239	Cytoplasmic (Potential).				activation of protein kinase activity|brain development|embryonic cranial skeleton morphogenesis|embryonic hemopoiesis|heart development|myeloid dendritic cell differentiation|palate development|pathway-restricted SMAD protein phosphorylation|patterning of blood vessels|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of B cell tolerance induction|positive regulation of mesenchymal cell proliferation|positive regulation of NK T cell differentiation|positive regulation of reactive oxygen species metabolic process|positive regulation of T cell tolerance induction|positive regulation of tolerance induction to self antigen|response to cholesterol|response to drug|transforming growth factor beta receptor signaling pathway|transforming growth factor beta receptor signaling pathway|vasculogenesis	caveola|external side of plasma membrane	ATP binding|glycosaminoglycan binding|metal ion binding|protein binding|receptor signaling protein serine/threonine kinase activity|SMAD binding|transforming growth factor beta binding|transforming growth factor beta receptor activity, type II|type I transforming growth factor beta receptor binding|type I transforming growth factor beta receptor binding|type III transforming growth factor beta receptor binding			pancreas(9)|large_intestine(6)|stomach(4)|lung(3)|ovary(3)|central_nervous_system(1)	26																		---	---	---	---
CMTM6	54918	broad.mit.edu	37	3	32529529	32529529	+	Splice_Site	SNP	C	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:32529529C>A	uc003cfa.1	-	3	482	c.316_splice	c.e3-1	p.D106_splice		NM_017801	NP_060271			CKLF-like MARVEL transmembrane domain containing						chemotaxis	extracellular space|integral to membrane	cytokine activity				0																		---	---	---	---
VILL	50853	broad.mit.edu	37	3	38035802	38035802	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:38035802C>T	uc003chj.2	+	4	472	c.186C>T	c.(184-186)TAC>TAT	p.Y62Y	VILL_uc003chk.1_Silent_p.Y62Y|VILL_uc003chl.2_Silent_p.Y62Y|VILL_uc010hgu.2_5'UTR	NM_015873	NP_056957	O15195	VILL_HUMAN	villin-like protein	62	Gelsolin-like 1.				actin filament capping|cytoskeleton organization	actin cytoskeleton	actin binding|structural constituent of cytoskeleton				0				KIRC - Kidney renal clear cell carcinoma(284;0.0525)|Kidney(284;0.0661)														---	---	---	---
TTC21A	199223	broad.mit.edu	37	3	39179046	39179046	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:39179046C>T	uc003cjc.2	+	26	3718	c.3541C>T	c.(3541-3543)CGT>TGT	p.R1181C	TTC21A_uc003cje.2_Missense_Mutation_p.R1182C|TTC21A_uc003cjd.2_RNA|TTC21A_uc011ayx.1_Missense_Mutation_p.R1133C|TTC21A_uc003cjf.2_Missense_Mutation_p.R302C	NM_145755	NP_665698	Q8NDW8	TT21A_HUMAN	tetratricopeptide repeat domain 21A isoform 2	1181							binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0588)|Kidney(284;0.0738)														---	---	---	---
MYRIP	25924	broad.mit.edu	37	3	40085751	40085751	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:40085751C>T	uc003cka.2	+	3	456	c.321C>T	c.(319-321)TGC>TGT	p.C107C	MYRIP_uc010hhu.2_RNA|MYRIP_uc010hhv.2_Silent_p.C107C|MYRIP_uc010hhw.2_Missense_Mutation_p.A64V|MYRIP_uc010hhx.1_Silent_p.C107C	NM_015460	NP_056275	Q8NFW9	MYRIP_HUMAN	myosin VIIA and Rab interacting protein	107	RabBD.				intracellular protein transport		actin binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5				KIRC - Kidney renal clear cell carcinoma(284;0.174)|Kidney(284;0.206)														---	---	---	---
RPL14	9045	broad.mit.edu	37	3	40500174	40500174	+	Silent	SNP	C	A	A	rs61748304	byFrequency	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:40500174C>A	uc003ckg.2	+	3	198	c.147C>A	c.(145-147)GCC>GCA	p.A49A	RPL14_uc003ckh.2_Silent_p.A49A|RPL14_uc003cki.2_5'UTR	NM_003973	NP_003964	P50914	RL14_HUMAN	ribosomal protein L14	49					endocrine pancreas development|ribosomal large subunit biogenesis|rRNA processing|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit	protein binding|RNA binding|structural constituent of ribosome				0				KIRC - Kidney renal clear cell carcinoma(284;0.0517)|Kidney(284;0.065)														---	---	---	---
ULK4	54986	broad.mit.edu	37	3	41607536	41607536	+	Missense_Mutation	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:41607536A>G	uc003ckv.3	-	32	3407	c.3206T>C	c.(3205-3207)ATG>ACG	p.M1069T		NM_017886	NP_060356	Q96C45	ULK4_HUMAN	unc-51-like kinase 4	1069							ATP binding|protein serine/threonine kinase activity				0				KIRC - Kidney renal clear cell carcinoma(284;0.214)														---	---	---	---
CLEC3B	7123	broad.mit.edu	37	3	45077050	45077050	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:45077050C>T	uc003cok.3	+	3	339	c.243C>T	c.(241-243)TGC>TGT	p.C81C	CLEC3B_uc003col.2_Silent_p.C39C	NM_003278	NP_003269	P05452	TETN_HUMAN	C-type lectin domain family 3, member B	81	C-type lectin.				skeletal system development	extracellular space	protein binding|sugar binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00863)|KIRC - Kidney renal clear cell carcinoma(197;0.0475)|Kidney(197;0.0595)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)													---	---	---	---
PRKAR2A	5576	broad.mit.edu	37	3	48789703	48789703	+	Silent	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:48789703G>A	uc010hki.1	-	10	1228	c.987C>T	c.(985-987)CGC>CGT	p.R329R	PRKAR2A_uc003cux.1_Silent_p.R329R|PRKAR2A_uc003cuy.1_Silent_p.R307R	NM_004157	NP_004148	P13861	KAP2_HUMAN	cAMP-dependent protein kinase, regulatory	329	cAMP 2.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|intracellular signal transduction|nerve growth factor receptor signaling pathway|regulation of insulin secretion|transmembrane transport|water transport	centrosome|cytosol|membrane fraction	cAMP binding|cAMP-dependent protein kinase regulator activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000176)|Kidney(197;0.00246)|KIRC - Kidney renal clear cell carcinoma(197;0.00261)														---	---	---	---
RHOA	387	broad.mit.edu	37	3	49412898	49412898	+	Missense_Mutation	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:49412898T>C	uc003cwu.2	-	2	401	c.125A>G	c.(124-126)TAT>TGT	p.Y42C	RHOA_uc010hku.2_5'UTR	NM_001664	NP_001655	P61586	RHOA_HUMAN	ras homolog gene family, member A precursor	42	Effector region (Potential).				axon guidance|interspecies interaction between organisms|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|positive regulation of axonogenesis|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of neuron differentiation|positive regulation of NF-kappaB import into nucleus|positive regulation of stress fiber assembly|regulation of cell migration|regulation of small GTPase mediated signal transduction|Rho protein signal transduction|spindle assembly involved in mitosis	cytoskeleton|cytosol|plasma membrane	GTP binding|GTPase activity|myosin binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;8.58e-05)|Kidney(197;0.0023)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)	Atorvastatin(DB01076)|Simvastatin(DB00641)													---	---	---	---
SLC38A3	10991	broad.mit.edu	37	3	50253006	50253006	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:50253006G>A	uc003cyn.3	+	6	545	c.404G>A	c.(403-405)CGT>CAT	p.R135H	SLC38A3_uc011bdl.1_Missense_Mutation_p.R110H|SLC38A3_uc011bdm.1_Missense_Mutation_p.R66H	NM_006841	NP_006832	Q99624	S38A3_HUMAN	solute carrier family 38, member 3	135					cellular nitrogen compound metabolic process|sodium ion transport	integral to plasma membrane	antiporter activity|L-alanine transmembrane transporter activity|L-asparagine transmembrane transporter activity|L-glutamine transmembrane transporter activity|L-histidine transmembrane transporter activity|symporter activity			breast(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000275)|KIRC - Kidney renal clear cell carcinoma(197;0.00548)|Kidney(197;0.00615)	L-Asparagine(DB00174)|L-Glutamine(DB00130)|L-Histidine(DB00117)													---	---	---	---
DOCK3	1795	broad.mit.edu	37	3	51263118	51263118	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:51263118G>A	uc011bds.1	+	15	1314	c.1291G>A	c.(1291-1293)GGG>AGG	p.G431R		NM_004947	NP_004938	Q8IZD9	DOCK3_HUMAN	dedicator of cytokinesis 3	431	DHR-1.					cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00449)|Kidney(197;0.00518)														---	---	---	---
DOCK3	1795	broad.mit.edu	37	3	51392352	51392352	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:51392352C>T	uc011bds.1	+	41	4170	c.4147C>T	c.(4147-4149)CTG>TTG	p.L1383L		NM_004947	NP_004938	Q8IZD9	DOCK3_HUMAN	dedicator of cytokinesis 3	1383	DHR-2.					cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00449)|Kidney(197;0.00518)														---	---	---	---
RBM15B	29890	broad.mit.edu	37	3	51430610	51430610	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:51430610C>T	uc003dbd.2	+	1	1880	c.1780C>T	c.(1780-1782)CGG>TGG	p.R594W		NM_013286	NP_037418	Q8NDT2	RB15B_HUMAN	RNA binding motif protein 15B	594	Nuclear localization signal (Potential).				interspecies interaction between organisms|mRNA processing|regulation of alternative nuclear mRNA splicing, via spliceosome|regulation of transcription, DNA-dependent|RNA splicing|transcription, DNA-dependent	nucleoplasm	nucleotide binding|protein binding|RNA binding				0				BRCA - Breast invasive adenocarcinoma(193;0.000224)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)														---	---	---	---
CACNA2D3	55799	broad.mit.edu	37	3	54157605	54157605	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:54157605C>T	uc003dhf.2	+	2	236	c.188C>T	c.(187-189)TCC>TTC	p.S63F	CACNA2D3_uc011beu.1_RNA|CACNA2D3_uc003dhg.1_5'UTR|CACNA2D3_uc003dhh.1_RNA	NM_018398	NP_060868	Q8IZS8	CA2D3_HUMAN	calcium channel, voltage-dependent, alpha	63	Extracellular (Potential).					integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			large_intestine(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7				KIRC - Kidney renal clear cell carcinoma(284;0.00287)|Kidney(284;0.00327)														---	---	---	---
C3orf63	23272	broad.mit.edu	37	3	56658620	56658620	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:56658620G>A	uc003did.3	-	22	4288	c.4187C>T	c.(4186-4188)GCA>GTA	p.A1396V	C3orf63_uc003dib.3_Missense_Mutation_p.A515V|C3orf63_uc003dic.3_Missense_Mutation_p.A1020V|C3orf63_uc003die.3_Missense_Mutation_p.A1457V	NM_015224	NP_056039	Q9UK61	CC063_HUMAN	retinoblastoma-associated protein 140 isoform b	1457										ovary(3)|kidney(1)|central_nervous_system(1)	5				KIRC - Kidney renal clear cell carcinoma(284;0.0126)|Kidney(284;0.0147)														---	---	---	---
FLNB	2317	broad.mit.edu	37	3	58139223	58139223	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:58139223C>T	uc003djj.2	+	39	6654	c.6489C>T	c.(6487-6489)GGC>GGT	p.G2163G	FLNB_uc010hne.2_Silent_p.G2194G|FLNB_uc003djk.2_Silent_p.G2152G|FLNB_uc010hnf.2_Silent_p.G2139G|FLNB_uc003djl.2_Silent_p.G1983G|FLNB_uc003djm.2_Silent_p.G1970G|FLNB_uc010hng.1_RNA	NM_001457	NP_001448	O75369	FLNB_HUMAN	filamin B isoform 2	2163	Filamin 20.|Interaction with FLNA 1.|Interaction with INPPL1.				actin cytoskeleton organization|cell differentiation|cytoskeletal anchoring at plasma membrane|signal transduction	cell cortex|integral to membrane|nucleus|sarcomere	actin binding			breast(8)|ovary(5)|lung(3)|skin(2)|central_nervous_system(1)	19				BRCA - Breast invasive adenocarcinoma(55;0.000335)|KIRC - Kidney renal clear cell carcinoma(284;0.0726)|Kidney(284;0.0898)														---	---	---	---
ATXN7	6314	broad.mit.edu	37	3	63981463	63981463	+	Silent	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:63981463G>A	uc003dlw.3	+	12	2518	c.1965G>A	c.(1963-1965)ACG>ACA	p.T655T	ATXN7_uc003dlv.2_Silent_p.T655T|ATXN7_uc010hnv.2_Silent_p.T655T|ATXN7_uc011bfn.1_Silent_p.T510T	NM_000333	NP_000324	O15265	ATX7_HUMAN	ataxin 7 isoform a	655	Ser-rich.				cell death|histone deubiquitination|nucleus organization|regulation of transcription, DNA-dependent|transcription, DNA-dependent|visual perception	cytoplasm|nuclear matrix|nucleolus	protein binding|zinc ion binding				0		Prostate(884;0.0181)		BRCA - Breast invasive adenocarcinoma(55;0.000614)|KIRC - Kidney renal clear cell carcinoma(15;0.00294)|Kidney(15;0.00305)														---	---	---	---
ADAMTS9	56999	broad.mit.edu	37	3	64582637	64582637	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:64582637G>A	uc003dmg.2	-	27	4080	c.4048C>T	c.(4048-4050)CGG>TGG	p.R1350W	ADAMTS9_uc011bfo.1_Missense_Mutation_p.R1322W|ADAMTS9_uc003dmh.1_Missense_Mutation_p.R1179W|ADAMTS9_uc011bfp.1_Missense_Mutation_p.R261W	NM_182920	NP_891550	Q9P2N4	ATS9_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1350	TSP type-1 9.				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)														---	---	---	---
LRIG1	26018	broad.mit.edu	37	3	66431997	66431997	+	Silent	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:66431997G>A	uc003dmx.2	-	17	2690	c.2676C>T	c.(2674-2676)TGC>TGT	p.C892C	SLC25A26_uc011bft.1_Intron|LRIG1_uc011bfu.1_Silent_p.C512C|LRIG1_uc003dmw.2_Silent_p.C558C|LRIG1_uc010hnz.2_Silent_p.C608C|LRIG1_uc010hoa.2_Silent_p.C869C	NM_015541	NP_056356	Q96JA1	LRIG1_HUMAN	leucine-rich repeats and immunoglobulin-like	892	Cytoplasmic (Potential).					integral to membrane				skin(3)|ovary(2)	5		Lung NSC(201;0.0101)		BRCA - Breast invasive adenocarcinoma(55;0.00047)														---	---	---	---
MINA	84864	broad.mit.edu	37	3	97677947	97677947	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:97677947C>T	uc003drz.1	-	4	1135	c.629G>A	c.(628-630)AGC>AAC	p.S210N	MINA_uc003dsa.1_Missense_Mutation_p.S210N|MINA_uc003dsb.1_Missense_Mutation_p.S210N|MINA_uc003dsc.1_Missense_Mutation_p.S210N|MINA_uc010hpa.1_RNA|MINA_uc010hpb.1_RNA	NM_001042533	NP_001035998	Q8IUF8	MINA_HUMAN	MYC induced nuclear antigen isoform a	210	JmjC.				ribosome biogenesis	cytoplasm|nucleolus				ovary(1)	1																		---	---	---	---
CEP97	79598	broad.mit.edu	37	3	101477203	101477203	+	Missense_Mutation	SNP	C	T	T	rs145086802		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:101477203C>T	uc003dvk.1	+	9	1780	c.1753C>T	c.(1753-1755)CGT>TGT	p.R585C	CEP97_uc010hpm.1_Missense_Mutation_p.R551C|CEP97_uc011bhf.1_Missense_Mutation_p.R526C|CEP97_uc003dvl.1_Missense_Mutation_p.R281C|CEP97_uc003dvm.1_Missense_Mutation_p.R423C	NM_024548	NP_078824	Q8IW35	CEP97_HUMAN	centrosomal protein 97kDa	585	IQ.|CEP110 binding.					centrosome|nucleus	protein binding			ovary(2)	2																		---	---	---	---
PVRL3	25945	broad.mit.edu	37	3	110837775	110837775	+	Missense_Mutation	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:110837775T>C	uc003dxt.1	+	3	775	c.775T>C	c.(775-777)TAC>CAC	p.Y259H	PVRL3_uc003dxu.1_Missense_Mutation_p.Y236H	NM_015480	NP_056295	Q9NQS3	PVRL3_HUMAN	poliovirus receptor-related 3 precursor	259	Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane	cell adhesion molecule binding|protein homodimerization activity			upper_aerodigestive_tract(2)	2																		---	---	---	---
ARHGAP31	57514	broad.mit.edu	37	3	119121096	119121096	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:119121096C>T	uc003ecj.3	+	10	2029	c.1497C>T	c.(1495-1497)TCC>TCT	p.S499S		NM_020754	NP_065805	Q2M1Z3	RHG31_HUMAN	Cdc42 GTPase-activating protein	499					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion|lamellipodium	GTPase activator activity			ovary(2)	2																		---	---	---	---
PTPLB	201562	broad.mit.edu	37	3	123286614	123286614	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:123286614G>A	uc003egj.2	-	3	337	c.287C>T	c.(286-288)GCT>GTT	p.A96V		NM_198402	NP_940684	Q6Y1H2	HACD2_HUMAN	protein tyrosine phosphatase-like (proline	96	Helical; (Potential).				fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	lyase activity|protein binding			kidney(1)	1				GBM - Glioblastoma multiforme(114;0.1)														---	---	---	---
PLXND1	23129	broad.mit.edu	37	3	129284343	129284343	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:129284343C>T	uc003emx.2	-	25	4461	c.4361G>A	c.(4360-4362)GGC>GAC	p.G1454D	PLXND1_uc011blb.1_Missense_Mutation_p.G122D	NM_015103	NP_055918	Q9Y4D7	PLXD1_HUMAN	plexin D1 precursor	1454	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane				large_intestine(1)	1																		---	---	---	---
PIK3R4	30849	broad.mit.edu	37	3	130447425	130447425	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:130447425C>T	uc003enj.2	-	6	2270	c.1689G>A	c.(1687-1689)CGG>CGA	p.R563R		NM_014602	NP_055417	Q99570	PI3R4_HUMAN	phosphoinositide-3-kinase, regulatory subunit 4	563					fibroblast growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway	cytosol	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|breast(2)|skin(2)|stomach(1)|central_nervous_system(1)|kidney(1)	12																		---	---	---	---
CPNE4	131034	broad.mit.edu	37	3	131624148	131624148	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:131624148C>T	uc003eok.2	-	2	575	c.140G>A	c.(139-141)TGT>TAT	p.C47Y	CPNE4_uc011blq.1_Missense_Mutation_p.C65Y|CPNE4_uc003eol.2_Missense_Mutation_p.C65Y|CPNE4_uc003eom.2_Missense_Mutation_p.C47Y	NM_130808	NP_570720	Q96A23	CPNE4_HUMAN	copine IV	47	C2 1.									upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3																		---	---	---	---
EPHB1	2047	broad.mit.edu	37	3	134851733	134851733	+	Missense_Mutation	SNP	T	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:134851733T>G	uc003eqt.2	+	5	1359	c.1139T>G	c.(1138-1140)GTG>GGG	p.V380G	EPHB1_uc010htz.1_RNA|EPHB1_uc011bly.1_3'UTR|EPHB1_uc003equ.2_5'UTR	NM_004441	NP_004432	P54762	EPHB1_HUMAN	ephrin receptor EphB1 precursor	380	Extracellular (Potential).|Fibronectin type-III 1.					integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding			lung(11)|ovary(6)|stomach(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|pancreas(1)	30																		---	---	---	---
SAMD7	344658	broad.mit.edu	37	3	169642908	169642908	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:169642908C>T	uc003fgd.2	+	5	541	c.274C>T	c.(274-276)CGG>TGG	p.R92W	SAMD7_uc003fge.2_Missense_Mutation_p.R92W|SAMD7_uc011bpo.1_Translation_Start_Site	NM_182610	NP_872416	Q7Z3H4	SAMD7_HUMAN	sterile alpha motif domain containing 7	92										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)															---	---	---	---
NAALADL2	254827	broad.mit.edu	37	3	175189442	175189442	+	Missense_Mutation	SNP	C	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:175189442C>A	uc003fit.2	+	9	1636	c.1549C>A	c.(1549-1551)CTT>ATT	p.L517I	NAALADL2_uc003fiu.1_Missense_Mutation_p.L510I|NAALADL2_uc010hwy.1_Missense_Mutation_p.L291I|NAALADL2_uc010hwz.1_Missense_Mutation_p.L111I	NM_207015	NP_996898	Q58DX5	NADL2_HUMAN	N-acetylated alpha-linked acidic dipeptidase 2	517	Extracellular (Potential).				proteolysis	integral to membrane	peptidase activity			pancreas(1)	1	Ovarian(172;0.0102)	all_cancers(1;0.0272)|all_epithelial(1;0.0553)	OV - Ovarian serous cystadenocarcinoma(80;9.26e-28)	Colorectal(1;1.66e-10)|COAD - Colon adenocarcinoma(1;2.1e-07)|STAD - Stomach adenocarcinoma(1;0.00261)|READ - Rectum adenocarcinoma(3;0.0284)														---	---	---	---
CCDC39	339829	broad.mit.edu	37	3	180365973	180365973	+	Missense_Mutation	SNP	G	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:180365973G>C	uc010hxe.2	-	10	1457	c.1342C>G	c.(1342-1344)CAA>GAA	p.Q448E	CCDC39_uc003fkn.2_RNA	NM_181426	NP_852091	Q9UFE4	CCD39_HUMAN	coiled-coil domain containing 39	448	Potential.				axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium axoneme|cytoplasm|cytoskeleton				ovary(4)	4	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)															---	---	---	---
DNAJB11	51726	broad.mit.edu	37	3	186301734	186301734	+	Missense_Mutation	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:186301734A>G	uc003fqi.2	+	8	1041	c.821A>G	c.(820-822)GAG>GGG	p.E274G		NM_016306	NP_057390	Q9UBS4	DJB11_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 11	274					protein folding	endoplasmic reticulum lumen	heat shock protein binding			ovary(1)|lung(1)	2	all_cancers(143;2.84e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;1.44e-20)	GBM - Glioblastoma multiforme(93;0.0476)														---	---	---	---
KNG1	3827	broad.mit.edu	37	3	186449380	186449380	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:186449380G>A	uc011bsa.1	+	6	931	c.719G>A	c.(718-720)CGA>CAA	p.R240Q	KNG1_uc003fqr.2_Missense_Mutation_p.R240Q	NM_001102416	NP_001095886	P01042	KNG1_HUMAN	kininogen 1 isoform 1	240	Cystatin 2.				blood coagulation, intrinsic pathway|elevation of cytosolic calcium ion concentration|inflammatory response|negative regulation of blood coagulation|negative regulation of cell adhesion|platelet activation|platelet degranulation|positive regulation of apoptosis|positive regulation of renal sodium excretion|positive regulation of urine volume|smooth muscle contraction|vasodilation	extracellular space|plasma membrane|platelet alpha granule lumen	cysteine-type endopeptidase inhibitor activity|heparin binding|receptor binding|zinc ion binding			skin(1)	1	all_cancers(143;8.96e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;4.12e-20)	GBM - Glioblastoma multiforme(93;0.0798)	Ouabain(DB01092)													---	---	---	---
IQCG	84223	broad.mit.edu	37	3	197670673	197670673	+	Silent	SNP	G	A	A	rs143691583	byFrequency	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:197670673G>A	uc003fyo.2	-	3	404	c.258C>T	c.(256-258)TAC>TAT	p.Y86Y	IQCG_uc003fyp.2_Silent_p.Y86Y|IQCG_uc003fyq.3_Silent_p.Y86Y	NM_001134435	NP_001127907	Q9H095	IQCG_HUMAN	IQ motif containing G	86											0	all_cancers(143;1.15e-09)|Ovarian(172;0.0418)|Breast(254;0.0976)		Epithelial(36;7.19e-24)|all cancers(36;3.34e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|LUSC - Lung squamous cell carcinoma(58;6.94e-07)|Lung(62;9.92e-07)	GBM - Glioblastoma multiforme(93;0.149)														---	---	---	---
MFSD7	84179	broad.mit.edu	37	4	677115	677115	+	Silent	SNP	G	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:677115G>T	uc003gay.2	-	8	1095	c.1038C>A	c.(1036-1038)ACC>ACA	p.T346T	MFSD7_uc003gaw.2_Silent_p.T88T|MFSD7_uc003gax.2_Silent_p.T345T|MFSD7_uc003gaz.2_Silent_p.T227T|MFSD7_uc003gba.2_Silent_p.T249T|MFSD7_uc003gbb.1_Silent_p.T281T	NM_032219	NP_115595	Q6UXD7	MFSD7_HUMAN	major facilitator superfamily domain containing	346	Helical; (Potential).				transmembrane transport	integral to membrane					0																		---	---	---	---
JAKMIP1	152789	broad.mit.edu	37	4	6086667	6086667	+	Missense_Mutation	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:6086667A>G	uc003giu.3	-	5	1136	c.860T>C	c.(859-861)GTG>GCG	p.V287A	JAKMIP1_uc010idb.1_Missense_Mutation_p.V287A|JAKMIP1_uc010idc.1_Missense_Mutation_p.V122A|JAKMIP1_uc010idd.1_Missense_Mutation_p.V287A|JAKMIP1_uc011bwc.1_Missense_Mutation_p.V122A|JAKMIP1_uc003giv.3_Missense_Mutation_p.V287A|JAKMIP1_uc010ide.2_Missense_Mutation_p.V287A	NM_144720	NP_653321	Q96N16	JKIP1_HUMAN	janus kinase and microtubule interacting protein	287	Potential.|Mediates association with microtubules.				protein transport	cytoplasm|membrane|microtubule|peripheral to membrane of membrane fraction|ribonucleoprotein complex	GABA receptor binding|RNA binding			large_intestine(1)|pancreas(1)|ovary(1)|skin(1)	4																		---	---	---	---
SHISA3	152573	broad.mit.edu	37	4	42403032	42403032	+	Missense_Mutation	SNP	C	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:42403032C>A	uc003gwp.2	+	2	499	c.281C>A	c.(280-282)CCT>CAT	p.P94H		NM_001080505	NP_001073974	A0PJX4	SHSA3_HUMAN	shisa homolog 3 precursor	94	Extracellular (Potential).				multicellular organismal development	endoplasmic reticulum membrane|integral to membrane				ovary(1)|skin(1)	2																		---	---	---	---
GABRG1	2565	broad.mit.edu	37	4	46099285	46099285	+	Silent	SNP	T	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:46099285T>G	uc003gxb.2	-	2	338	c.186A>C	c.(184-186)GGA>GGC	p.G62G		NM_173536	NP_775807	Q8N1C3	GBRG1_HUMAN	gamma-aminobutyric acid A receptor, gamma 1	62	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity			ovary(2)	2				Lung(65;0.106)|LUSC - Lung squamous cell carcinoma(721;0.23)														---	---	---	---
LRRC66	339977	broad.mit.edu	37	4	52861644	52861644	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:52861644G>A	uc003gzi.2	-	4	1557	c.1544C>T	c.(1543-1545)GCC>GTC	p.A515V		NM_001024611	NP_001019782	Q68CR7	LRC66_HUMAN	leucine rich repeat containing 66	515						integral to membrane				ovary(1)|central_nervous_system(1)|skin(1)	3																		---	---	---	---
RASL11B	65997	broad.mit.edu	37	4	53728803	53728803	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:53728803C>T	uc003gzt.2	+	1	309	c.129C>T	c.(127-129)GGC>GGT	p.G43G		NM_023940	NP_076429	Q9BPW5	RSLBB_HUMAN	RAS-like family 11 member B	43	Small GTPase-like.|GTP (By similarity).				small GTPase mediated signal transduction	membrane	GTP binding|GTPase activity			central_nervous_system(1)	1			LUSC - Lung squamous cell carcinoma(32;0.0302)															---	---	---	---
SRP72	6731	broad.mit.edu	37	4	57366808	57366808	+	Missense_Mutation	SNP	G	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:57366808G>T	uc003hbv.2	+	18	1825	c.1785G>T	c.(1783-1785)AAG>AAT	p.K595N	SRP72_uc010ihe.2_Missense_Mutation_p.K534N|SRP72_uc003hbx.2_RNA	NM_006947	NP_008878	O76094	SRP72_HUMAN	signal recognition particle 72kDa	595					response to drug|SRP-dependent cotranslational protein targeting to membrane	cytosol|nucleolus|plasma membrane|signal recognition particle, endoplasmic reticulum targeting	7S RNA binding|signal recognition particle binding			ovary(1)	1	Glioma(25;0.08)|all_neural(26;0.101)																	---	---	---	---
UBA6	55236	broad.mit.edu	37	4	68547904	68547904	+	Silent	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:68547904T>C	uc003hdg.3	-	3	214	c.162A>G	c.(160-162)ACA>ACG	p.T54T	UBA6_uc003hdi.2_Silent_p.T54T|UBA6_uc003hdj.2_Silent_p.T54T	NM_018227	NP_060697	A0AVT1	UBA6_HUMAN	ubiquitin-activating enzyme E1-like 2	54					protein ubiquitination|ubiquitin-dependent protein catabolic process	cytoplasm	ATP binding|FAT10 activating enzyme activity|ligase activity|protein binding				0																		---	---	---	---
HNRPDL	9987	broad.mit.edu	37	4	83349475	83349475	+	Nonsense_Mutation	SNP	C	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:83349475C>A	uc003hmr.2	-	2	1103	c.568G>T	c.(568-570)GGA>TGA	p.G190*	ENOPH1_uc003hmv.2_5'Flank|ENOPH1_uc003hmw.2_5'Flank|ENOPH1_uc003hmx.2_5'Flank|HNRPDL_uc003hmq.2_RNA|HNRPDL_uc003hms.2_RNA|HNRPDL_uc003hmt.2_Nonsense_Mutation_p.G190*	NM_031372	NP_112740	O14979	HNRDL_HUMAN	heterogeneous nuclear ribonucleoprotein D-like	190	RRM 1.				regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	cytoplasm|heterogeneous nuclear ribonucleoprotein complex	double-stranded DNA binding|nucleotide binding|poly(A) RNA binding|protein binding|single-stranded DNA binding			skin(1)	1		Hepatocellular(203;0.114)																---	---	---	---
UNC5C	8633	broad.mit.edu	37	4	96163632	96163632	+	Silent	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:96163632G>A	uc003htp.1	-	7	1210	c.1056C>T	c.(1054-1056)TGC>TGT	p.C352C	UNC5C_uc010ilc.1_Silent_p.C352C|UNC5C_uc003htq.2_Silent_p.C352C	NM_003728	NP_003719	O95185	UNC5C_HUMAN	unc5C precursor	352	Extracellular (Potential).|TSP type-1 2.				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)														---	---	---	---
C4orf37	285555	broad.mit.edu	37	4	99049746	99049746	+	Intron	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:99049746G>A	uc003htt.1	-							NM_174952	NP_777612			hypothetical protein LOC285555												0				OV - Ovarian serous cystadenocarcinoma(123;2.27e-08)														---	---	---	---
C4orf17	84103	broad.mit.edu	37	4	100451003	100451003	+	Missense_Mutation	SNP	C	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:100451003C>A	uc003huw.2	+	5	757	c.434C>A	c.(433-435)CCT>CAT	p.P145H	C4orf17_uc003hux.2_RNA	NM_032149	NP_115525	Q53FE4	CD017_HUMAN	hypothetical protein LOC84103	145											0				OV - Ovarian serous cystadenocarcinoma(123;2.08e-08)														---	---	---	---
PPP3CA	5530	broad.mit.edu	37	4	101947132	101947132	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:101947132G>A	uc011cen.1	-	14	2131	c.1456C>T	c.(1456-1458)CGC>TGC	p.R486C	PPP3CA_uc003hvu.2_Missense_Mutation_p.R476C|PPP3CA_uc010ilj.2_Missense_Mutation_p.R434C|PPP3CA_uc003hvt.2_Missense_Mutation_p.R463C|PPP3CA_uc003hvs.2_Missense_Mutation_p.R419C|PPP3CA_uc010ilk.2_Missense_Mutation_p.R254C	NM_000944	NP_000935	Q08209	PP2BA_HUMAN	protein phosphatase 3, catalytic subunit, alpha	486	Inhibitory domain.				protein dephosphorylation	calcineurin complex|cytosol|nucleus	calcium ion binding|calmodulin binding			ovary(1)|skin(1)	2				OV - Ovarian serous cystadenocarcinoma(123;6.79e-08)														---	---	---	---
SEC24B	10427	broad.mit.edu	37	4	110437688	110437688	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:110437688G>A	uc003hzk.2	+	11	2073	c.2018G>A	c.(2017-2019)CGT>CAT	p.R673H	SEC24B_uc003hzl.2_Missense_Mutation_p.R638H|SEC24B_uc011cfp.1_Missense_Mutation_p.R703H|SEC24B_uc011cfq.1_Missense_Mutation_p.R672H|SEC24B_uc011cfr.1_Missense_Mutation_p.R637H	NM_006323	NP_006314	O95487	SC24B_HUMAN	SEC24 (S. cerevisiae) homolog B isoform a	673					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|transporter activity|zinc ion binding			ovary(2)|large_intestine(1)	3		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;3.03e-05)														---	---	---	---
ANKRD50	57182	broad.mit.edu	37	4	125591592	125591592	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:125591592C>T	uc003ifg.3	-	3	3106	c.2840G>A	c.(2839-2841)CGG>CAG	p.R947Q	ANKRD50_uc011cgo.1_Missense_Mutation_p.R768Q|ANKRD50_uc010inw.2_Missense_Mutation_p.R947Q	NM_020337	NP_065070	Q9ULJ7	ANR50_HUMAN	ankyrin repeat domain 50	947	ANK 15.									central_nervous_system(1)	1																		---	---	---	---
FAT4	79633	broad.mit.edu	37	4	126239182	126239182	+	Missense_Mutation	SNP	G	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:126239182G>T	uc003ifj.3	+	1	1616	c.1616G>T	c.(1615-1617)GGC>GTC	p.G539V		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	539	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18																OREG0016317	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
FAT4	79633	broad.mit.edu	37	4	126328090	126328090	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:126328090G>A	uc003ifj.3	+	3	5363	c.5363G>A	c.(5362-5364)CGC>CAC	p.R1788H	FAT4_uc011cgp.1_Missense_Mutation_p.R86H	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	1788	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																		---	---	---	---
POU4F2	5458	broad.mit.edu	37	4	147561490	147561490	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:147561490G>A	uc003ikv.2	+	2	1008	c.760G>A	c.(760-762)GAC>AAC	p.D254N		NM_004575	NP_004566	Q12837	PO4F2_HUMAN	Brn3b POU domain transcription factor	254	POU-specific.				estrogen receptor signaling pathway|MAPKKK cascade|negative regulation of transcription from RNA polymerase II promoter	nuclear speck	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			breast(1)	1	all_hematologic(180;0.151)																	---	---	---	---
GLRB	2743	broad.mit.edu	37	4	158065036	158065036	+	Missense_Mutation	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:158065036A>G	uc003ipj.2	+	8	1031	c.829A>G	c.(829-831)ACT>GCT	p.T277A		NM_000824	NP_000815	P48167	GLRB_HUMAN	glycine receptor, beta isoform A precursor	277	Helical; (Probable).				nervous system development|neuropeptide signaling pathway|startle response	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	extracellular-glycine-gated chloride channel activity|protein binding|receptor activity			skin(2)	2	all_hematologic(180;0.24)	Renal(120;0.0458)		KIRC - Kidney renal clear cell carcinoma(143;0.0564)|COAD - Colon adenocarcinoma(41;0.0642)|Kidney(143;0.0707)	Glycine(DB00145)													---	---	---	---
FNIP2	57600	broad.mit.edu	37	4	159782755	159782755	+	Intron	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:159782755C>T	uc003iqe.3	+							NM_020840	NP_065891			folliculin interacting protein 2						DNA damage response, signal transduction resulting in induction of apoptosis|protein phosphorylation|regulation of protein phosphorylation	cytoplasm	protein binding				0	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.00936)														---	---	---	---
MFAP3L	9848	broad.mit.edu	37	4	170912625	170912625	+	Silent	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:170912625T>C	uc003isp.3	-	3	1312	c.1134A>G	c.(1132-1134)GTA>GTG	p.V378V	MFAP3L_uc003isn.3_Silent_p.V275V	NM_021647	NP_067679	O75121	MFA3L_HUMAN	microfibrillar-associated protein 3-like isoform	378	Cytoplasmic (Potential).					integral to membrane|plasma membrane				ovary(1)	1		Prostate(90;0.00601)|Renal(120;0.0183)|all_neural(102;0.122)|Melanoma(52;0.17)		GBM - Glioblastoma multiforme(119;0.0201)|LUSC - Lung squamous cell carcinoma(193;0.116)														---	---	---	---
VEGFC	7424	broad.mit.edu	37	4	177608669	177608669	+	Missense_Mutation	SNP	T	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:177608669T>G	uc003ius.1	-	6	1247	c.817A>C	c.(817-819)ACA>CCA	p.T273P		NM_005429	NP_005420	P49767	VEGFC_HUMAN	vascular endothelial growth factor C	273					angiogenesis|induction of positive chemotaxis|platelet activation|platelet degranulation|positive regulation of cell division|positive regulation of mast cell chemotaxis|substrate-dependent cell migration|vascular endothelial growth factor receptor signaling pathway	membrane|platelet alpha granule lumen	chemoattractant activity|growth factor activity			lung(5)	5		Breast(14;0.000223)|Renal(120;0.00988)|Prostate(90;0.00996)|Melanoma(52;0.0101)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;1.59e-18)|Epithelial(43;3.68e-16)|OV - Ovarian serous cystadenocarcinoma(60;8.52e-09)|GBM - Glioblastoma multiforme(59;0.000546)|STAD - Stomach adenocarcinoma(60;0.00308)|Colorectal(24;0.025)|COAD - Colon adenocarcinoma(29;0.0359)|LUSC - Lung squamous cell carcinoma(193;0.0397)														---	---	---	---
LRP2BP	55805	broad.mit.edu	37	4	186288327	186288327	+	3'UTR	SNP	T	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:186288327T>G	uc003ixj.1	-	8					SNX25_uc003ixi.2_Intron|LRP2BP_uc003ixk.1_3'UTR|LRP2BP_uc011ckr.1_3'UTR	NM_018409	NP_060879			LRP2 binding protein							cytoplasm	protein binding				0		all_lung(41;1.3e-11)|Lung NSC(41;2.25e-11)|Melanoma(20;0.00109)|Colorectal(36;0.0215)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_hematologic(60;0.0749)		all cancers(43;2.14e-25)|Epithelial(43;1.55e-22)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-11)|BRCA - Breast invasive adenocarcinoma(30;8.01e-05)|GBM - Glioblastoma multiforme(59;0.000132)|STAD - Stomach adenocarcinoma(60;0.000766)|Colorectal(24;0.00116)|LUSC - Lung squamous cell carcinoma(40;0.00904)|COAD - Colon adenocarcinoma(29;0.0101)|READ - Rectum adenocarcinoma(43;0.161)														---	---	---	---
SORBS2	8470	broad.mit.edu	37	4	186545527	186545527	+	Silent	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:186545527T>C	uc003iyl.2	-	13	1902	c.1044A>G	c.(1042-1044)TCA>TCG	p.S348S	SORBS2_uc003iyh.2_Intron|SORBS2_uc011ckw.1_Intron|SORBS2_uc003iyi.2_Intron|SORBS2_uc011ckx.1_Intron|SORBS2_uc003iyk.2_Intron|SORBS2_uc003iym.2_Silent_p.S448S|SORBS2_uc003iyn.1_Intron|SORBS2_uc011cku.1_Intron|SORBS2_uc011ckv.1_Silent_p.S252S|SORBS2_uc003iyd.2_Intron|SORBS2_uc003iye.2_Intron|SORBS2_uc003iya.2_Intron|SORBS2_uc003iyb.2_Intron|SORBS2_uc003iyc.2_Intron|SORBS2_uc003iyg.2_Silent_p.S462S|SORBS2_uc003iyf.2_Intron|SORBS2_uc003iyo.1_Intron	NM_021069	NP_066547	O94875	SRBS2_HUMAN	sorbin and SH3 domain containing 2 isoform 2	348						actin cytoskeleton|nucleus|perinuclear region of cytoplasm|Z disc	cytoskeletal adaptor activity|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(1)	1		all_cancers(14;4.27e-52)|all_epithelial(14;6.58e-39)|all_lung(41;1.42e-13)|Lung NSC(41;3.73e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.00692)|Hepatocellular(41;0.00826)|Renal(120;0.00994)|Prostate(90;0.0101)|all_hematologic(60;0.0174)|all_neural(102;0.244)		OV - Ovarian serous cystadenocarcinoma(60;1.54e-09)|BRCA - Breast invasive adenocarcinoma(30;0.000232)|GBM - Glioblastoma multiforme(59;0.000385)|STAD - Stomach adenocarcinoma(60;0.00109)|LUSC - Lung squamous cell carcinoma(40;0.0205)														---	---	---	---
LPCAT1	79888	broad.mit.edu	37	5	1501591	1501591	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:1501591G>A	uc003jcm.2	-	2	380	c.263C>T	c.(262-264)CCG>CTG	p.P88L		NM_024830	NP_079106	Q8NF37	PCAT1_HUMAN	lysophosphatidylcholine acyltransferase 1	88	Lumenal (Potential).				phospholipid biosynthetic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	1-acylglycerophosphocholine O-acyltransferase activity|1-alkylglycerophosphocholine O-acetyltransferase activity|calcium ion binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(19;0.0274)|all cancers(22;0.0534)	GBM - Glioblastoma multiforme(108;0.156)														---	---	---	---
KIAA0947	23379	broad.mit.edu	37	5	5436579	5436579	+	Missense_Mutation	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:5436579A>G	uc003jdm.3	+	2	355	c.133A>G	c.(133-135)ATC>GTC	p.I45V		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	45	Potential.									ovary(1)|central_nervous_system(1)	2																		---	---	---	---
ROPN1L	83853	broad.mit.edu	37	5	10442330	10442330	+	Silent	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:10442330G>A	uc003jex.3	+	1	322	c.51G>A	c.(49-51)CCG>CCA	p.P17P		NM_031916	NP_114122	Q96C74	ROP1L_HUMAN	ropporin 1-like	17	RIIa.				ciliary or flagellar motility|signal transduction	cytoplasm|motile cilium	cAMP-dependent protein kinase regulator activity|protein binding			ovary(1)	1																		---	---	---	---
MYO10	4651	broad.mit.edu	37	5	16694521	16694521	+	Silent	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:16694521G>A	uc003jft.3	-	27	4227	c.3759C>T	c.(3757-3759)AGC>AGT	p.S1253S	MYO10_uc011cnc.1_Silent_p.S132S|MYO10_uc011cnd.1_Silent_p.S610S|MYO10_uc011cne.1_Silent_p.S610S|MYO10_uc010itx.2_Silent_p.S876S	NM_012334	NP_036466	Q9HD67	MYO10_HUMAN	myosin X	1253	PH 1.				axon guidance|signal transduction	myosin complex	actin binding|ATP binding|motor activity			ovary(2)|pancreas(1)	3																		---	---	---	---
RICTOR	253260	broad.mit.edu	37	5	38945599	38945599	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:38945599G>A	uc003jlp.2	-	34	4651	c.4627C>T	c.(4627-4629)CAT>TAT	p.H1543Y	RICTOR_uc003jlo.2_Missense_Mutation_p.H1567Y|RICTOR_uc010ivf.2_Missense_Mutation_p.H1220Y	NM_152756	NP_689969	Q6R327	RICTR_HUMAN	rapamycin-insensitive companion of mTOR	1543					actin cytoskeleton reorganization|embryo development|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of TOR signaling cascade|regulation of protein kinase B signaling cascade|T cell costimulation	cytosol|TORC2 complex	protein binding			ovary(3)|lung(3)|skin(2)|kidney(1)|central_nervous_system(1)	10	all_lung(31;0.000396)																	---	---	---	---
NLN	57486	broad.mit.edu	37	5	65081624	65081624	+	Missense_Mutation	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:65081624A>G	uc003juf.2	+	7	961	c.845A>G	c.(844-846)CAG>CGG	p.Q282R	NLN_uc003jue.2_Missense_Mutation_p.Q282R|NLN_uc003jug.2_Missense_Mutation_p.Q111R|NLN_uc010iww.2_5'UTR	NM_020726	NP_065777	Q9BYT8	NEUL_HUMAN	neurolysin precursor	282					proteolysis	mitochondrial intermembrane space	metal ion binding|metalloendopeptidase activity			central_nervous_system(1)	1		Lung NSC(167;7.21e-05)|Prostate(74;0.0174)|Ovarian(174;0.186)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0743)|Lung(70;0.00616)														---	---	---	---
MAST4	375449	broad.mit.edu	37	5	66084576	66084576	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:66084576G>A	uc003jur.3	+	3	904	c.596G>A	c.(595-597)CGC>CAC	p.R199H	MAST4_uc010iwz.2_Missense_Mutation_p.R199H	NM_198828	NP_942123	O15021	MAST4_HUMAN	microtubule associated serine/threonine kinase	199						cytoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(6)|ovary(2)|kidney(2)|breast(2)|central_nervous_system(1)	13		Lung NSC(167;8.56e-06)|Prostate(74;0.00637)|Ovarian(174;0.0563)|Breast(144;0.0586)|Colorectal(97;0.245)		Lung(70;0.011)														---	---	---	---
MAP1B	4131	broad.mit.edu	37	5	71411594	71411594	+	Missense_Mutation	SNP	G	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:71411594G>T	uc003kbw.3	+	2	495	c.254G>T	c.(253-255)CGA>CTA	p.R85L	MAP1B_uc010iyw.1_Missense_Mutation_p.R85L|MAP1B_uc010iyx.1_5'UTR	NM_005909	NP_005900	P46821	MAP1B_HUMAN	microtubule-associated protein 1B	85						microtubule|microtubule associated complex	structural molecule activity			large_intestine(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5		Lung NSC(167;0.00202)|Ovarian(174;0.0175)|Prostate(461;0.142)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;7.99e-54)														---	---	---	---
TMEM174	134288	broad.mit.edu	37	5	72469122	72469122	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:72469122G>A	uc010izc.2	+	1	100	c.52G>A	c.(52-54)GTC>ATC	p.V18I		NM_153217	NP_694949	Q8WUU8	TM174_HUMAN	transmembrane protein 174	18						integral to membrane				ovary(1)	1		Lung NSC(167;0.0378)|Ovarian(174;0.0908)|Prostate(461;0.165)		OV - Ovarian serous cystadenocarcinoma(47;1.46e-54)														---	---	---	---
MSH3	4437	broad.mit.edu	37	5	80037279	80037279	+	Intron	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:80037279A>G	uc003kgz.2	+							NM_002439	NP_002430			mutS homolog 3						maintenance of DNA repeat elements|meiotic mismatch repair|negative regulation of DNA recombination|positive regulation of helicase activity|reciprocal meiotic recombination|somatic recombination of immunoglobulin gene segments	MutSbeta complex|nuclear chromosome	ATP binding|DNA-dependent ATPase activity|double-strand/single-strand DNA junction binding|enzyme binding|loop DNA binding|Y-form DNA binding			lung(2)|ovary(1)|breast(1)	4		Lung NSC(167;0.00479)|all_lung(232;0.00507)|Ovarian(174;0.0261)|Breast(144;0.244)		OV - Ovarian serous cystadenocarcinoma(54;2.38e-45)|Epithelial(54;1.58e-38)|all cancers(79;4.93e-33)									MMR					---	---	---	---
VCAN	1462	broad.mit.edu	37	5	82789716	82789716	+	Silent	SNP	T	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:82789716T>G	uc003kii.3	+	5	1070	c.714T>G	c.(712-714)ACT>ACG	p.T238T	VCAN_uc003kij.3_Silent_p.T238T|VCAN_uc010jau.2_Silent_p.T238T|VCAN_uc003kik.3_Silent_p.T238T|VCAN_uc003kih.3_Silent_p.T238T	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	238	Link 1.				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)														---	---	---	---
VCAN	1462	broad.mit.edu	37	5	82816658	82816658	+	Missense_Mutation	SNP	A	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:82816658A>C	uc003kii.3	+	7	2889	c.2533A>C	c.(2533-2535)AGT>CGT	p.S845R	VCAN_uc003kij.3_Intron|VCAN_uc010jau.2_Missense_Mutation_p.S845R|VCAN_uc003kik.3_Intron	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	845	GAG-alpha (glucosaminoglycan attachment domain).				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)														---	---	---	---
EDIL3	10085	broad.mit.edu	37	5	83356138	83356138	+	Missense_Mutation	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:83356138T>C	uc003kio.1	-	9	1537	c.1118A>G	c.(1117-1119)GAC>GGC	p.D373G	EDIL3_uc003kip.1_Missense_Mutation_p.D363G|EDIL3_uc011ctt.1_Missense_Mutation_p.D150G	NM_005711	NP_005702	O43854	EDIL3_HUMAN	EGF-like repeats and discoidin I-like	373	F5/8 type C 2.				cell adhesion|multicellular organismal development	extracellular region	calcium ion binding|integrin binding			skin(2)	2		Lung NSC(167;0.000121)|all_lung(232;0.000154)|Ovarian(174;0.0425)		OV - Ovarian serous cystadenocarcinoma(54;4.3e-40)|Epithelial(54;4.79e-32)|all cancers(79;1.54e-26)														---	---	---	---
EDIL3	10085	broad.mit.edu	37	5	83360536	83360536	+	Missense_Mutation	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:83360536A>G	uc003kio.1	-	8	1354	c.935T>C	c.(934-936)CTT>CCT	p.L312P	EDIL3_uc003kip.1_Missense_Mutation_p.L302P|EDIL3_uc011ctt.1_Missense_Mutation_p.L89P	NM_005711	NP_005702	O43854	EDIL3_HUMAN	EGF-like repeats and discoidin I-like	312	F5/8 type C 1.				cell adhesion|multicellular organismal development	extracellular region	calcium ion binding|integrin binding			skin(2)	2		Lung NSC(167;0.000121)|all_lung(232;0.000154)|Ovarian(174;0.0425)		OV - Ovarian serous cystadenocarcinoma(54;4.3e-40)|Epithelial(54;4.79e-32)|all cancers(79;1.54e-26)														---	---	---	---
GPR98	84059	broad.mit.edu	37	5	89938835	89938835	+	Missense_Mutation	SNP	G	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:89938835G>T	uc003kju.2	+	13	2626	c.2530G>T	c.(2530-2532)GCA>TCA	p.A844S	GPR98_uc003kjt.2_5'UTR	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	844	Extracellular (Potential).|Calx-beta 6.				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)														---	---	---	---
FAM81B	153643	broad.mit.edu	37	5	94731879	94731879	+	Missense_Mutation	SNP	A	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:94731879A>T	uc003kla.1	+	3	339	c.293A>T	c.(292-294)AAG>ATG	p.K98M	FAM81B_uc010jbe.1_Translation_Start_Site	NM_152548	NP_689761	Q96LP2	FA81B_HUMAN	hypothetical protein LOC153643	98										ovary(1)|skin(1)	2		all_cancers(142;1.1e-06)|all_epithelial(76;1.48e-09)|all_lung(232;0.000696)|Lung NSC(167;0.000947)|Ovarian(225;0.00473)		all cancers(79;1.04e-16)														---	---	---	---
APC	324	broad.mit.edu	37	5	112137021	112137021	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:112137021C>T	uc010jby.2	+	8	1155	c.775C>T	c.(775-777)CGG>TGG	p.R259W	APC_uc011cvt.1_Missense_Mutation_p.R241W|APC_uc003kpz.3_Missense_Mutation_p.R259W|APC_uc003kpy.3_Missense_Mutation_p.R259W|APC_uc010jbz.2_5'UTR	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	259	Leu-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			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)			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)			---	---	---	---
FBN2	2201	broad.mit.edu	37	5	127702134	127702134	+	Intron	SNP	A	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:127702134A>T	uc003kuu.2	-						FBN2_uc003kuv.2_Intron	NM_001999	NP_001990			fibrillin 2 precursor						bone trabecula formation|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	microfibril	calcium ion binding|extracellular matrix structural constituent			ovary(8)|large_intestine(4)|pancreas(1)|kidney(1)|skin(1)	15		all_cancers(142;0.0216)|Prostate(80;0.0551)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0821)|Epithelial(69;0.146)														---	---	---	---
PDLIM4	8572	broad.mit.edu	37	5	131607852	131607852	+	Missense_Mutation	SNP	C	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:131607852C>A	uc003kwn.2	+	7	1000	c.923C>A	c.(922-924)GCG>GAG	p.A308E	uc003kwm.3_Intron|PDLIM4_uc003kwp.2_3'UTR|PDLIM4_uc003kwo.2_Missense_Mutation_p.A416E	NM_003687	NP_003678	P50479	PDLI4_HUMAN	PDZ and LIM domain 4 isoform 1	308	LIM zinc-binding.						protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)															---	---	---	---
PHF15	23338	broad.mit.edu	37	5	133897939	133897939	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:133897939C>T	uc003kzo.1	+	7	913	c.734C>T	c.(733-735)ACG>ATG	p.T245M	PHF15_uc011cxt.1_Missense_Mutation_p.T245M|PHF15_uc003kzk.2_Missense_Mutation_p.T261M|PHF15_uc003kzl.2_Missense_Mutation_p.T245M|PHF15_uc003kzm.2_Missense_Mutation_p.T245M|PHF15_uc003kzn.2_Missense_Mutation_p.T245M|PHF15_uc003kzp.2_5'Flank	NM_015288	NP_056103	Q9NQC1	JADE2_HUMAN	PHD finger protein 15	245	PHD-type.				histone H3 acetylation|histone H4-K12 acetylation|histone H4-K5 acetylation|histone H4-K8 acetylation	histone acetyltransferase complex	zinc ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)															---	---	---	---
PHF15	23338	broad.mit.edu	37	5	133914284	133914284	+	Nonsense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:133914284G>A	uc003kzo.1	+	11	1829	c.1650G>A	c.(1648-1650)TGG>TGA	p.W550*	PHF15_uc011cxt.1_Nonsense_Mutation_p.W594*|PHF15_uc003kzk.2_Nonsense_Mutation_p.W610*|PHF15_uc003kzl.2_3'UTR|PHF15_uc003kzm.2_Nonsense_Mutation_p.W551*|PHF15_uc003kzn.2_3'UTR	NM_015288	NP_056103	Q9NQC1	JADE2_HUMAN	PHD finger protein 15	550					histone H3 acetylation|histone H4-K12 acetylation|histone H4-K5 acetylation|histone H4-K8 acetylation	histone acetyltransferase complex	zinc ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)															---	---	---	---
SIL1	64374	broad.mit.edu	37	5	138282955	138282955	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:138282955G>A	uc003ldm.2	-	9	1254	c.1237C>T	c.(1237-1239)CGT>TGT	p.R413C	SIL1_uc003ldn.2_Missense_Mutation_p.R412C|SIL1_uc003ldo.2_Missense_Mutation_p.R413C|SIL1_uc003ldp.2_Missense_Mutation_p.R413C	NM_022464	NP_071909	Q9H173	SIL1_HUMAN	SIL1 protein precursor	413					intracellular protein transport|protein folding|transmembrane transport	endoplasmic reticulum lumen	unfolded protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)											Marinesco-Sj_gren_syndrome				---	---	---	---
PCDHAC1	56135	broad.mit.edu	37	5	140308103	140308103	+	Missense_Mutation	SNP	C	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140308103C>A	uc003lih.2	+	1	1802	c.1626C>A	c.(1624-1626)AAC>AAA	p.N542K	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_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Intron|PCDHA13_uc003lif.2_Intron|PCDHAC1_uc003lig.1_Missense_Mutation_p.N542K	NM_018898	NP_061721	Q9H158	PCDC1_HUMAN	protocadherin alpha subfamily C, 1 isoform 1	542	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)															---	---	---	---
PCDHB7	56129	broad.mit.edu	37	5	140554245	140554245	+	Missense_Mutation	SNP	C	T	T	rs142959046		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140554245C>T	uc003lit.2	+	1	2003	c.1829C>T	c.(1828-1830)ACG>ATG	p.T610M		NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	610	Cadherin 6.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)															---	---	---	---
PCDHB7	56129	broad.mit.edu	37	5	140554319	140554319	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140554319G>A	uc003lit.2	+	1	2077	c.1903G>A	c.(1903-1905)GCA>ACA	p.A635T		NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	635	Cadherin 6.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)															---	---	---	---
PCDHB7	56129	broad.mit.edu	37	5	140554739	140554739	+	Missense_Mutation	SNP	C	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140554739C>A	uc003lit.2	+	1	2497	c.2323C>A	c.(2323-2325)CAG>AAG	p.Q775K	PCDHB8_uc011dai.1_5'Flank	NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	775	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)															---	---	---	---
PCDHB16	57717	broad.mit.edu	37	5	140562469	140562469	+	Missense_Mutation	SNP	A	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140562469A>C	uc003liv.2	+	1	1490	c.335A>C	c.(334-336)AAC>ACC	p.N112T	PCDHB16_uc010jfw.1_Intron	NM_020957	NP_066008	Q9NRJ7	PCDBG_HUMAN	protocadherin beta 16 precursor	112	Extracellular (Potential).|Cadherin 1.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)															---	---	---	---
DPYSL3	1809	broad.mit.edu	37	5	146775259	146775259	+	Missense_Mutation	SNP	C	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:146775259C>A	uc003lon.1	-	13	1597	c.1487G>T	c.(1486-1488)AGG>ATG	p.R496M	DPYSL3_uc003loo.2_Missense_Mutation_p.R610M	NM_001387	NP_001378	Q14195	DPYL3_HUMAN	dihydropyrimidinase-like 3	496					axon guidance|pyrimidine base catabolic process|signal transduction	cytosol|growth cone	dihydropyrimidinase activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)															---	---	---	---
PDGFRB	5159	broad.mit.edu	37	5	149501535	149501535	+	Missense_Mutation	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:149501535T>C	uc003lro.2	-	16	2721	c.2252A>G	c.(2251-2253)TAT>TGT	p.Y751C	PDGFRB_uc010jhd.2_Missense_Mutation_p.Y590C	NM_002609	NP_002600	P09619	PGFRB_HUMAN	platelet-derived growth factor receptor beta	751	Cytoplasmic (Potential).|Protein kinase.			Y->F: No effect on GRB10-binding.	aorta morphogenesis|cardiac myofibril assembly|hemopoiesis|metanephric glomerular capillary formation|metanephric glomerular mesangial cell proliferation involved in metanephros development|peptidyl-tyrosine phosphorylation|positive regulation of calcium ion import|positive regulation of chemotaxis|positive regulation of DNA biosynthetic process|positive regulation of ERK1 and ERK2 cascade|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 cascade|positive regulation of reactive oxygen species metabolic process|positive regulation of smooth muscle cell migration|positive regulation of smooth muscle cell proliferation|protein autophosphorylation|regulation of actin cytoskeleton organization|retina vasculature development in camera-type eye|smooth muscle cell chemotaxis	apical plasma membrane|cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet activating factor receptor activity|platelet-derived growth factor beta-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|vascular endothelial growth factor receptor activity			central_nervous_system(4)|lung(4)|breast(3)|stomach(2)|prostate(2)|large_intestine(1)|ovary(1)	17		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		Becaplermin(DB00102)|Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)			T	ETV6|TRIP11|HIP1|RAB5EP|H4|NIN|HCMOGT-1|PDE4DIP	MPD|AML|CMML|CML								---	---	---	---
MED7	9443	broad.mit.edu	37	5	156566145	156566145	+	Missense_Mutation	SNP	G	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:156566145G>T	uc010jik.2	-	2	690	c.298C>A	c.(298-300)CCT>ACT	p.P100T	MED7_uc003lwm.3_Missense_Mutation_p.P100T	NM_001100816	NP_001094286	O43513	MED7_HUMAN	mediator complex subunit 7	100					regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex|transcription factor complex	protein binding|transcription coactivator activity				0	Renal(175;0.00212)	Medulloblastoma(196;0.0354)|all_neural(177;0.0999)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)															---	---	---	---
GABRA6	2559	broad.mit.edu	37	5	161113276	161113276	+	Missense_Mutation	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:161113276T>C	uc003lyu.2	+	2	417	c.79T>C	c.(79-81)TTC>CTC	p.F27L		NM_000811	NP_000802	Q16445	GBRA6_HUMAN	gamma-aminobutyric acid A receptor, alpha 6	27	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity			ovary(7)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Renal(175;0.00259)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)		Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)										TCGA Ovarian(5;0.080)			---	---	---	---
FBLL1	345630	broad.mit.edu	37	5	167957475	167957475	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:167957475C>T	uc011dep.1	+	1	894	c.681C>T	c.(679-681)GTC>GTT	p.V227V		NR_024356				RecName: Full=rRNA/tRNA 2'-O-methyltransferase fibrillarin-like protein 1;          EC=2.1.1.-;												0																		---	---	---	---
DOCK2	1794	broad.mit.edu	37	5	169482374	169482374	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:169482374C>T	uc003maf.2	+	42	4359	c.4279C>T	c.(4279-4281)CCT>TCT	p.P1427S	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Missense_Mutation_p.P919S|DOCK2_uc003mah.2_5'Flank	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	1427	DHR-2.|Interaction with CRKL.				actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)															---	---	---	---
FBXW11	23291	broad.mit.edu	37	5	171299942	171299942	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:171299942C>T	uc003mbm.1	-	9	1582	c.1211G>A	c.(1210-1212)CGG>CAG	p.R404Q	FBXW11_uc011dey.1_Missense_Mutation_p.R372Q|FBXW11_uc003mbl.1_Missense_Mutation_p.R391Q|FBXW11_uc003mbn.1_Missense_Mutation_p.R370Q	NM_012300	NP_036432	Q9UKB1	FBW1B_HUMAN	F-box and WD repeat domain containing 11 isoform	404	WD 5.				cell cycle|negative regulation of transcription, DNA-dependent|positive regulation of circadian rhythm|positive regulation of proteolysis|positive regulation of transcription, DNA-dependent|protein dephosphorylation|protein destabilization|protein polyubiquitination|rhythmic process|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway	centrosome|cytosol|nucleus|SCF ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			ovary(1)|breast(1)	2	Renal(175;0.000159)|Lung NSC(126;0.00384)|all_lung(126;0.00659)	Medulloblastoma(196;0.00853)|all_neural(177;0.026)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)															---	---	---	---
ARL10	285598	broad.mit.edu	37	5	175795967	175795967	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:175795967C>T	uc003mec.1	+	3	608	c.543C>T	c.(541-543)GTC>GTT	p.V181V	ARL10_uc003meb.2_Silent_p.V181V	NM_173664	NP_775935	Q8N8L6	ARL10_HUMAN	ADP-ribosylation factor-like 10	181							GTP binding			ovary(1)	1	all_cancers(89;0.0064)|Renal(175;0.000269)|Lung NSC(126;0.0105)|all_lung(126;0.0168)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)|all_hematologic(541;0.214)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	Kidney(146;0.0965)														---	---	---	---
DDX41	51428	broad.mit.edu	37	5	176939616	176939616	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:176939616G>A	uc003mho.2	-	14	1451	c.1430C>T	c.(1429-1431)GCA>GTA	p.A477V	DOK3_uc003mhi.3_5'Flank|DOK3_uc003mhj.3_5'Flank|DOK3_uc003mhk.2_5'Flank|DOK3_uc003mhl.2_5'Flank|DDX41_uc003mhm.2_Missense_Mutation_p.A257V|DDX41_uc003mhn.2_Missense_Mutation_p.A346V|DDX41_uc003mhp.2_Missense_Mutation_p.A346V	NM_016222	NP_057306	Q9UJV9	DDX41_HUMAN	DEAD-box protein abstrakt	477	Helicase C-terminal.				apoptosis|multicellular organismal development	catalytic step 2 spliceosome	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding|zinc ion binding				0	all_cancers(89;0.00033)|Renal(175;0.000269)|Lung NSC(126;0.00161)|all_lung(126;0.00286)	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;0.191)															---	---	---	---
ZNF354A	6940	broad.mit.edu	37	5	178152390	178152390	+	Silent	SNP	G	A	A	rs113512483	byFrequency	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:178152390G>A	uc003mjj.2	-	4	441	c.243C>T	c.(241-243)GGC>GGT	p.G81G		NM_005649	NP_005640	O60765	Z354A_HUMAN	zinc finger protein 354A	81	KRAB.				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)														---	---	---	---
BMP6	654	broad.mit.edu	37	6	7727739	7727739	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:7727739G>A	uc003mxu.3	+	1	729	c.551G>A	c.(550-552)CGC>CAC	p.R184H		NM_001718	NP_001709	P22004	BMP6_HUMAN	bone morphogenetic protein 6 preproprotein	184					BMP signaling pathway|cartilage development|growth|immune response|positive regulation of aldosterone biosynthetic process|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription from RNA polymerase II promoter|SMAD protein signal transduction	extracellular space	BMP receptor binding|cytokine activity|growth factor activity|protein heterodimerization activity			large_intestine(2)|ovary(1)	3	Ovarian(93;0.0721)																	---	---	---	---
TMEM14B	81853	broad.mit.edu	37	6	10751370	10751370	+	Silent	SNP	C	T	T	rs146042312		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:10751370C>T	uc003mzk.3	+	4	269	c.105C>T	c.(103-105)AGC>AGT	p.S35S	SYCP2L_uc011dim.1_Intron|TMEM14B_uc010jor.2_Intron|TMEM14B_uc010jos.1_Intron	NM_030969	NP_112231	Q9NUH8	TM14B_HUMAN	transmembrane protein 14B isoform a	35	Helical; (Potential).					integral to membrane					0	Ovarian(93;0.107)|Breast(50;0.137)	all_hematologic(90;0.135)																---	---	---	---
NEDD9	4739	broad.mit.edu	37	6	11191046	11191046	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:11191046C>T	uc003mzv.2	-	5	1223	c.1056G>A	c.(1054-1056)CCG>CCA	p.P352P	NEDD9_uc010joz.2_Silent_p.P352P|NEDD9_uc003mzw.3_Silent_p.P206P	NM_006403	NP_006394	Q14511	CASL_HUMAN	neural precursor cell expressed, developmentally	352					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)															---	---	---	---
SLC17A3	10786	broad.mit.edu	37	6	25850316	25850316	+	Missense_Mutation	SNP	C	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:25850316C>A	uc003nfi.3	-	8	959	c.849G>T	c.(847-849)AAG>AAT	p.K283N	SLC17A3_uc003nfk.3_Missense_Mutation_p.K361N|SLC17A3_uc011djz.1_3'UTR	NM_006632	NP_006623	O00476	NPT4_HUMAN	solute carrier family 17 (sodium phosphate),	283					glucose-6-phosphate transport|urate metabolic process	apical plasma membrane|brush border membrane|endoplasmic reticulum membrane|integral to plasma membrane|perinuclear region of cytoplasm	drug transmembrane transporter activity|efflux transmembrane transporter activity|organic anion transmembrane transporter activity|sodium:phosphate symporter activity|toxin transporter activity|urate transmembrane transporter activity|voltage-gated anion channel activity				0																		---	---	---	---
SLC17A3	10786	broad.mit.edu	37	6	25855394	25855394	+	Nonsense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:25855394C>T	uc003nfi.3	-	5	566	c.456G>A	c.(454-456)TGG>TGA	p.W152*	SLC17A3_uc003nfk.3_Nonsense_Mutation_p.W230*|SLC17A3_uc011djz.1_Nonsense_Mutation_p.W230*|SLC17A3_uc011dka.1_Nonsense_Mutation_p.W152*	NM_006632	NP_006623	O00476	NPT4_HUMAN	solute carrier family 17 (sodium phosphate),	152					glucose-6-phosphate transport|urate metabolic process	apical plasma membrane|brush border membrane|endoplasmic reticulum membrane|integral to plasma membrane|perinuclear region of cytoplasm	drug transmembrane transporter activity|efflux transmembrane transporter activity|organic anion transmembrane transporter activity|sodium:phosphate symporter activity|toxin transporter activity|urate transmembrane transporter activity|voltage-gated anion channel activity				0																		---	---	---	---
SLC44A4	80736	broad.mit.edu	37	6	31833683	31833683	+	Missense_Mutation	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:31833683A>G	uc010jti.2	-	14	1520	c.1454T>C	c.(1453-1455)TTC>TCC	p.F485S	NEU1_uc003nxq.3_5'Flank|NEU1_uc010jtg.2_5'Flank|NEU1_uc003nxr.3_5'Flank|NEU1_uc010jth.2_5'Flank|NEU1_uc003nxs.3_5'Flank	NM_025257	NP_079533	Q53GD3	CTL4_HUMAN	choline transporter-like protein 4	485	Cytoplasmic (Potential).					integral to membrane|plasma membrane	choline transmembrane transporter activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4					Choline(DB00122)													---	---	---	---
NOTCH4	4855	broad.mit.edu	37	6	32169918	32169918	+	Silent	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:32169918G>A	uc003obb.2	-	21	3829	c.3690C>T	c.(3688-3690)CAC>CAT	p.H1230H	NOTCH4_uc003oba.2_5'UTR|NOTCH4_uc011dpu.1_Intron|NOTCH4_uc011dpv.1_Intron	NM_004557	NP_004548	Q99466	NOTC4_HUMAN	notch4 preproprotein	1230	LNR 2.|Extracellular (Potential).				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																		---	---	---	---
HLA-DOA	3111	broad.mit.edu	37	6	32975851	32975851	+	Silent	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:32975851G>A	uc003ocr.2	-	2	346	c.270C>T	c.(268-270)GCC>GCT	p.A90A	HLA-DOA_uc010juj.2_Silent_p.A60A|HLA-DOA_uc010jui.2_Silent_p.A90A	NM_002119	NP_002110	P06340	DOA_HUMAN	major histocompatibility complex, class II, DO	90	Extracellular (Potential).|Alpha-1.				antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|interferon-gamma-mediated signaling pathway|T cell costimulation|T cell receptor signaling pathway	endosome membrane|integral to membrane|lysosomal membrane|MHC class II protein complex	MHC class II receptor activity				0																		---	---	---	---
COL11A2	1302	broad.mit.edu	37	6	33140867	33140867	+	Silent	SNP	G	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:33140867G>T	uc003ocx.1	-	38	2988	c.2760C>A	c.(2758-2760)CCC>CCA	p.P920P	COL11A2_uc010jul.1_Intron|COL11A2_uc003ocy.1_Silent_p.P834P|COL11A2_uc003ocz.1_Silent_p.P813P	NM_080680	NP_542411	P13942	COBA2_HUMAN	collagen, type XI, alpha 2 isoform 1	920	Triple-helical region.				cartilage development|cell adhesion|collagen fibril organization|sensory perception of sound|soft palate development	collagen type XI	extracellular matrix structural constituent conferring tensile strength|protein binding, bridging			ovary(3)|skin(2)	5																		---	---	---	---
COL11A2	1302	broad.mit.edu	37	6	33152008	33152008	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:33152008C>T	uc003ocx.1	-	8	1261	c.1033G>A	c.(1033-1035)GAT>AAT	p.D345N	COL11A2_uc003ocy.1_Intron|COL11A2_uc003ocz.1_Intron	NM_080680	NP_542411	P13942	COBA2_HUMAN	collagen, type XI, alpha 2 isoform 1	345	Nonhelical region.				cartilage development|cell adhesion|collagen fibril organization|sensory perception of sound|soft palate development	collagen type XI	extracellular matrix structural constituent conferring tensile strength|protein binding, bridging			ovary(3)|skin(2)	5																		---	---	---	---
ITPR3	3710	broad.mit.edu	37	6	33632704	33632704	+	Silent	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:33632704T>C	uc011drk.1	+	12	1425	c.1206T>C	c.(1204-1206)AAT>AAC	p.N402N		NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	402	Cytoplasmic (Potential).|MIR 5.				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																		---	---	---	---
USP49	25862	broad.mit.edu	37	6	41766584	41766584	+	Missense_Mutation	SNP	C	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:41766584C>A	uc003ori.2	-	7	1976	c.1754G>T	c.(1753-1755)AGG>ATG	p.R585M		NM_018561	NP_061031	Q70CQ1	UBP49_HUMAN	ubiquitin thioesterase 49	585					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Ovarian(28;0.0919)|Colorectal(47;0.121)		STAD - Stomach adenocarcinoma(11;0.000204)|Epithelial(12;0.000309)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)															---	---	---	---
PPP2R5D	5528	broad.mit.edu	37	6	42974334	42974334	+	Missense_Mutation	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:42974334T>C	uc003oth.2	+	3	325	c.239T>C	c.(238-240)ATT>ACT	p.I80T	MEA1_uc010jyc.1_Intron|PPP2R5D_uc003otg.2_Missense_Mutation_p.I80T|PPP2R5D_uc010jyd.2_Intron|PPP2R5D_uc011dva.1_5'UTR|PPP2R5D_uc003oti.2_5'UTR|PPP2R5D_uc003otj.2_5'UTR	NM_006245	NP_006236	Q14738	2A5D_HUMAN	delta isoform of regulatory subunit B56, protein	80					nervous system development|signal transduction	cytoplasm|nucleus|protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity			breast(1)|central_nervous_system(1)	2			Colorectal(64;0.00237)|all cancers(41;0.00411)|COAD - Colon adenocarcinoma(64;0.00473)|OV - Ovarian serous cystadenocarcinoma(102;0.0664)|KIRC - Kidney renal clear cell carcinoma(15;0.133)|Kidney(15;0.188)															---	---	---	---
CUL9	23113	broad.mit.edu	37	6	43182994	43182994	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:43182994C>T	uc003ouk.2	+	30	5941	c.5866C>T	c.(5866-5868)CCC>TCC	p.P1956S	CUL9_uc003oul.2_Missense_Mutation_p.P1928S|CUL9_uc010jyk.2_Missense_Mutation_p.P1108S|CUL9_uc003oun.2_5'UTR	NM_015089	NP_055904	Q8IWT3	CUL9_HUMAN	p53-associated parkin-like cytoplasmic protein	1956					ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex|cytoplasm	ATP binding|ubiquitin protein ligase binding|zinc ion binding			ovary(5)|lung(3)|skin(2)|breast(1)|central_nervous_system(1)	12																		---	---	---	---
TTBK1	84630	broad.mit.edu	37	6	43251219	43251219	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:43251219G>A	uc003ouq.1	+	14	3020	c.2741G>A	c.(2740-2742)GGG>GAG	p.G914E		NM_032538	NP_115927	Q5TCY1	TTBK1_HUMAN	tau tubulin kinase 1	914						cell junction|cytoplasm|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			lung(4)|ovary(2)|skin(2)|upper_aerodigestive_tract(1)	9			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0125)|OV - Ovarian serous cystadenocarcinoma(102;0.0399)															---	---	---	---
TJAP1	93643	broad.mit.edu	37	6	43473430	43473430	+	Missense_Mutation	SNP	G	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:43473430G>T	uc003ovd.2	+	11	1887	c.1511G>T	c.(1510-1512)AGG>ATG	p.R504M	TJAP1_uc003ovf.2_Missense_Mutation_p.R494M|TJAP1_uc003ove.2_Missense_Mutation_p.R494M|TJAP1_uc003ovc.2_Missense_Mutation_p.R494M|TJAP1_uc010jyp.2_Missense_Mutation_p.R463M|TJAP1_uc011dvh.1_Missense_Mutation_p.R494M|TJAP1_uc003ovg.2_Missense_Mutation_p.R370M|TJAP1_uc011dvi.1_Missense_Mutation_p.R504M|TJAP1_uc011dvj.1_Missense_Mutation_p.R304M|TJAP1_uc003ovi.2_Missense_Mutation_p.R370M	NM_001146016	NP_001139488	Q5JTD0	TJAP1_HUMAN	tight junction associated protein 1 isoform a	504						Golgi apparatus|tight junction	protein binding				0	all_lung(25;0.00536)		Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0122)|OV - Ovarian serous cystadenocarcinoma(102;0.0804)															---	---	---	---
TMEM63B	55362	broad.mit.edu	37	6	44102354	44102354	+	Silent	SNP	C	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:44102354C>A	uc003owr.2	+	2	97	c.33C>A	c.(31-33)ACC>ACA	p.T11T	TMEM63B_uc003owq.1_Silent_p.T11T|TMEM63B_uc010jyy.1_5'UTR|TMEM63B_uc003ows.2_5'Flank	NM_018426	NP_060896	Q5T3F8	TM63B_HUMAN	transmembrane protein 63B	11						integral to membrane	nucleotide binding|protein binding			pancreas(2)|central_nervous_system(1)	3	all_cancers(18;1.66e-06)|Lung NSC(15;0.00108)|all_lung(25;0.00278)|Hepatocellular(11;0.00309)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0215)															---	---	---	---
TFAP2B	7021	broad.mit.edu	37	6	50807989	50807989	+	Missense_Mutation	SNP	A	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:50807989A>C	uc003pag.2	+	6	1227	c.1061A>C	c.(1060-1062)AAG>ACG	p.K354T		NM_003221	NP_003212	Q92481	AP2B_HUMAN	transcription factor AP-2 beta	354					nervous system development|positive regulation of transcription from RNA polymerase II promoter		protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity				0	Lung NSC(77;0.156)																	---	---	---	---
BAI3	577	broad.mit.edu	37	6	69653796	69653796	+	Missense_Mutation	SNP	A	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:69653796A>C	uc003pev.3	+	6	1553	c.1105A>C	c.(1105-1107)ACA>CCA	p.T369P	BAI3_uc010kak.2_Missense_Mutation_p.T369P	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	369	Extracellular (Potential).|TSP type-1 2.				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(27)|ovary(8)|skin(6)|pancreas(4)|central_nervous_system(3)|urinary_tract(1)|breast(1)	50		all_lung(197;0.212)																---	---	---	---
CD109	135228	broad.mit.edu	37	6	74528179	74528179	+	Missense_Mutation	SNP	C	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:74528179C>A	uc003php.2	+	31	4405	c.3980C>A	c.(3979-3981)CCT>CAT	p.P1327H	CD109_uc010kaz.2_Intron|CD109_uc003phq.2_Missense_Mutation_p.P1310H|CD109_uc010kba.2_Missense_Mutation_p.P1250H	NM_133493	NP_598000	Q6YHK3	CD109_HUMAN	CD109 antigen isoform 1 precursor	1327						anchored to membrane|extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			large_intestine(2)|ovary(2)	4																		---	---	---	---
TBX18	9096	broad.mit.edu	37	6	85446536	85446536	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:85446536G>A	uc003pkl.1	-	8	1691	c.1691C>T	c.(1690-1692)ACG>ATG	p.T564M	TBX18_uc010kbq.1_Intron	NM_001080508	NP_001073977	O95935	TBX18_HUMAN	T-box 18	564					multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|pancreas(2)|lung(1)	5		all_cancers(76;0.000283)|Acute lymphoblastic leukemia(125;3.66e-08)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0858)		BRCA - Breast invasive adenocarcinoma(108;0.0267)														---	---	---	---
RNGTT	8732	broad.mit.edu	37	6	89650829	89650829	+	Missense_Mutation	SNP	G	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:89650829G>T	uc003pmr.2	-	2	355	c.135C>A	c.(133-135)TTC>TTA	p.F45L	RNGTT_uc003pms.2_Missense_Mutation_p.F45L|RNGTT_uc011dzu.1_Intron|RNGTT_uc003pmt.2_Missense_Mutation_p.F45L	NM_003800	NP_003791	O60942	MCE1_HUMAN	RNA guanylyltransferase and 5'-phosphatase	45	TPase.				interspecies interaction between organisms|mRNA capping|transcription from RNA polymerase II promoter|viral reproduction	nucleoplasm	GTP binding|mRNA guanylyltransferase activity|polynucleotide 5'-phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			upper_aerodigestive_tract(1)	1		all_cancers(76;4.07e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.49e-10)|all_hematologic(105;7.79e-07)|all_epithelial(107;6.86e-05)		BRCA - Breast invasive adenocarcinoma(108;0.151)														---	---	---	---
BVES	11149	broad.mit.edu	37	6	105572418	105572418	+	Intron	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:105572418A>G	uc003pqw.2	-						BVES_uc003pqx.2_Intron|BVES_uc003pqy.2_Intron	NM_147147	NP_671488			blood vessel epicardial substance isoform 5						epithelial cell-cell adhesion|muscle organ development|positive regulation of locomotion|positive regulation of receptor recycling|regulation of Cdc42 GTPase activity|regulation of cell shape|regulation of Rac GTPase activity|substrate adhesion-dependent cell spreading|vesicle-mediated transport	integral to membrane|lateral plasma membrane|tight junction	structural molecule activity				0		all_cancers(87;2.83e-05)|Acute lymphoblastic leukemia(125;1.95e-08)|all_hematologic(75;9.25e-07)|all_epithelial(87;0.0101)|Colorectal(196;0.204)|Lung NSC(302;0.238)																---	---	---	---
WASF1	8936	broad.mit.edu	37	6	110448716	110448716	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:110448716G>A	uc003ptv.1	-	4	926	c.89C>T	c.(88-90)ACC>ATC	p.T30I	WASF1_uc003ptw.1_Missense_Mutation_p.T30I|WASF1_uc003ptx.1_Missense_Mutation_p.T30I|WASF1_uc003pty.1_Missense_Mutation_p.T30I|WASF1_uc003ptz.1_Missense_Mutation_p.T30I	NM_003931	NP_003922	Q92558	WASF1_HUMAN	Wiskott-Aldrich syndrome protein family member	30					actin filament polymerization|cellular component movement	actin cytoskeleton	actin binding				0		all_cancers(87;1.18e-05)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.00159)|Colorectal(196;0.0488)		OV - Ovarian serous cystadenocarcinoma(136;0.0364)|Epithelial(106;0.051)|all cancers(137;0.0687)														---	---	---	---
HS3ST5	222537	broad.mit.edu	37	6	114378702	114378702	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:114378702C>T	uc003pwg.3	-	2	792	c.760G>A	c.(760-762)GAT>AAT	p.D254N	uc003pwf.2_Intron|HS3ST5_uc003pwh.3_Missense_Mutation_p.D254N	NM_153612	NP_705840	Q8IZT8	HS3S5_HUMAN	heparan sulfate (glucosamine)	254	Lumenal (Potential).				heparan sulfate proteoglycan biosynthetic process, enzymatic modification|negative regulation of coagulation|protein sulfation|regulation of virion penetration into host cell	Golgi membrane|integral to membrane	3'-phosphoadenosine 5'-phosphosulfate binding|[heparan sulfate]-glucosamine 3-sulfotransferase 1 activity|protein binding			ovary(1)|pancreas(1)	2		all_cancers(87;0.0587)|Colorectal(196;0.0676)|all_epithelial(87;0.154)		OV - Ovarian serous cystadenocarcinoma(136;0.00937)|all cancers(137;0.0117)|Epithelial(106;0.0274)|GBM - Glioblastoma multiforme(226;0.143)														---	---	---	---
TRMT11	60487	broad.mit.edu	37	6	126359854	126359854	+	Missense_Mutation	SNP	C	T	T	rs142681128	by1000genomes	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:126359854C>T	uc003qam.2	+	13	1385	c.1264C>T	c.(1264-1266)CGG>TGG	p.R422W	TRMT11_uc003qan.2_RNA|TRMT11_uc010kev.2_Missense_Mutation_p.R417W	NM_001031712	NP_001026882	Q7Z4G4	TRM11_HUMAN	tRNA methyltransferase 11	422					tRNA processing		methyltransferase activity|nucleic acid binding			ovary(1)	1				GBM - Glioblastoma multiforme(226;0.0356)														---	---	---	---
KIAA1244	57221	broad.mit.edu	37	6	138644821	138644821	+	Missense_Mutation	SNP	A	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:138644821A>T	uc003qhu.2	+	30	4780	c.4780A>T	c.(4780-4782)ACA>TCA	p.T1594S		NM_020340	NP_065073	Q5TH69	BIG3_HUMAN	brefeldin A-inhibited guanine	1594					regulation of ARF protein signal transduction	cytoplasm|integral to membrane	ARF guanyl-nucleotide exchange factor activity			ovary(1)|skin(1)	2	Breast(32;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00102)|GBM - Glioblastoma multiforme(68;0.00259)														---	---	---	---
ECT2L	345930	broad.mit.edu	37	6	139203986	139203986	+	Missense_Mutation	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:139203986T>C	uc003qif.1	+	14	2109	c.2006T>C	c.(2005-2007)GTC>GCC	p.V669A	ECT2L_uc011edq.1_Missense_Mutation_p.V600A	NM_001077706	NP_001071174	Q008S8	ECT2L_HUMAN	epithelial cell transforming sequence 2	669	DH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity				0																		---	---	---	---
TXLNB	167838	broad.mit.edu	37	6	139564337	139564337	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:139564337C>T	uc011eds.1	-	10	1546	c.1381G>A	c.(1381-1383)GCA>ACA	p.A461T		NM_153235	NP_694967	Q8N3L3	TXLNB_HUMAN	taxilin beta	461	Potential.					cytoplasm				large_intestine(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(155;0.000185)|GBM - Glioblastoma multiforme(68;0.000235)														---	---	---	---
UST	10090	broad.mit.edu	37	6	149068723	149068723	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:149068723G>A	uc003qmg.2	+	1	453	c.157G>A	c.(157-159)GCC>ACC	p.A53T		NM_005715	NP_005706	Q9Y2C2	UST_HUMAN	uronyl-2-sulfotransferase	53	Helical; Signal-anchor for type II membrane protein; (Potential).				protein sulfation	Golgi membrane|integral to membrane	sulfotransferase activity			ovary(2)	2		Ovarian(120;0.0907)		OV - Ovarian serous cystadenocarcinoma(155;1.78e-10)|GBM - Glioblastoma multiforme(68;0.138)														---	---	---	---
SYNE1	23345	broad.mit.edu	37	6	152466684	152466684	+	Intron	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:152466684A>G	uc010kiw.2	-						SYNE1_uc010kiv.2_Intron|SYNE1_uc003qos.3_Intron|SYNE1_uc003qot.3_Missense_Mutation_p.M8257T|SYNE1_uc003qou.3_Intron|SYNE1_uc003qop.3_Missense_Mutation_p.M490T|SYNE1_uc011eez.1_Intron|SYNE1_uc003qoq.3_Intron|SYNE1_uc003qor.3_Missense_Mutation_p.M1228T	NM_182961	NP_892006			spectrin repeat containing, nuclear envelope 1						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)											HNSCC(10;0.0054)			---	---	---	---
ARID1B	57492	broad.mit.edu	37	6	157511330	157511330	+	Missense_Mutation	SNP	G	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:157511330G>T	uc003qqn.2	+	15	3946	c.3794G>T	c.(3793-3795)GGG>GTG	p.G1265V	ARID1B_uc003qqo.2_Missense_Mutation_p.G1225V|ARID1B_uc003qqp.2_Missense_Mutation_p.G1212V	NM_017519	NP_059989	Q8NFD5	ARI1B_HUMAN	AT rich interactive domain 1B (SWI1-like)	1270					chromatin-mediated maintenance of transcription|nervous system development|transcription, DNA-dependent	SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			ovary(1)|breast(1)	2		Breast(66;0.000162)|Ovarian(120;0.0265)		OV - Ovarian serous cystadenocarcinoma(65;3.19e-17)|BRCA - Breast invasive adenocarcinoma(81;1.01e-05)														---	---	---	---
LPA	4018	broad.mit.edu	37	6	161010743	161010743	+	Silent	SNP	T	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:161010743T>G	uc003qtl.2	-	25	3909	c.3789A>C	c.(3787-3789)GCA>GCC	p.A1263A		NM_005577	NP_005568	P08519	APOA_HUMAN	lipoprotein Lp(a) precursor	3771	Kringle 34.				blood circulation|lipid metabolic process|lipid transport|lipoprotein metabolic process|proteolysis|receptor-mediated endocytosis	plasma lipoprotein particle	apolipoprotein binding|endopeptidase inhibitor activity|fibronectin binding|heparin binding|serine-type endopeptidase activity			ovary(3)|skin(2)|pancreas(1)	6		Breast(66;0.000496)|Ovarian(120;0.0303)|Prostate(117;0.0965)		OV - Ovarian serous cystadenocarcinoma(65;2.5e-17)|BRCA - Breast invasive adenocarcinoma(81;6.48e-06)	Aminocaproic Acid(DB00513)													---	---	---	---
RNF216	54476	broad.mit.edu	37	7	5781027	5781027	+	Missense_Mutation	SNP	C	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:5781027C>A	uc003soy.1	-	4	640	c.450G>T	c.(448-450)GAG>GAT	p.E150D	RNF216_uc010ksz.1_5'UTR|RNF216_uc010kta.1_Intron|RNF216_uc011jwj.1_Intron|RNF216_uc003sox.1_Missense_Mutation_p.E207D	NM_207116	NP_996999	Q9NWF9	RN216_HUMAN	ring finger protein 216 isoform b	150					apoptosis|interspecies interaction between organisms|proteasomal ubiquitin-dependent protein catabolic process|protein K48-linked ubiquitination|regulation of defense response to virus by host|regulation of interferon-beta production	cytoplasm|nucleus|nucleus	ligase activity|protein binding|protein binding|zinc ion binding			ovary(3)|breast(2)	5		Ovarian(82;0.07)		UCEC - Uterine corpus endometrioid carcinoma (126;0.135)|OV - Ovarian serous cystadenocarcinoma(56;2.69e-13)														---	---	---	---
USP42	84132	broad.mit.edu	37	7	6180573	6180573	+	Silent	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:6180573A>G	uc011jwo.1	+	7	876	c.753A>G	c.(751-753)TCA>TCG	p.S251S	USP42_uc011jwn.1_Silent_p.S96S|USP42_uc010kth.1_Silent_p.S184S|USP42_uc011jwp.1_Silent_p.S251S|USP42_uc011jwq.1_Silent_p.S58S|USP42_uc011jwr.1_Silent_p.S96S	NM_032172	NP_115548	Q9H9J4	UBP42_HUMAN	ubiquitin specific peptidase 42	251					cell differentiation|protein deubiquitination|spermatogenesis|ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			skin(2)|ovary(1)|pancreas(1)|breast(1)	5		Ovarian(82;0.0423)		UCEC - Uterine corpus endometrioid carcinoma (126;0.108)|OV - Ovarian serous cystadenocarcinoma(56;5.77e-14)														---	---	---	---
MIOS	54468	broad.mit.edu	37	7	7613797	7613797	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:7613797G>A	uc003srf.2	+	5	1671	c.1363G>A	c.(1363-1365)GGA>AGA	p.G455R		NM_019005	NP_061878	Q9NXC5	MIO_HUMAN	missing oocyte, meiosis regulator, homolog	455											0																		---	---	---	---
TAX1BP1	8887	broad.mit.edu	37	7	27868391	27868391	+	Silent	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:27868391G>A	uc003szl.2	+	17	2471	c.2313G>A	c.(2311-2313)CAG>CAA	p.Q771Q	TAX1BP1_uc011jzo.1_Silent_p.Q729Q|TAX1BP1_uc003szk.2_Silent_p.Q729Q|TAX1BP1_uc011jzp.1_Silent_p.Q572Q	NM_006024	NP_006015	Q86VP1	TAXB1_HUMAN	Tax1 (human T-cell leukemia virus type I)	771					anti-apoptosis|apoptosis|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production	cytosol	identical protein binding|kinase binding|zinc ion binding			breast(1)	1			GBM - Glioblastoma multiforme(3;0.0823)															---	---	---	---
RP9	6100	broad.mit.edu	37	7	33136933	33136933	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:33136933C>T	uc003tdm.2	-	4	373	c.355G>A	c.(355-357)GAA>AAA	p.E119K		NM_203288	NP_976033	Q8TA86	RP9_HUMAN	retinitis pigmentosa 9	119	PIM1-binding (By similarity).|CCHC-type.				RNA splicing	nucleus	nucleic acid binding|protein binding|zinc ion binding				0			GBM - Glioblastoma multiforme(11;0.0403)															---	---	---	---
IGFBP3	3486	broad.mit.edu	37	7	45957023	45957023	+	Nonsense_Mutation	SNP	G	T	T	rs139238956		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:45957023G>T	uc003tns.2	-	2	551	c.419C>A	c.(418-420)TCG>TAG	p.S140*	IGFBP3_uc003tnq.2_RNA|IGFBP3_uc003tnr.2_Nonsense_Mutation_p.S146*|IGFBP3_uc003tnt.2_Nonsense_Mutation_p.S43*	NM_000598	NP_000589	P17936	IBP3_HUMAN	insulin-like growth factor binding protein 3	140	Ser/Thr-rich.				negative regulation of protein phosphorylation|negative regulation of signal transduction|negative regulation of smooth muscle cell migration|negative regulation of smooth muscle cell proliferation|positive regulation of apoptosis|positive regulation of myoblast differentiation|protein phosphorylation|regulation of cell growth	nucleus	insulin-like growth factor I binding|metal ion binding|protein tyrosine phosphatase activator activity			large_intestine(2)|lung(1)	3					Mecasermin(DB01277)											OREG0018049	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
PKD1L1	168507	broad.mit.edu	37	7	47979924	47979924	+	Intron	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:47979924A>G	uc003tny.1	-							NM_138295	NP_612152			polycystin-1L1						cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11																		---	---	---	---
POM121L12	285877	broad.mit.edu	37	7	53104076	53104076	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:53104076C>T	uc003tpz.2	+	1	728	c.712C>T	c.(712-714)CCG>TCG	p.P238S		NM_182595	NP_872401	Q8N7R1	P1L12_HUMAN	POM121 membrane glycoprotein-like 12	238											0																		---	---	---	---
Unknown	0	broad.mit.edu	37	7	65220599	65220599	+	Intron	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:65220599A>G	uc003tud.1	-						CCT6P1_uc003tug.2_Intron|CCT6P1_uc003tuh.2_Intron|CCT6P1_uc003tui.2_Intron|SNORA22_uc003tuj.2_RNA					Homo sapiens hypothetical LOC441242, mRNA (cDNA clone MGC:87648 IMAGE:5267764), complete cds.																														---	---	---	---
AUTS2	26053	broad.mit.edu	37	7	70236587	70236587	+	Missense_Mutation	SNP	C	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:70236587C>A	uc003tvw.3	+	11	2530	c.1787C>A	c.(1786-1788)CCC>CAC	p.P596H	AUTS2_uc003tvx.3_Missense_Mutation_p.P596H|AUTS2_uc011keg.1_Missense_Mutation_p.P48H	NM_015570	NP_056385	Q8WXX7	AUTS2_HUMAN	autism susceptibility candidate 2 isoform 1	596								p.P596P(1)		ovary(2)|central_nervous_system(1)	3		all_cancers(73;0.0264)|all_epithelial(88;0.0198)|Lung NSC(55;0.0599)|all_lung(88;0.093)		LUSC - Lung squamous cell carcinoma(90;0.082)|Lung(90;0.186)														---	---	---	---
TBL2	26608	broad.mit.edu	37	7	72992829	72992829	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:72992829C>T	uc003tyh.2	-	1	185	c.51G>A	c.(49-51)GGG>GGA	p.G17G	TBL2_uc011kex.1_5'Flank|TBL2_uc010lbg.2_5'UTR|TBL2_uc003tyi.2_5'UTR|TBL2_uc011key.1_5'UTR|TBL2_uc010lbh.2_5'UTR	NM_012453	NP_036585	Q9Y4P3	TBL2_HUMAN	transducin (beta)-like 2	17											0		Lung NSC(55;0.0659)|all_lung(88;0.152)																---	---	---	---
CACNA2D1	781	broad.mit.edu	37	7	81588672	81588672	+	Silent	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:81588672A>G	uc003uhr.1	-	38	3334	c.3078T>C	c.(3076-3078)TCT>TCC	p.S1026S	CACNA2D1_uc011kgy.1_Silent_p.S238S	NM_000722	NP_000713	P54289	CA2D1_HUMAN	calcium channel, voltage-dependent, alpha	1038	Extracellular (Potential).					voltage-gated calcium channel complex	metal ion binding			ovary(5)|pancreas(1)	6					Felodipine(DB01023)|Gabapentin(DB00996)|Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Nifedipine(DB01115)													---	---	---	---
SEMA3D	223117	broad.mit.edu	37	7	84649614	84649614	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:84649614C>T	uc003uic.2	-	12	1478	c.1438G>A	c.(1438-1440)GTC>ATC	p.V480I	SEMA3D_uc010led.2_Missense_Mutation_p.V480I|SEMA3D_uc003uib.2_Missense_Mutation_p.V119I	NM_152754	NP_689967	O95025	SEM3D_HUMAN	semaphorin 3D precursor	480	Sema.				cell differentiation|nervous system development	extracellular region|membrane	receptor activity			ovary(3)|large_intestine(2)	5																		---	---	---	---
DLX5	1749	broad.mit.edu	37	7	96651523	96651523	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:96651523C>T	uc003uon.2	-	2	722	c.514G>A	c.(514-516)GCC>ACC	p.A172T	DLX5_uc011kim.1_Missense_Mutation_p.A172T	NM_005221	NP_005212	P56178	DLX5_HUMAN	distal-less homeobox 5	172	Homeobox.				cell proliferation|endochondral ossification|osteoblast differentiation|positive regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(1)	1	all_cancers(62;9.56e-09)|all_epithelial(64;7.38e-09)|Esophageal squamous(72;0.0125)|all_lung(186;0.0855)|Lung NSC(181;0.0858)																	---	---	---	---
SMURF1	57154	broad.mit.edu	37	7	98655080	98655080	+	Silent	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:98655080G>A	uc003upu.1	-	4	618	c.298C>T	c.(298-300)CTG>TTG	p.L100L	SMURF1_uc003upv.1_Silent_p.L100L|SMURF1_uc003upt.2_Silent_p.L100L	NM_020429	NP_065162	Q9HCE7	SMUF1_HUMAN	Smad ubiquitination regulatory factor 1 isoform	100					BMP signaling pathway|cell differentiation|ectoderm development|negative regulation of BMP signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of protein ubiquitination|proteasomal ubiquitin-dependent protein catabolic process|protein export from nucleus|protein localization at cell surface|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|receptor catabolic process|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent SMAD protein catabolic process	cytosol|plasma membrane	activin binding|I-SMAD binding|R-SMAD binding|ubiquitin-protein ligase activity			skin(2)|ovary(1)|lung(1)	4	all_cancers(62;1.05e-08)|all_epithelial(64;4.34e-09)|Lung NSC(181;0.00902)|all_lung(186;0.0145)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)|Lung(104;0.224)															---	---	---	---
SPDYE3	441272	broad.mit.edu	37	7	99917575	99917575	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:99917575C>T	uc003uug.1	+	5	721	c.481C>T	c.(481-483)CAC>TAC	p.H161Y	uc011kjm.1_5'Flank	NM_001004351	NP_001004351	A6NKU9	SPDE3_HUMAN	speedy homolog E3	538											0																		---	---	---	---
CUX1	1523	broad.mit.edu	37	7	101892233	101892233	+	Missense_Mutation	SNP	C	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:101892233C>A	uc003uyx.3	+	24	4467	c.4429C>A	c.(4429-4431)CGC>AGC	p.R1477S	CUX1_uc003uys.3_Missense_Mutation_p.R1488S|CUX1_uc003uyt.2_Intron|CUX1_uc011kkn.1_Intron|CUX1_uc003uyw.2_Intron|CUX1_uc003uyv.2_Intron|CUX1_uc003uyu.2_Intron	NM_181552	NP_853530	P39880	CUX1_HUMAN	cut-like homeobox 1 isoform a	1477					negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8																		---	---	---	---
PNPLA8	50640	broad.mit.edu	37	7	108137210	108137210	+	Intron	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:108137210G>A	uc003vff.1	-						PNPLA8_uc003vfg.1_Intron|PNPLA8_uc003vfh.1_Intron|PNPLA8_uc003vfi.1_Intron|PNPLA8_uc003vfj.1_Intron|PNPLA8_uc003vfk.1_Intron	NM_015723	NP_056538			patatin-like phospholipase domain containing 8						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																		---	---	---	---
PPP1R3A	5506	broad.mit.edu	37	7	113519938	113519938	+	Silent	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:113519938T>C	uc010ljy.1	-	4	1240	c.1209A>G	c.(1207-1209)CAA>CAG	p.Q403Q		NM_002711	NP_002702	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	403					glycogen metabolic process	integral to membrane				lung(9)|ovary(9)|pancreas(7)|skin(6)|breast(2)|prostate(1)	34																		---	---	---	---
AHCYL2	23382	broad.mit.edu	37	7	129029550	129029550	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:129029550G>A	uc011kov.1	+	4	749	c.695G>A	c.(694-696)TGC>TAC	p.C232Y	AHCYL2_uc003vot.2_Missense_Mutation_p.C231Y|AHCYL2_uc003vov.2_Missense_Mutation_p.C129Y|AHCYL2_uc011kow.1_Missense_Mutation_p.C130Y|AHCYL2_uc011kox.1_Missense_Mutation_p.C129Y	NM_015328	NP_056143	Q96HN2	SAHH3_HUMAN	S-adenosylhomocysteine hydrolase-like 2 isoform	232					one-carbon metabolic process		adenosylhomocysteinase activity			ovary(2)	2																		---	---	---	---
SLC13A4	26266	broad.mit.edu	37	7	135384207	135384207	+	Silent	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:135384207G>A	uc003vta.2	-	8	1490	c.801C>T	c.(799-801)TGC>TGT	p.C267C	SLC13A4_uc003vtb.2_Silent_p.C268C	NM_012450	NP_036582	Q9UKG4	S13A4_HUMAN	solute carrier family 13 (sodium/sulfate	267						integral to plasma membrane	sodium:sulfate symporter activity				0																		---	---	---	---
ATP6V0A4	50617	broad.mit.edu	37	7	138394386	138394386	+	Silent	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:138394386G>A	uc003vuf.2	-	20	2650	c.2412C>T	c.(2410-2412)CAC>CAT	p.H804H	ATP6V0A4_uc003vug.2_Silent_p.H804H|ATP6V0A4_uc003vuh.2_Silent_p.H804H	NM_130841	NP_570856	Q9HBG4	VPP4_HUMAN	ATPase, H+ transporting, lysosomal V0 subunit	804	Cytoplasmic (Potential).				cellular iron ion homeostasis|excretion|insulin receptor signaling pathway|ossification|regulation of pH|sensory perception of sound|transferrin transport	apical plasma membrane|brush border membrane|endosome membrane|integral to membrane|proton-transporting two-sector ATPase complex, proton-transporting domain	ATPase binding|hydrogen ion transmembrane transporter activity			pancreas(1)	1																		---	---	---	---
BRAF	673	broad.mit.edu	37	7	140500228	140500228	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:140500228G>A	uc003vwc.3	-	7	975	c.914C>T	c.(913-915)GCG>GTG	p.A305V		NM_004333	NP_004324	P15056	BRAF_HUMAN	B-Raf	305					activation of MAPKK activity|anti-apoptosis|nerve growth factor receptor signaling pathway|organ morphogenesis|positive regulation of peptidyl-serine phosphorylation|small GTPase mediated signal transduction|synaptic transmission	cytosol|nucleus|plasma membrane	ATP binding|metal ion binding		KIAA1549/BRAF(229)|AKAP9_ENST00000356239/BRAF(10)|AGTRAP/BRAF(2)|FCHSD1/BRAF(2)|SLC45A3/BRAF(2)	thyroid(8166)|large_intestine(5052)|skin(3798)|NS(368)|central_nervous_system(284)|ovary(236)|lung(78)|eye(53)|prostate(44)|endometrium(30)|biliary_tract(28)|soft_tissue(27)|haematopoietic_and_lymphoid_tissue(22)|breast(18)|upper_aerodigestive_tract(13)|stomach(13)|pancreas(10)|small_intestine(10)|testis(7)|bone(6)|cervix(5)|genital_tract(4)|oesophagus(3)|urinary_tract(3)|adrenal_gland(3)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|meninges(1)|kidney(1)|autonomic_ganglia(1)|pituitary(1)|salivary_gland(1)	18290	Melanoma(164;0.00956)				Sorafenib(DB00398)		61	Mis|T|O	AKAP9|KIAA1549	melanoma|colorectal|papillary thyroid|borderline ov|Non small-cell lung cancer (NSCLC)|cholangiocarcinoma|pilocytic astrocytoma		Cardio-facio-cutaneous syndrome		Cardiofaciocutaneous_syndrome				---	---	---	---
Unknown	0	broad.mit.edu	37	7	142013382	142013382	+	Intron	SNP	G	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:142013382G>T	uc011kro.1	+						uc011krp.1_Intron|uc003vxg.2_Silent_p.V79V|uc003vxh.1_Silent_p.V76V					SubName: Full=V_segment translation product; Flags: Fragment;																														---	---	---	---
Unknown	0	broad.mit.edu	37	7	142176732	142176732	+	Intron	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:142176732A>G	uc011kro.1	+						uc011krp.1_Intron|uc011krr.1_Intron|uc011krx.1_Intron					SubName: Full=V_segment translation product; Flags: Fragment;																														---	---	---	---
PRSS1	5644	broad.mit.edu	37	7	142459627	142459627	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:142459627G>A	uc003wak.2	+	3	220	c.203G>A	c.(202-204)CGC>CAC	p.R68H	uc011krr.1_Intron|uc003vzp.2_Intron|uc011ksh.1_Intron|uc011ksi.1_Intron|uc003vzw.1_Intron|uc010loj.1_Intron|uc003wad.2_Intron|uc003wag.1_Intron|TRY6_uc011ksn.1_Intron|PRSS1_uc011ksm.1_3'UTR|PRSS1_uc003wam.2_Missense_Mutation_p.R8H	NM_002769	NP_002760	P07477	TRY1_HUMAN	protease, serine, 1 preproprotein	68	Peptidase S1.				digestion|proteolysis	extracellular space	metal ion binding|protein binding|serine-type endopeptidase activity			large_intestine(1)|central_nervous_system(1)	2	Melanoma(164;0.047)	all_cancers(3;2.14e-49)|Acute lymphoblastic leukemia(3;7.3e-185)|all_hematologic(3;1.1e-165)	all cancers(2;0.000126)|Colorectal(2;0.000157)|Epithelial(2;0.000191)|COAD - Colon adenocarcinoma(2;0.00189)											Hereditary_Pancreatitis				---	---	---	---
CASP2	835	broad.mit.edu	37	7	142997472	142997472	+	Intron	SNP	G	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:142997472G>T	uc003wco.2	+						CASP2_uc003wcp.2_Intron|CASP2_uc011kta.1_Intron|CASP2_uc003wcq.2_Splice_Site|CASP2_uc011ktb.1_Intron	NM_032982	NP_116764			caspase 2 isoform 1 preproprotein						apoptosis|cellular response to mechanical stimulus|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|protein maturation by peptide bond cleavage	cytosol	cysteine-type endopeptidase activity|enzyme binding|protein binding|protein domain specific binding			lung(2)|ovary(1)	3	Melanoma(164;0.059)																	---	---	---	---
MLL3	58508	broad.mit.edu	37	7	151873581	151873581	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:151873581C>T	uc003wla.2	-	38	9176	c.8957G>A	c.(8956-8958)GGT>GAT	p.G2986D	MLL3_uc003wkz.2_Missense_Mutation_p.G2047D|MLL3_uc003wky.2_Missense_Mutation_p.G495D	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	2986					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)				N		medulloblastoma								---	---	---	---
NCAPG2	54892	broad.mit.edu	37	7	158444986	158444986	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:158444986C>T	uc003wnv.1	-	23	3078	c.2933G>A	c.(2932-2934)CGG>CAG	p.R978Q	NCAPG2_uc010lqu.1_Missense_Mutation_p.R770Q|NCAPG2_uc003wnw.1_RNA|NCAPG2_uc003wnx.1_Missense_Mutation_p.R978Q|NCAPG2_uc011kwe.1_Missense_Mutation_p.R978Q|NCAPG2_uc011kwc.1_Missense_Mutation_p.R479Q|NCAPG2_uc011kwd.1_Missense_Mutation_p.R421Q	NM_017760	NP_060230	Q86XI2	CNDG2_HUMAN	leucine zipper protein 5	978					cell division|chromosome condensation|mitosis	nucleus	methylated histone residue binding			ovary(1)|breast(1)|kidney(1)	3	Ovarian(565;0.152)	all_cancers(7;3.44e-11)|all_epithelial(9;3.05e-05)|all_hematologic(28;0.014)	OV - Ovarian serous cystadenocarcinoma(82;0.00174)	UCEC - Uterine corpus endometrioid carcinoma (81;0.187)|STAD - Stomach adenocarcinoma(7;0.18)														---	---	---	---
CSMD1	64478	broad.mit.edu	37	8	2976115	2976115	+	Intron	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:2976115A>G	uc011kwk.1	-						CSMD1_uc011kwj.1_Intron|CSMD1_uc010lrg.2_Intron	NM_033225	NP_150094			CUB and Sushi multiple domains 1 precursor							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)														---	---	---	---
CSMD1	64478	broad.mit.edu	37	8	3226884	3226884	+	Nonsense_Mutation	SNP	C	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:3226884C>A	uc011kwk.1	-	19	3184	c.2794G>T	c.(2794-2796)GGA>TGA	p.G932*	CSMD1_uc011kwj.1_Nonsense_Mutation_p.G324*|CSMD1_uc003wqe.2_Nonsense_Mutation_p.G88*	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	932	Extracellular (Potential).|CUB 6.					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)														---	---	---	---
MFHAS1	9258	broad.mit.edu	37	8	8654977	8654977	+	Missense_Mutation	SNP	G	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:8654977G>T	uc003wsj.1	-	2	3586	c.3023C>A	c.(3022-3024)CCG>CAG	p.P1008Q		NM_004225	NP_004216	Q9Y4C4	MFHA1_HUMAN	malignant fibrous histiocytoma amplified	1008											0		Hepatocellular(245;0.217)		COAD - Colon adenocarcinoma(149;0.124)														---	---	---	---
SOX7	83595	broad.mit.edu	37	8	10584155	10584155	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:10584155G>A	uc003wtf.2	-	2	339	c.260C>T	c.(259-261)ACG>ATG	p.T87M	SOX7_uc011kwz.1_Missense_Mutation_p.T139M|uc003wtg.1_5'Flank	NM_031439	NP_113627	Q9BT81	SOX7_HUMAN	SRY-box 7	87	HMG box.				endoderm formation|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|positive regulation of caspase activity|regulation of canonical Wnt receptor signaling pathway	cytoplasm|nucleus	transcription regulatory region DNA binding			breast(1)	1				COAD - Colon adenocarcinoma(149;0.0732)														---	---	---	---
HR	55806	broad.mit.edu	37	8	21980053	21980053	+	Missense_Mutation	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:21980053A>G	uc003xas.2	-	8	2739	c.2074T>C	c.(2074-2076)TGC>CGC	p.C692R	HR_uc003xat.2_Missense_Mutation_p.C692R	NM_005144	NP_005135	O43593	HAIR_HUMAN	hairless protein isoform a	692							DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)|ovary(1)	2		Breast(100;0.000162)|Acute lymphoblastic leukemia(644;0.0775)|Prostate(55;0.116)		KIRC - Kidney renal clear cell carcinoma(542;1.19e-05)|BRCA - Breast invasive adenocarcinoma(99;3.56e-05)|Colorectal(74;0.00191)|COAD - Colon adenocarcinoma(73;0.0615)|READ - Rectum adenocarcinoma(644;0.1)														---	---	---	---
REEP4	80346	broad.mit.edu	37	8	21996021	21996021	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:21996021C>T	uc003xau.1	-	8	1206	c.753G>A	c.(751-753)GTG>GTA	p.V251V	REEP4_uc010ltt.1_3'UTR	NM_025232	NP_079508	Q9H6H4	REEP4_HUMAN	receptor accessory protein 4	251						integral to membrane				skin(1)	1				Colorectal(74;0.00187)|COAD - Colon adenocarcinoma(73;0.061)|READ - Rectum adenocarcinoma(644;0.0993)												OREG0018606	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
RBPMS	11030	broad.mit.edu	37	8	30402104	30402104	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:30402104C>T	uc003xic.1	+	6	1156	c.491C>T	c.(490-492)CCT>CTT	p.P164L	RBPMS_uc003xid.1_Missense_Mutation_p.P164L|RBPMS_uc003xie.1_Missense_Mutation_p.P164L|RBPMS_uc003xif.1_RNA|RBPMS_uc011lba.1_Missense_Mutation_p.P164L|RBPMS_uc003xib.2_Missense_Mutation_p.P164L|RBPMS_uc010lvh.1_Missense_Mutation_p.P60L	NM_006867	NP_006858	Q93062	RBPMS_HUMAN	RNA-binding protein with multiple splicing	164					positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	cytoplasm|nucleus	nucleotide binding|poly(A) RNA binding|protein binding|transcription coactivator activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(542;0.144)|Kidney(114;0.172)														---	---	---	---
PRKDC	5591	broad.mit.edu	37	8	48815306	48815306	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:48815306C>T	uc003xqi.2	-	27	3149	c.3092G>A	c.(3091-3093)CGG>CAG	p.R1031Q	PRKDC_uc003xqj.2_Missense_Mutation_p.R1031Q|PRKDC_uc011ldh.1_Missense_Mutation_p.R1031Q	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	1031	HEAT 2.				cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)											NHEJ					---	---	---	---
SNTG1	54212	broad.mit.edu	37	8	51664681	51664681	+	Intron	SNP	A	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:51664681A>C	uc010lxy.1	+						SNTG1_uc003xqs.1_Intron|SNTG1_uc010lxz.1_Intron|SNTG1_uc011ldl.1_Intron	NM_018967	NP_061840			syntrophin, gamma 1						cell communication	cytoplasm|cytoskeleton|nucleus|ruffle membrane|syntrophin complex	actin binding|protein C-terminus binding			ovary(5)	5		all_cancers(86;0.00754)|all_epithelial(80;9.76e-05)|Lung NSC(129;0.000865)|all_lung(136;0.00249)|Colorectal(162;0.22)																---	---	---	---
MOS	4342	broad.mit.edu	37	8	57026480	57026480	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:57026480G>A	uc011leb.1	-	1	62	c.62C>T	c.(61-63)GCG>GTG	p.A21V		NM_005372	NP_005363	P00540	MOS_HUMAN	v-mos Moloney murine sarcoma viral oncogene	21							ATP binding|protein binding|protein serine/threonine kinase activity			lung(2)|ovary(1)|central_nervous_system(1)	4			Epithelial(17;0.00117)|all cancers(17;0.00879)															---	---	---	---
CYP7B1	9420	broad.mit.edu	37	8	65528338	65528338	+	Missense_Mutation	SNP	A	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:65528338A>C	uc003xvj.2	-	3	964	c.760T>G	c.(760-762)TTA>GTA	p.L254V		NM_004820	NP_004811	O75881	CP7B1_HUMAN	cytochrome P450, family 7, subfamily B,	254					bile acid biosynthetic process|cell death|cholesterol metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	25-hydroxycholesterol 7alpha-hydroxylase activity|electron carrier activity|heme binding|oxysterol 7-alpha-hydroxylase activity			ovary(3)	3		all_cancers(86;0.217)|Lung NSC(129;0.0521)|all_lung(136;0.0906)|all_epithelial(80;0.215)																---	---	---	---
PREX2	80243	broad.mit.edu	37	8	69136868	69136868	+	Intron	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:69136868G>A	uc003xxv.1	+							NM_024870	NP_079146			DEP domain containing 2 isoform a						G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17																		---	---	---	---
MSC	9242	broad.mit.edu	37	8	72756294	72756294	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:72756294C>T	uc003xyx.1	-	1	438	c.120G>A	c.(118-120)TCG>TCA	p.S40S	uc011lff.1_Intron|uc003xyy.2_5'Flank	NM_005098	NP_005089	O60682	MUSC_HUMAN	musculin	40					transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity				0	Breast(64;0.176)		Epithelial(68;0.137)|BRCA - Breast invasive adenocarcinoma(89;0.203)															---	---	---	---
ZFHX4	79776	broad.mit.edu	37	8	77775680	77775680	+	Nonsense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:77775680C>T	uc003yav.2	+	11	9982	c.9595C>T	c.(9595-9597)CAG>TAG	p.Q3199*		NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	3195						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)												HNSCC(33;0.089)			---	---	---	---
DCAF4L2	138009	broad.mit.edu	37	8	88885305	88885305	+	Missense_Mutation	SNP	A	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:88885305A>C	uc003ydz.2	-	1	992	c.895T>G	c.(895-897)TTG>GTG	p.L299V		NM_152418	NP_689631	Q8NA75	DC4L2_HUMAN	WD repeat domain 21C	299	WD 1.									ovary(1)	1																		---	---	---	---
TP53INP1	94241	broad.mit.edu	37	8	95952350	95952350	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:95952350C>T	uc003yhg.2	-	3	595	c.211G>A	c.(211-213)GCA>ACA	p.A71T	C8orf38_uc003yhe.1_Intron|C8orf38_uc003yhf.2_Intron|TP53INP1_uc003yhh.2_Missense_Mutation_p.A71T	NM_033285	NP_150601	Q96A56	T53I1_HUMAN	tumor protein p53 inducible nuclear protein 1	71					apoptosis	PML body					0	Breast(36;8.75e-07)																	---	---	---	---
GDF6	392255	broad.mit.edu	37	8	97172784	97172784	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:97172784C>T	uc003yhp.2	-	1	237	c.137G>A	c.(136-138)CGC>CAC	p.R46H		NM_001001557	NP_001001557	Q6KF10	GDF6_HUMAN	growth differentiation factor 6 precursor	46					activin receptor signaling pathway|BMP signaling pathway|growth|pathway-restricted SMAD protein phosphorylation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity			ovary(1)|breast(1)|pancreas(1)	3	Breast(36;2.67e-05)																	---	---	---	---
MTDH	92140	broad.mit.edu	37	8	98703359	98703359	+	Missense_Mutation	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:98703359A>G	uc003yhz.2	+	6	1319	c.991A>G	c.(991-993)ACA>GCA	p.T331A	MTDH_uc010mbf.2_RNA	NM_178812	NP_848927	Q86UE4	LYRIC_HUMAN	metadherin	331	Cytoplasmic (Potential).				lipopolysaccharide-mediated signaling pathway|negative regulation of apoptosis|negative regulation of transcription from RNA polymerase II promoter|positive regulation of angiogenesis|positive regulation of autophagy|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of protein kinase B signaling cascade	apical plasma membrane|endoplasmic reticulum membrane|integral to membrane|intercellular canaliculus|nuclear body|nuclear membrane|nucleolus|perinuclear region of cytoplasm|tight junction	NF-kappaB binding|RNA polymerase II transcription factor binding|transcription coactivator activity			liver(1)|central_nervous_system(1)	2	Breast(36;2.56e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.178)															---	---	---	---
TAF2	6873	broad.mit.edu	37	8	120844733	120844733	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:120844733C>T	uc003you.2	-	1	342	c.72G>A	c.(70-72)AGG>AGA	p.R24R		NM_003184	NP_003175	Q6P1X5	TAF2_HUMAN	TBP-associated factor 2	24					G2/M transition of mitotic cell cycle|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	transcription factor TFIID complex|transcription factor TFTC complex	metallopeptidase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			large_intestine(2)|ovary(2)|kidney(1)|skin(1)	6	Lung NSC(37;9.35e-07)|Ovarian(258;0.011)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)															---	---	---	---
GSDMC	56169	broad.mit.edu	37	8	130765066	130765066	+	Missense_Mutation	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:130765066T>C	uc003ysr.2	-	7	1604	c.722A>G	c.(721-723)GAG>GGG	p.E241G		NM_031415	NP_113603	Q9BYG8	GSDMC_HUMAN	melanoma-derived leucine zipper, extra-nuclear	241						mitochondrion				ovary(2)|skin(1)	3																		---	---	---	---
ADCY8	114	broad.mit.edu	37	8	132002705	132002705	+	Silent	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:132002705T>C	uc003ytd.3	-	2	1300	c.1044A>G	c.(1042-1044)CAA>CAG	p.Q348Q	ADCY8_uc010mds.2_Silent_p.Q348Q	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	348	Cytoplasmic (Potential).				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)												HNSCC(32;0.087)			---	---	---	---
TG	7038	broad.mit.edu	37	8	133894712	133894712	+	Splice_Site	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:133894712A>G	uc003ytw.2	+	7	787	c.746_splice	c.e7-2	p.G249_splice		NM_003235	NP_003226			thyroglobulin precursor						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)														---	---	---	---
KCNK9	51305	broad.mit.edu	37	8	140715170	140715170	+	Silent	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:140715170G>A	uc003yvf.1	-	1	130	c.66C>T	c.(64-66)GGC>GGT	p.G22G	KCNK9_uc003yvg.1_Silent_p.G22G	NM_016601	NP_057685	Q9NPC2	KCNK9_HUMAN	potassium channel, subfamily K, member 9	22	Helical; (Potential).					integral to membrane|membrane fraction	potassium channel activity|voltage-gated ion channel activity	p.G22G(1)		ovary(2)|lung(1)	3	all_cancers(97;3.94e-14)|all_epithelial(106;4.81e-13)|Lung NSC(106;8.18e-05)|all_lung(105;0.00015)|Ovarian(258;0.00235)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;0.134)	BRCA - Breast invasive adenocarcinoma(115;0.0855)															---	---	---	---
EEF1D	1936	broad.mit.edu	37	8	144663432	144663432	+	Missense_Mutation	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:144663432T>C	uc011lki.1	-	4	525	c.256A>G	c.(256-258)AGT>GGT	p.S86G	NAPRT1_uc003yym.3_5'Flank|NAPRT1_uc003yyn.3_5'Flank|NAPRT1_uc011lkh.1_5'Flank|NAPRT1_uc003yyo.3_5'Flank|EEF1D_uc003yyp.1_Missense_Mutation_p.S428G|EEF1D_uc003yyq.1_Missense_Mutation_p.S502G|EEF1D_uc011lkj.1_Missense_Mutation_p.S451G|EEF1D_uc003yyr.2_Missense_Mutation_p.S452G|EEF1D_uc003yyt.2_Missense_Mutation_p.S452G|EEF1D_uc011lkk.1_Missense_Mutation_p.S86G|EEF1D_uc003yys.2_Missense_Mutation_p.S86G|EEF1D_uc003yyv.2_Missense_Mutation_p.S62G|EEF1D_uc003yyu.2_Missense_Mutation_p.S86G|EEF1D_uc011lkl.1_Intron	NM_001130057	NP_001123529	P29692	EF1D_HUMAN	eukaryotic translation elongation factor 1 delta	86					positive regulation of I-kappaB kinase/NF-kappaB cascade	cytosol|eukaryotic translation elongation factor 1 complex	protein binding|signal transducer activity|translation elongation factor activity			ovary(1)|kidney(1)|skin(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)		Colorectal(110;0.134)|BRCA - Breast invasive adenocarcinoma(115;0.239)															---	---	---	---
PLEC	5339	broad.mit.edu	37	8	144990831	144990831	+	Silent	SNP	G	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:144990831G>C	uc003zaf.1	-	32	13739	c.13569C>G	c.(13567-13569)CGC>CGG	p.R4523R	PLEC_uc003zab.1_Silent_p.R4386R|PLEC_uc003zac.1_Silent_p.R4390R|PLEC_uc003zad.2_Silent_p.R4386R|PLEC_uc003zae.1_Silent_p.R4354R|PLEC_uc003zag.1_Silent_p.R4364R|PLEC_uc003zah.2_Silent_p.R4372R|PLEC_uc003zaj.2_Silent_p.R4413R	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	4523	Plectin 32.|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																		---	---	---	---
PLEC	5339	broad.mit.edu	37	8	145003686	145003686	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:145003686G>A	uc003zaf.1	-	24	3558	c.3388C>T	c.(3388-3390)CGG>TGG	p.R1130W	PLEC_uc003zab.1_Missense_Mutation_p.R993W|PLEC_uc003zac.1_Missense_Mutation_p.R997W|PLEC_uc003zad.2_Missense_Mutation_p.R993W|PLEC_uc003zae.1_Missense_Mutation_p.R961W|PLEC_uc003zag.1_Missense_Mutation_p.R971W|PLEC_uc003zah.2_Missense_Mutation_p.R979W|PLEC_uc003zaj.2_Missense_Mutation_p.R1020W	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	1130	Globular 1.				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																		---	---	---	---
PLEC	5339	broad.mit.edu	37	8	145007530	145007530	+	Intron	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:145007530G>A	uc003zaf.1	-						PLEC_uc003zab.1_Intron|PLEC_uc003zac.1_Intron|PLEC_uc003zad.2_Intron|PLEC_uc003zae.1_Intron|PLEC_uc003zag.1_Intron|PLEC_uc003zah.2_Intron|PLEC_uc003zaj.2_Intron	NM_201380	NP_958782			plectin isoform 1						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																		---	---	---	---
LRRC14	9684	broad.mit.edu	37	8	145746833	145746833	+	Nonsense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:145746833C>T	uc003zdk.1	+	4	1599	c.1453C>T	c.(1453-1455)CGA>TGA	p.R485*	LRRC14_uc003zdl.1_Nonsense_Mutation_p.R485*|LRRC14_uc003zdo.2_5'Flank	NM_014665	NP_055480	Q15048	LRC14_HUMAN	leucine rich repeat containing 14	485											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)															---	---	---	---
SMARCA2	6595	broad.mit.edu	37	9	2056857	2056857	+	Intron	SNP	C	A	A	rs34020027		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:2056857C>A	uc003zhc.2	+						SMARCA2_uc003zhd.2_Intron|SMARCA2_uc010mha.2_Intron	NM_003070	NP_003061			SWI/SNF-related matrix-associated						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)														---	---	---	---
MPDZ	8777	broad.mit.edu	37	9	13168535	13168535	+	Silent	SNP	G	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:13168535G>T	uc010mia.1	-	21	3141	c.3084C>A	c.(3082-3084)GGC>GGA	p.G1028G	MPDZ_uc003zkz.3_5'UTR|MPDZ_uc010mhy.2_Silent_p.G1028G|MPDZ_uc010mhz.2_Silent_p.G1028G|MPDZ_uc011lmn.1_Silent_p.G1028G|MPDZ_uc003zlb.3_Silent_p.G1028G	NM_003829	NP_003820	O75970	MPDZ_HUMAN	multiple PDZ domain protein	1028	PDZ 6.				interspecies interaction between organisms	apical plasma membrane|dendrite|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	protein C-terminus binding			ovary(5)|central_nervous_system(1)	6				GBM - Glioblastoma multiforme(50;2.03e-06)														---	---	---	---
NFIB	4781	broad.mit.edu	37	9	14150269	14150269	+	Intron	SNP	G	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:14150269G>T	uc003zle.2	-						NFIB_uc003zld.2_Intron|NFIB_uc003zlf.2_Intron|NFIB_uc011lmo.1_Intron	NM_005596	NP_005587			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)				T	MYB|HGMA2	adenoid cystic carcinoma|lipoma								---	---	---	---
CNTLN	54875	broad.mit.edu	37	9	17332676	17332676	+	Missense_Mutation	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:17332676T>C	uc003zmz.2	+	10	1618	c.1592T>C	c.(1591-1593)CTG>CCG	p.L531P	CNTLN_uc003zmy.2_Missense_Mutation_p.L531P|CNTLN_uc010mio.2_Missense_Mutation_p.L210P	NM_017738	NP_060208	Q9NXG0	CNTLN_HUMAN	centlein isoform 1	531						centriole|membrane	two-component sensor activity			pancreas(1)	1				GBM - Glioblastoma multiforme(50;6.14e-10)														---	---	---	---
DDX58	23586	broad.mit.edu	37	9	32466278	32466278	+	Intron	SNP	G	C	C	rs883948	by1000genomes	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:32466278G>C	uc003zra.2	-						DDX58_uc010mjj.2_Intron|DDX58_uc010mji.2_Intron	NM_014314	NP_055129			DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide						detection of virus|innate immune response|negative regulation of type I interferon production|positive regulation of defense response to virus by host|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of transcription factor import into nucleus|positive regulation of transcription from RNA polymerase II promoter	cytosol	ATP binding|ATP-dependent helicase activity|double-stranded RNA binding|protein binding|zinc ion binding			ovary(2)|liver(1)|pancreas(1)	4			LUSC - Lung squamous cell carcinoma(29;0.00813)	GBM - Glioblastoma multiforme(74;0.00056)														---	---	---	---
UNC13B	10497	broad.mit.edu	37	9	35295726	35295726	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:35295726G>A	uc003zwq.2	+	8	852	c.560G>A	c.(559-561)CGA>CAA	p.R187Q	UNC13B_uc010mkl.1_Missense_Mutation_p.R187Q|UNC13B_uc003zwr.2_Missense_Mutation_p.R187Q	NM_006377	NP_006368	O14795	UN13B_HUMAN	UNC13 (C. elegans)-like	187					excretion|induction of apoptosis|intracellular signal transduction	cell junction|Golgi apparatus|synapse	metal ion binding|receptor activity			ovary(3)|large_intestine(1)|skin(1)	5	all_epithelial(49;0.212)		LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)|STAD - Stomach adenocarcinoma(86;0.194)															---	---	---	---
TESK1	7016	broad.mit.edu	37	9	35609504	35609504	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:35609504G>A	uc003zxa.2	+	10	1982	c.1646G>A	c.(1645-1647)CGG>CAG	p.R549Q	TESK1_uc003zwz.1_RNA|TESK1_uc010mks.2_Missense_Mutation_p.R389Q	NM_006285	NP_006276	Q15569	TESK1_HUMAN	testis-specific protein kinase 1	549					cell junction assembly|spermatogenesis	cytosol	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			stomach(2)|breast(2)|lung(1)|ovary(1)|skin(1)	7			Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)															---	---	---	---
ALDH1B1	219	broad.mit.edu	37	9	38395794	38395794	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:38395794G>A	uc004aay.2	+	2	161	c.49G>A	c.(49-51)GCC>ACC	p.A17T		NM_000692	NP_000683	P30837	AL1B1_HUMAN	aldehyde dehydrogenase 1B1 precursor	17					carbohydrate metabolic process	mitochondrial matrix|nucleus	aldehyde dehydrogenase (NAD) activity			skin(1)	1				GBM - Glioblastoma multiforme(29;0.043)|Lung(182;0.115)	NADH(DB00157)													---	---	---	---
AGTPBP1	23287	broad.mit.edu	37	9	88247586	88247586	+	Missense_Mutation	SNP	C	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:88247586C>A	uc011ltd.1	-	13	2039	c.2006G>T	c.(2005-2007)GGT>GTT	p.G669V	AGTPBP1_uc004aod.3_Missense_Mutation_p.G295V|AGTPBP1_uc011ltc.1_Missense_Mutation_p.G567V|AGTPBP1_uc010mqc.2_Missense_Mutation_p.G629V|AGTPBP1_uc011lte.1_Missense_Mutation_p.G681V	NM_015239	NP_056054	Q9UPW5	CBPC1_HUMAN	ATP/GTP binding protein 1	669					C-terminal protein deglutamylation|cerebellar Purkinje cell differentiation|eye photoreceptor cell differentiation|mitochondrion organization|neuromuscular process|olfactory bulb development|protein side chain deglutamylation|proteolysis	cytosol|mitochondrion|nucleus	metallocarboxypeptidase activity|tubulin binding|zinc ion binding			ovary(4)|large_intestine(2)|skin(1)	7																		---	---	---	---
C9orf129	445577	broad.mit.edu	37	9	96097655	96097655	+	Splice_Site	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:96097655C>T	uc010mre.2	-	3	729	c.365_splice	c.e3+1	p.K122_splice		NM_001098808	NP_001092278			hypothetical protein LOC445577											ovary(1)	1																		---	---	---	---
TSTD2	158427	broad.mit.edu	37	9	100367776	100367776	+	Missense_Mutation	SNP	G	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:100367776G>T	uc004axn.2	-	8	1590	c.1102C>A	c.(1102-1104)CTC>ATC	p.L368I	TSTD2_uc004axo.2_Missense_Mutation_p.L142I|TSTD2_uc004axp.1_Missense_Mutation_p.L142I	NM_139246	NP_640339	Q5T7W7	TSTD2_HUMAN	thiosulfate sulfurtransferase (rhodanese)-like	368	Rhodanese.									ovary(2)	2																		---	---	---	---
CORO2A	7464	broad.mit.edu	37	9	100892136	100892136	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:100892136C>T	uc004ayl.2	-	8	1173	c.907G>A	c.(907-909)GAC>AAC	p.D303N	CORO2A_uc004aym.2_Missense_Mutation_p.D303N|CORO2A_uc004ayk.2_5'Flank	NM_003389	NP_003380	Q92828	COR2A_HUMAN	coronin, actin binding protein, 2A	303	WD 5.				actin cytoskeleton organization|intracellular signal transduction	actin cytoskeleton|transcriptional repressor complex	actin filament binding			skin(2)|ovary(1)|pancreas(1)	4		Acute lymphoblastic leukemia(62;0.0559)																---	---	---	---
TBC1D2	55357	broad.mit.edu	37	9	101014129	101014129	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:101014129G>A	uc011lvb.1	-	2	629	c.449C>T	c.(448-450)GCA>GTA	p.A150V	TBC1D2_uc004ayq.2_Missense_Mutation_p.A150V|TBC1D2_uc004ayr.2_Intron|TBC1D2_uc004ayo.3_Missense_Mutation_p.A150V	NM_018421	NP_060891	Q9BYX2	TBD2A_HUMAN	TBC1 domain family, member 2	150	Interaction with CADH1.					cell junction|cytoplasmic membrane-bounded vesicle|nucleus	Rab GTPase activator activity			ovary(3)	3		Myeloproliferative disorder(762;0.0255)		OV - Ovarian serous cystadenocarcinoma(323;2.55e-37)														---	---	---	---
ACTL7B	10880	broad.mit.edu	37	9	111617137	111617137	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:111617137C>T	uc004bdi.2	-	1	1139	c.1074G>A	c.(1072-1074)GAG>GAA	p.E358E		NM_006686	NP_006677	Q9Y614	ACL7B_HUMAN	actin-like 7B	358						actin cytoskeleton|cytoplasm	structural constituent of cytoskeleton			pancreas(1)	1																		---	---	---	---
DFNB31	25861	broad.mit.edu	37	9	117168749	117168749	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:117168749G>A	uc004biz.3	-	9	2771	c.2122C>T	c.(2122-2124)CCC>TCC	p.P708S	DFNB31_uc004bix.2_Missense_Mutation_p.P357S|DFNB31_uc004biy.3_Missense_Mutation_p.P325S|DFNB31_uc004bja.3_Missense_Mutation_p.P708S	NM_015404	NP_056219	Q9P202	WHRN_HUMAN	CASK-interacting protein CIP98 isoform 1	708	Pro-rich.				inner ear receptor stereocilium organization|retina homeostasis|sensory perception of light stimulus|sensory perception of sound	cytoplasm|growth cone|stereocilium				ovary(4)|central_nervous_system(1)|pancreas(1)	6																		---	---	---	---
PAPPA	5069	broad.mit.edu	37	9	118974189	118974189	+	Nonsense_Mutation	SNP	C	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:118974189C>G	uc004bjn.2	+	4	2277	c.1896C>G	c.(1894-1896)TAC>TAG	p.Y632*	PAPPA_uc011lxp.1_Intron|PAPPA_uc011lxq.1_Intron	NM_002581	NP_002572	Q13219	PAPP1_HUMAN	pregnancy-associated plasma protein A	632					cell differentiation|female pregnancy	cytoplasm|extracellular region|membrane	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(4)|pancreas(1)	9																		---	---	---	---
DBC1	1620	broad.mit.edu	37	9	121929790	121929790	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:121929790G>A	uc004bkc.2	-	8	2314	c.1858C>T	c.(1858-1860)CGT>TGT	p.R620C		NM_014618	NP_055433	O60477	DBC1_HUMAN	deleted in bladder cancer 1 precursor	620					cell cycle arrest|cell death	cytoplasm	protein binding			skin(3)|ovary(2)|central_nervous_system(2)|large_intestine(1)	8																		---	---	---	---
OR5C1	392391	broad.mit.edu	37	9	125552005	125552005	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:125552005G>A	uc011lzd.1	+	1	794	c.794G>A	c.(793-795)CGC>CAC	p.R265H		NM_001001923	NP_001001923	Q8NGR4	OR5C1_HUMAN	olfactory receptor, family 5, subfamily C,	265	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1																		---	---	---	---
LMX1B	4010	broad.mit.edu	37	9	129377719	129377719	+	Missense_Mutation	SNP	G	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:129377719G>T	uc004bqj.2	+	2	178	c.128G>T	c.(127-129)CGC>CTC	p.R43L	LMX1B_uc004bqi.2_Missense_Mutation_p.R43L|LMX1B_uc011maa.1_Missense_Mutation_p.R43L	NM_002316	NP_002307	O60663	LMX1B_HUMAN	LIM homeobox transcription factor 1, beta	43	LIM zinc-binding 1.				dorsal/ventral pattern formation|in utero embryonic development	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0														Nail-Patella_Syndrome				---	---	---	---
LMX1B	4010	broad.mit.edu	37	9	129458217	129458217	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:129458217G>A	uc004bqj.2	+	7	967	c.917G>A	c.(916-918)AGC>AAC	p.S306N	LMX1B_uc004bqi.2_Missense_Mutation_p.S306N|LMX1B_uc011maa.1_Missense_Mutation_p.S317N	NM_002316	NP_002307	O60663	LMX1B_HUMAN	LIM homeobox transcription factor 1, beta	306					dorsal/ventral pattern formation|in utero embryonic development	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0														Nail-Patella_Syndrome				---	---	---	---
TOR2A	27433	broad.mit.edu	37	9	130495689	130495689	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:130495689G>A	uc004brs.3	-	3	623	c.568C>T	c.(568-570)CGC>TGC	p.R190C	TOR2A_uc004brt.3_Missense_Mutation_p.R190C|TOR2A_uc004brw.3_Missense_Mutation_p.R190C|TOR2A_uc011maj.1_3'UTR|TOR2A_uc004bru.3_Missense_Mutation_p.R28C|TOR2A_uc004brv.3_RNA|TOR2A_uc004brx.1_Missense_Mutation_p.R28C	NM_001085347	NP_001078816	Q5JU69	TOR2A_HUMAN	torsin family 2, member A isoform a	190					chaperone mediated protein folding requiring cofactor	endoplasmic reticulum|extracellular region	ATP binding|nucleoside-triphosphatase activity				0																		---	---	---	---
SH3GLB2	56904	broad.mit.edu	37	9	131771011	131771011	+	Silent	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:131771011G>A	uc004bwv.2	-	11	1286	c.1140C>T	c.(1138-1140)GGC>GGT	p.G380G	SH3GLB2_uc004bww.2_Silent_p.G389G|SH3GLB2_uc004bwx.1_Silent_p.G380G|SH3GLB2_uc011mbm.1_Silent_p.G389G	NM_020145	NP_064530	Q9NR46	SHLB2_HUMAN	SH3-domain GRB2-like endophilin B2	380	SH3.				filopodium assembly|signal transduction	cytoplasm|nucleus	cytoskeletal adaptor activity|SH3 domain binding				0																OREG0003926	type=REGULATORY REGION|Gene=SH3GLB2|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	---	---	---	---
C9orf78	51759	broad.mit.edu	37	9	132591762	132591762	+	Nonsense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:132591762G>A	uc004byp.2	-	7	673	c.601C>T	c.(601-603)CAG>TAG	p.Q201*	C9orf78_uc004byo.2_Nonsense_Mutation_p.Q126*|C9orf78_uc004byq.1_Nonsense_Mutation_p.Q147*	NM_016520	NP_057604	Q9NZ63	CI078_HUMAN	chromosome 9 open reading frame 78	201											0		Ovarian(14;0.00556)																---	---	---	---
Unknown	0	broad.mit.edu	37	9	133072263	133072263	+	IGR	SNP	G	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:133072263G>T								NCS1 (72680 upstream) : ASS1 (247831 downstream)																																			---	---	---	---
TTF1	7270	broad.mit.edu	37	9	135277489	135277489	+	Silent	SNP	C	T	T	rs143824332	byFrequency	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:135277489C>T	uc004cbl.2	-	2	772	c.720G>A	c.(718-720)TCG>TCA	p.S240S	TTF1_uc011mcp.1_RNA|TTF1_uc004cbm.2_Intron	NM_007344	NP_031370	Q15361	TTF1_HUMAN	transcription termination factor, RNA polymerase	240					negative regulation of DNA replication|regulation of transcription, DNA-dependent|termination of RNA polymerase I transcription	nucleolus|nucleoplasm	DNA binding	p.S240W(1)		ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;4.25e-06)|Epithelial(140;9.09e-05)														---	---	---	---
COL5A1	1289	broad.mit.edu	37	9	137681048	137681048	+	Silent	SNP	C	T	T	rs139394549		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:137681048C>T	uc004cfe.2	+	32	3076	c.2694C>T	c.(2692-2694)GGC>GGT	p.G898G		NM_000093	NP_000084	P20908	CO5A1_HUMAN	alpha 1 type V collagen preproprotein	898	Triple-helical region.				axon guidance|cell adhesion|collagen biosynthetic process|collagen fibril organization|eye morphogenesis|fibril organization|integrin biosynthetic process|skin development|wound healing, spreading of epidermal cells	collagen type V	heparin binding|integrin binding|platelet-derived growth factor binding|proteoglycan binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|kidney(1)	11		Myeloproliferative disorder(178;0.0341)		all cancers(34;2.28e-08)|OV - Ovarian serous cystadenocarcinoma(145;6.03e-08)|Epithelial(140;6.4e-08)|GBM - Glioblastoma multiforme(294;0.131)														---	---	---	---
NOTCH1	4851	broad.mit.edu	37	9	139412368	139412368	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:139412368G>A	uc004chz.2	-	8	1277	c.1277C>T	c.(1276-1278)GCG>GTG	p.A426V		NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	426	Extracellular (Potential).|EGF-like 11; calcium-binding (Potential).				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)				T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			---	---	---	---
FBXW5	54461	broad.mit.edu	37	9	139836005	139836005	+	Missense_Mutation	SNP	G	T	T	rs139795863	byFrequency	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:139836005G>T	uc004cjx.2	-	7	1379	c.1228C>A	c.(1228-1230)CTG>ATG	p.L410M	FBXW5_uc010nbx.2_RNA|FBXW5_uc004cjy.2_Missense_Mutation_p.L158M|FBXW5_uc004cjz.2_Missense_Mutation_p.L140M	NM_018998	NP_061871	Q969U6	FBXW5_HUMAN	F-box and WD repeat domain containing 5	410							catalytic activity|protein binding				0	all_cancers(76;0.11)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.19)	OV - Ovarian serous cystadenocarcinoma(145;7.8e-06)|Epithelial(140;0.000106)														---	---	---	---
COBRA1	25920	broad.mit.edu	37	9	140161524	140161524	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:140161524C>T	uc004cmm.3	+	9	1427	c.1224C>T	c.(1222-1224)CCC>CCT	p.P408P		NM_015456	NP_056271	Q8WX92	NELFB_HUMAN	cofactor of BRCA1	408					negative regulation of transcription, DNA-dependent|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	cytoplasm|nucleoplasm	protein binding				0	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.137)	OV - Ovarian serous cystadenocarcinoma(145;9.42e-05)|Epithelial(140;0.000766)														---	---	---	---
WDR85	92715	broad.mit.edu	37	9	140449886	140449886	+	Silent	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:140449886G>A	uc004cnk.1	-	9	1322	c.1164C>T	c.(1162-1164)GGC>GGT	p.G388G	WDR85_uc004cnj.1_Silent_p.G117G|WDR85_uc004cnl.1_Silent_p.G212G|WDR85_uc004cnm.1_Silent_p.G149G|WDR85_uc004cnn.1_Silent_p.G117G|WDR85_uc004cni.2_RNA	NM_138778	NP_620133	Q9BTV6	WDR85_HUMAN	WD repeat domain 85	388					peptidyl-diphthamide biosynthetic process from peptidyl-histidine						0	all_cancers(76;0.106)			OV - Ovarian serous cystadenocarcinoma(145;0.00029)|Epithelial(140;0.000509)														---	---	---	---
CACNA1B	774	broad.mit.edu	37	9	140772606	140772606	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:140772606C>T	uc004cog.2	+	1	366	c.221C>T	c.(220-222)TCG>TTG	p.S74L	uc004cof.1_Intron	NM_000718	NP_000709	Q00975	CAC1B_HUMAN	calcium channel, voltage-dependent, N type,	74	Cytoplasmic (Potential).				membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	ATP binding|protein C-terminus binding|voltage-gated calcium channel activity			breast(3)|large_intestine(2)|ovary(1)	6	all_cancers(76;0.166)			OV - Ovarian serous cystadenocarcinoma(145;1.16e-05)|Epithelial(140;0.000476)	Amlodipine(DB00381)|Gabapentin(DB00996)													---	---	---	---
ANKRD16	54522	broad.mit.edu	37	10	5920141	5920141	+	Silent	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:5920141T>C	uc010qat.1	-	7	1581	c.1038A>G	c.(1036-1038)CCA>CCG	p.P346P	ANKRD16_uc009xie.2_Intron|ANKRD16_uc009xif.2_Silent_p.P346P|ANKRD16_uc001iiq.2_3'UTR	NM_019046	NP_061919	Q6P6B7	ANR16_HUMAN	ankyrin repeat domain 16 isoform a	346											0																		---	---	---	---
OPTN	10133	broad.mit.edu	37	10	13169777	13169777	+	Silent	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:13169777A>G	uc001ilu.1	+	13	1713	c.1275A>G	c.(1273-1275)GAA>GAG	p.E425E	OPTN_uc001ilv.1_Silent_p.E425E|OPTN_uc001ilw.1_Silent_p.E425E|OPTN_uc001ilx.1_Silent_p.E425E|OPTN_uc001ily.1_Silent_p.E419E|OPTN_uc010qbr.1_Silent_p.E368E|OPTN_uc001ilz.1_Silent_p.E419E	NM_001008213	NP_001008214	Q96CV9	OPTN_HUMAN	optineurin	425	Potential.|Interaction with MYO6.|Interaction with HD.				cell death|Golgi ribbon formation|Golgi to plasma membrane protein transport|protein targeting to Golgi|signal transduction	perinuclear region of cytoplasm|trans-Golgi network	protein C-terminus binding			ovary(2)	2																		---	---	---	---
VIM	7431	broad.mit.edu	37	10	17271880	17271880	+	Silent	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:17271880G>A	uc001iou.2	+	2	872	c.459G>A	c.(457-459)GAG>GAA	p.E153E	uc001iot.1_RNA|VIM_uc001iov.1_Silent_p.E153E|VIM_uc001iow.1_RNA|VIM_uc001iox.1_Silent_p.E153E|VIM_uc001ioy.1_Silent_p.E153E|VIM_uc001ioz.1_RNA|VIM_uc001ipb.1_RNA|VIM_uc009xjv.1_Silent_p.E153E|VIM_uc001ipc.1_Silent_p.E153E	NM_003380	NP_003371	P08670	VIME_HUMAN	vimentin	153	Rod.|Linker 1.				cellular component disassembly involved in apoptosis|cellular component movement|interspecies interaction between organisms|muscle filament sliding	cytosol|intermediate filament	protein C-terminus binding|structural constituent of cytoskeleton			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4																		---	---	---	---
MLLT10	8028	broad.mit.edu	37	10	22022455	22022455	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:22022455C>T	uc001iqs.2	+	20	2826	c.2478C>T	c.(2476-2478)AAC>AAT	p.N826N	MLLT10_uc001iqt.2_Silent_p.N810N|MLLT10_uc001iqv.2_RNA|MLLT10_uc001iqy.2_Silent_p.N810N|MLLT10_uc001ira.2_Silent_p.N267N|MLLT10_uc001irb.2_RNA	NM_004641	NP_004632	P55197	AF10_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	826					positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(1)|skin(1)	2								T	MLL|PICALM|CDK6	AL								---	---	---	---
PTCHD3	374308	broad.mit.edu	37	10	27702585	27702585	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:27702585C>T	uc001itu.2	-	1	713	c.595G>A	c.(595-597)GCC>ACC	p.A199T		NM_001034842	NP_001030014	Q3KNS1	PTHD3_HUMAN	patched domain containing 3	199					spermatid development	integral to membrane	hedgehog receptor activity			ovary(2)|pancreas(1)|skin(1)	4																		---	---	---	---
SVIL	6840	broad.mit.edu	37	10	29777649	29777649	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:29777649G>A	uc001iut.1	-	23	4982	c.4229C>T	c.(4228-4230)GCG>GTG	p.A1410V	SVIL_uc010qdw.1_Missense_Mutation_p.A324V|SVIL_uc001iuu.1_Missense_Mutation_p.A984V|SVIL_uc009xlc.2_Missense_Mutation_p.A202V	NM_021738	NP_068506	O95425	SVIL_HUMAN	supervillin isoform 2	1410					cytoskeleton organization|skeletal muscle tissue development	cell junction|costamere|invadopodium|nucleus|podosome	actin filament binding			ovary(5)|upper_aerodigestive_tract(1)	6		Breast(68;0.103)																---	---	---	---
SVIL	6840	broad.mit.edu	37	10	29821472	29821472	+	Silent	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:29821472G>A	uc001iut.1	-	8	2577	c.1824C>T	c.(1822-1824)TGC>TGT	p.C608C	SVIL_uc001iuu.1_Intron|SVIL_uc009xld.1_Silent_p.C608C	NM_021738	NP_068506	O95425	SVIL_HUMAN	supervillin isoform 2	608					cytoskeleton organization|skeletal muscle tissue development	cell junction|costamere|invadopodium|nucleus|podosome	actin filament binding			ovary(5)|upper_aerodigestive_tract(1)	6		Breast(68;0.103)																---	---	---	---
SVIL	6840	broad.mit.edu	37	10	29840037	29840037	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:29840037C>T	uc001iut.1	-	6	1069	c.316G>A	c.(316-318)GCA>ACA	p.A106T	SVIL_uc001iuu.1_Missense_Mutation_p.A106T|SVIL_uc009xld.1_Missense_Mutation_p.A106T	NM_021738	NP_068506	O95425	SVIL_HUMAN	supervillin isoform 2	106	Interaction with MYLK (By similarity).				cytoskeleton organization|skeletal muscle tissue development	cell junction|costamere|invadopodium|nucleus|podosome	actin filament binding			ovary(5)|upper_aerodigestive_tract(1)	6		Breast(68;0.103)																---	---	---	---
MTPAP	55149	broad.mit.edu	37	10	30630507	30630507	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:30630507C>T	uc001iva.3	-	2	283	c.220G>A	c.(220-222)GCA>ACA	p.A74T	MTPAP_uc001ivb.3_Missense_Mutation_p.A204T|MTPAP_uc001ivc.2_Missense_Mutation_p.A74T	NM_018109	NP_060579	Q9NVV4	PAPD1_HUMAN	PAP associated domain containing 1 precursor	74					cell death|histone mRNA catabolic process|mRNA polyadenylation|transcription, DNA-dependent	mitochondrion	ATP binding|magnesium ion binding|manganese ion binding|polynucleotide adenylyltransferase activity|protein homodimerization activity|RNA binding|UTP binding			ovary(1)	1																		---	---	---	---
ZEB1	6935	broad.mit.edu	37	10	31791274	31791274	+	Splice_Site	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:31791274A>G	uc001ivs.3	+	4	383	c.320_splice	c.e4-2	p.V107_splice	ZEB1_uc001ivr.3_Splice_Site|ZEB1_uc010qee.1_Splice_Site|ZEB1_uc010qef.1_Splice_Site|ZEB1_uc009xlh.1_Splice_Site|ZEB1_uc009xli.1_Splice_Site|ZEB1_uc009xlj.1_Intron|ZEB1_uc010qeg.1_Intron|ZEB1_uc009xlk.1_Splice_Site|ZEB1_uc001ivt.3_Splice_Site|ZEB1_uc001ivu.3_Splice_Site_p.V108_splice|ZEB1_uc001ivv.3_Splice_Site_p.I87_splice|ZEB1_uc010qeh.1_Splice_Site_p.V40_splice|ZEB1_uc009xll.2_Splice_Site|ZEB1_uc009xlm.1_Splice_Site|ZEB1_uc009xln.1_Splice_Site|ZEB1_uc009xlo.1_Splice_Site_p.V90_splice|ZEB1_uc009xlp.2_Splice_Site_p.V91_splice	NM_030751	NP_110378			zinc finger E-box binding homeobox 1 isoform b						cell proliferation|immune response|negative regulation of transcription from RNA polymerase II promoter|positive regulation of neuron differentiation	cytoplasm	E-box binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(3)|central_nervous_system(2)	5		Prostate(175;0.0156)																---	---	---	---
ITGB1	3688	broad.mit.edu	37	10	33214797	33214797	+	Splice_Site	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:33214797A>G	uc001iws.3	-	6	922	c.786_splice	c.e6+1	p.G262_splice	ITGB1_uc001iwp.3_Splice_Site_p.G262_splice|ITGB1_uc001iwq.3_Splice_Site_p.G262_splice|ITGB1_uc001iwr.3_Splice_Site_p.G262_splice|ITGB1_uc001iwt.3_Splice_Site_p.G262_splice|ITGB1_uc001iwu.1_Splice_Site_p.G262_splice	NM_133376	NP_596867			integrin beta 1 isoform 1A precursor						axon guidance|blood coagulation|cell-cell adhesion mediated by integrin|cell-matrix adhesion|cellular defense response|homophilic cell adhesion|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte cell-cell adhesion|leukocyte migration|positive regulation of apoptosis|regulation of immune response	cell surface|cleavage furrow|focal adhesion|melanosome|neuromuscular junction|ruffle|sarcolemma	identical protein binding|protein heterodimerization activity|receptor activity			upper_aerodigestive_tract(1)|ovary(1)	2		Ovarian(717;1.34e-05)|Breast(68;0.0634)																---	---	---	---
ANK3	288	broad.mit.edu	37	10	61868606	61868606	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:61868606G>A	uc001jky.2	-	27	3347	c.3155C>T	c.(3154-3156)GCA>GTA	p.A1052V	ANK3_uc001jkw.2_Missense_Mutation_p.A186V|ANK3_uc009xpa.2_Missense_Mutation_p.A186V|ANK3_uc001jkx.2_Missense_Mutation_p.A230V|ANK3_uc010qih.1_Missense_Mutation_p.A1053V|ANK3_uc001jkz.3_Missense_Mutation_p.A1046V|ANK3_uc001jla.1_Missense_Mutation_p.A118V|ANK3_uc001jlb.1_Missense_Mutation_p.A570V	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	1052	ZU5.				establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19																		---	---	---	---
JMJD1C	221037	broad.mit.edu	37	10	64954095	64954095	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:64954095C>T	uc001jmn.2	-	14	5985	c.5685G>A	c.(5683-5685)CAG>CAA	p.Q1895Q	JMJD1C_uc001jml.2_Silent_p.Q1676Q|JMJD1C_uc001jmm.2_Silent_p.Q1607Q|JMJD1C_uc010qiq.1_Silent_p.Q1713Q|JMJD1C_uc009xpi.2_Silent_p.Q1713Q|JMJD1C_uc009xpj.1_RNA|JMJD1C_uc009xpk.1_Silent_p.Q793Q	NM_032776	NP_116165	Q15652	JHD2C_HUMAN	jumonji domain containing 1C isoform a	1895					blood coagulation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	histone demethylase activity (H3-K9 specific)|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|thyroid hormone receptor binding			ovary(4)|breast(1)|central_nervous_system(1)	6	Prostate(12;0.0119)|all_hematologic(501;0.191)																	---	---	---	---
NODAL	4838	broad.mit.edu	37	10	72195099	72195099	+	Silent	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:72195099G>A	uc001jrc.2	-	2	876	c.834C>T	c.(832-834)GGC>GGT	p.G278G		NM_018055	NP_060525	Q96S42	NODAL_HUMAN	nodal precursor	278					growth	extracellular space	cytokine activity|growth factor activity			large_intestine(1)|kidney(1)	2																		---	---	---	---
PRF1	5551	broad.mit.edu	37	10	72358611	72358611	+	Missense_Mutation	SNP	G	A	A	rs150628656	byFrequency	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:72358611G>A	uc009xqg.2	-	3	1027	c.866C>T	c.(865-867)ACG>ATG	p.T289M	PRF1_uc001jrf.3_Missense_Mutation_p.T289M	NM_001083116	NP_001076585	P14222	PERF_HUMAN	perforin 1 precursor	289	MACPF.				apoptosis|cellular defense response|cytolysis|defense response to tumor cell|defense response to virus|immune response to tumor cell|protein homooligomerization	cytolytic granule|endosome lumen|extracellular region|integral to membrane|plasma membrane	calcium ion binding|protein binding|wide pore channel activity			large_intestine(1)|ovary(1)|central_nervous_system(1)	3								M			various leukaemia|lymphoma	Type 2 familial hemophagocytic lymphohistiocytosis		Familial_Hemophagocytic_Lymphohistiocytosis				---	---	---	---
UNC5B	219699	broad.mit.edu	37	10	73046593	73046593	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:73046593C>T	uc001jro.2	+	5	1145	c.700C>T	c.(700-702)CGC>TGC	p.R234C	UNC5B_uc001jrp.2_Missense_Mutation_p.R234C	NM_170744	NP_734465	Q8IZJ1	UNC5B_HUMAN	unc-5 homolog B precursor	234	Ig-like C2-type.|Extracellular (Potential).				apoptosis|axon guidance|regulation of apoptosis	integral to membrane				ovary(2)|lung(1)	3																		---	---	---	---
SYNPO2L	79933	broad.mit.edu	37	10	75406786	75406786	+	Missense_Mutation	SNP	G	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:75406786G>T	uc001jut.3	-	4	2776	c.2624C>A	c.(2623-2625)GCC>GAC	p.A875D	SYNPO2L_uc001jus.3_Missense_Mutation_p.A651D	NM_001114133	NP_001107605	Q9H987	SYP2L_HUMAN	synaptopodin 2-like isoform a	875	Pro-rich.					cytoplasm|cytoskeleton	actin binding			ovary(1)	1	Prostate(51;0.0112)																	---	---	---	---
DLG5	9231	broad.mit.edu	37	10	79554615	79554615	+	Missense_Mutation	SNP	C	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:79554615C>A	uc001jzk.2	-	30	5608	c.5538G>T	c.(5536-5538)AAG>AAT	p.K1846N	DLG5_uc001jzi.2_Missense_Mutation_p.K601N|DLG5_uc001jzj.2_Missense_Mutation_p.K1261N	NM_004747	NP_004738	Q8TDM6	DLG5_HUMAN	discs large homolog 5	1846	Guanylate kinase-like.				cell-cell adhesion|intracellular signal transduction|negative regulation of cell proliferation|regulation of apoptosis	cell junction|cytoplasm	beta-catenin binding|cytoskeletal protein binding|receptor signaling complex scaffold activity			ovary(5)|breast(3)	8	all_cancers(46;0.0316)|all_epithelial(25;0.00147)|Breast(12;0.0015)|Prostate(51;0.0146)		Epithelial(14;0.00105)|OV - Ovarian serous cystadenocarcinoma(4;0.00151)|all cancers(16;0.00446)															---	---	---	---
LRIT2	340745	broad.mit.edu	37	10	85981859	85981859	+	Silent	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:85981859G>A	uc001kcy.2	-	3	1478	c.1470C>T	c.(1468-1470)TGC>TGT	p.C490C	LRIT2_uc010qmc.1_Silent_p.C500C	NM_001017924	NP_001017924	A6NDA9	LRIT2_HUMAN	leucine rich repeat containing 22 precursor	490						integral to membrane				ovary(2)	2																		---	---	---	---
GRID1	2894	broad.mit.edu	37	10	87482810	87482810	+	Silent	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:87482810T>C	uc001kdl.1	-	12	2048	c.1947A>G	c.(1945-1947)ACA>ACG	p.T649T	GRID1_uc009xsu.1_RNA|GRID1_uc010qmf.1_Silent_p.T220T	NM_017551	NP_060021	Q9ULK0	GRID1_HUMAN	glutamate receptor, ionotropic, delta 1	649	Helical; (Potential).					cell junction|integral to membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(5)|upper_aerodigestive_tract(2)|large_intestine(2)|central_nervous_system(1)	10					L-Glutamic Acid(DB00142)										Multiple Myeloma(13;0.14)			---	---	---	---
BTAF1	9044	broad.mit.edu	37	10	93784638	93784638	+	Silent	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:93784638T>C	uc001khr.2	+	35	5087	c.4989T>C	c.(4987-4989)GAT>GAC	p.D1663D		NM_003972	NP_003963	O14981	BTAF1_HUMAN	BTAF1 RNA polymerase II, B-TFIID transcription	1663	Helicase C-terminal.				negative regulation of transcription, DNA-dependent	nucleus	ATP binding|DNA binding|helicase activity|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.0846)																---	---	---	---
MYOF	26509	broad.mit.edu	37	10	95095752	95095752	+	Missense_Mutation	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:95095752A>G	uc001kin.2	-	41	4612	c.4489T>C	c.(4489-4491)TTC>CTC	p.F1497L	MYOF_uc001kio.2_Missense_Mutation_p.F1484L|MYOF_uc009xue.2_RNA	NM_013451	NP_038479	Q9NZM1	MYOF_HUMAN	myoferlin isoform a	1497	Cytoplasmic (Potential).				blood circulation|muscle contraction|plasma membrane repair	caveola|cytoplasmic vesicle membrane|integral to membrane|nuclear membrane	phospholipid binding|protein binding			ovary(3)|breast(1)	4																		---	---	---	---
MORN4	118812	broad.mit.edu	37	10	99377076	99377076	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:99377076C>T	uc001kob.3	-	3	342	c.71G>A	c.(70-72)CGC>CAC	p.R24H	PI4K2A_uc010qoy.1_Intron|MORN4_uc001koc.3_Missense_Mutation_p.R82H|MORN4_uc001kod.3_Silent_p.P114P|MORN4_uc001koe.2_Missense_Mutation_p.R24H|uc001kof.1_5'Flank	NM_178832	NP_849154	Q8NDC4	MORN4_HUMAN	MORN repeat containing 4	24	MORN 1.										0																		---	---	---	---
CNNM1	26507	broad.mit.edu	37	10	101089442	101089442	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:101089442G>A	uc001kpp.3	+	1	587	c.298G>A	c.(298-300)GGC>AGC	p.G100S	CNNM1_uc009xwe.2_Missense_Mutation_p.G100S|CNNM1_uc010qpi.1_Missense_Mutation_p.G100S|CNNM1_uc009xwf.2_Missense_Mutation_p.G100S	NM_020348	NP_065081	Q9NRU3	CNNM1_HUMAN	cyclin M1	100					ion transport	integral to membrane|plasma membrane					0		Colorectal(252;0.234)		Epithelial(162;6.82e-10)|all cancers(201;5.62e-08)														---	---	---	---
GSTO2	119391	broad.mit.edu	37	10	106059034	106059034	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:106059034C>T	uc001kyb.2	+	7	1352	c.724C>T	c.(724-726)CTG>TTG	p.L242L	GSTO2_uc010qqx.1_Silent_p.L208L|GSTO2_uc001kyc.2_Silent_p.L214L|GSTO2_uc010qqy.1_3'UTR|uc001kyd.1_5'Flank	NM_183239	NP_899062	Q9H4Y5	GSTO2_HUMAN	glutathione S-transferase omega 2	242					water-soluble vitamin metabolic process|xenobiotic metabolic process	cytosol	glutathione transferase activity			ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.178)		Epithelial(162;1.14e-09)|all cancers(201;3.89e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0155)	Glutathione(DB00143)													---	---	---	---
SORCS3	22986	broad.mit.edu	37	10	107006974	107006974	+	Intron	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:107006974C>T	uc001kyi.1	+						SORCS3_uc010qqz.1_Intron	NM_014978	NP_055793			VPS10 domain receptor protein SORCS 3 precursor							integral to membrane	neuropeptide receptor activity			ovary(6)|skin(3)|central_nervous_system(1)	10		Colorectal(252;0.134)|Breast(234;0.142)|Lung NSC(174;0.191)		Epithelial(162;1.58e-07)|all cancers(201;1.02e-05)|BRCA - Breast invasive adenocarcinoma(275;0.0628)														---	---	---	---
ATRNL1	26033	broad.mit.edu	37	10	117075095	117075095	+	Silent	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:117075095T>C	uc001lcg.2	+	18	3272	c.2886T>C	c.(2884-2886)AAT>AAC	p.N962N	ATRNL1_uc010qsm.1_Silent_p.N137N|ATRNL1_uc010qsn.1_RNA	NM_207303	NP_997186	Q5VV63	ATRN1_HUMAN	attractin-like 1 precursor	962	PSI 5.|Extracellular (Potential).					integral to membrane	sugar binding			ovary(5)|lung(1)|central_nervous_system(1)	7		all_lung(145;0.0686)|Breast(234;0.0969)|Lung NSC(174;0.17)|Colorectal(252;0.234)		Epithelial(162;0.00031)|all cancers(201;0.000753)|LUSC - Lung squamous cell carcinoma(1;0.0515)|Lung(30;0.0827)														---	---	---	---
FGFR2	2263	broad.mit.edu	37	10	123244911	123244911	+	Silent	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:123244911T>C	uc010qtk.1	-	17	2840	c.2193A>G	c.(2191-2193)GAA>GAG	p.E731E	FGFR2_uc010qtg.1_Silent_p.E619E|FGFR2_uc010qth.1_Silent_p.E616E|FGFR2_uc010qti.1_Silent_p.E642E|FGFR2_uc010qtj.1_Silent_p.E732E|FGFR2_uc010qtl.1_Silent_p.E615E|FGFR2_uc010qtm.1_Silent_p.E614E|FGFR2_uc001lfl.3_Silent_p.E732E|FGFR2_uc001lfm.2_Silent_p.E643E|FGFR2_uc001lfg.3_Silent_p.E339E|FGFR2_uc001lfk.1_5'Flank	NM_000141	NP_000132	P21802	FGFR2_HUMAN	fibroblast growth factor receptor 2 isoform 1	731	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)		5	Mis		gastric. NSCLC|endometrial		Crouzon|Pfeiffer|and Apert syndromes		Apert_syndrome|Saethre-Chotzen_syndrome				---	---	---	---
TACC2	10579	broad.mit.edu	37	10	123847368	123847368	+	Missense_Mutation	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:123847368A>G	uc001lfv.2	+	4	5713	c.5353A>G	c.(5353-5355)ATT>GTT	p.I1785V	TACC2_uc001lfw.2_Intron|TACC2_uc009xzx.2_Missense_Mutation_p.I1785V|TACC2_uc010qtv.1_Missense_Mutation_p.I1785V	NM_206862	NP_996744	O95359	TACC2_HUMAN	transforming, acidic coiled-coil containing	1785						microtubule organizing center|nucleus	nuclear hormone receptor binding			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10		all_neural(114;0.0656)|Lung NSC(174;0.136)|all_lung(145;0.17)|Breast(234;0.197)																---	---	---	---
DMBT1	1755	broad.mit.edu	37	10	124337331	124337331	+	Silent	SNP	C	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:124337331C>A	uc001lgk.1	+	8	718	c.612C>A	c.(610-612)GCC>GCA	p.A204A	DMBT1_uc001lgl.1_Silent_p.A204A|DMBT1_uc001lgm.1_Silent_p.A204A|DMBT1_uc009xzz.1_Silent_p.A204A|DMBT1_uc010qtx.1_Intron|DMBT1_uc009yaa.1_Silent_p.A56A	NM_007329	NP_015568	Q9UGM3	DMBT1_HUMAN	deleted in malignant brain tumors 1 isoform b	204					epithelial cell differentiation|induction of bacterial agglutination|innate immune response|interspecies interaction between organisms|protein transport|response to virus	extrinsic to membrane|phagocytic vesicle membrane|zymogen granule membrane	calcium-dependent protein binding|Gram-negative bacterial cell surface binding|Gram-positive bacterial cell surface binding|pattern recognition receptor activity|scavenger receptor activity|zymogen binding			central_nervous_system(7)	7		all_neural(114;0.0765)|Lung NSC(174;0.132)|all_lung(145;0.163)|Breast(234;0.238)																---	---	---	---
CPXM2	119587	broad.mit.edu	37	10	125601941	125601941	+	Nonsense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:125601941G>A	uc001lhk.1	-	4	902	c.577C>T	c.(577-579)CAG>TAG	p.Q193*	CPXM2_uc001lhj.2_RNA	NM_198148	NP_937791	Q8N436	CPXM2_HUMAN	carboxypeptidase X (M14 family), member 2	193	F5/8 type C.				cell adhesion|proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2		all_lung(145;0.174)|Colorectal(57;0.178)|Glioma(114;0.222)|all_neural(114;0.226)|Lung NSC(174;0.233)		COAD - Colon adenocarcinoma(40;0.212)|Colorectal(40;0.237)														---	---	---	---
DOCK1	1793	broad.mit.edu	37	10	128926004	128926004	+	Silent	SNP	C	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:128926004C>A	uc001ljt.2	+	27	2824	c.2760C>A	c.(2758-2760)TCC>TCA	p.S920S	DOCK1_uc010qun.1_Silent_p.S941S	NM_001380	NP_001371	Q14185	DOCK1_HUMAN	dedicator of cytokinesis 1	920					apoptosis|axon guidance|blood coagulation|integrin-mediated signaling pathway|phagocytosis, engulfment|small GTPase mediated signal transduction	cytosol|membrane	GTP binding|GTPase activator activity|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding			central_nervous_system(4)|ovary(2)|lung(1)|breast(1)|kidney(1)	9		all_epithelial(44;2.3e-07)|all_lung(145;0.00466)|Lung NSC(174;0.00685)|Colorectal(57;0.0107)|Renal(717;0.0113)|Breast(234;0.0492)|all_neural(114;0.108)|all_hematologic(284;0.14)		BRCA - Breast invasive adenocarcinoma(275;0.0221)|Colorectal(40;0.115)														---	---	---	---
FAM196A	642938	broad.mit.edu	37	10	128974096	128974096	+	Missense_Mutation	SNP	C	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:128974096C>A	uc001lju.1	-	1	605	c.564G>T	c.(562-564)TTG>TTT	p.L188F	DOCK1_uc001ljt.2_Intron|DOCK1_uc010qun.1_Intron|FAM196A_uc010quo.1_Missense_Mutation_p.L188F|FAM196A_uc001ljv.1_Missense_Mutation_p.L188F|FAM196A_uc009yap.1_Missense_Mutation_p.L188F	NM_001039762	NP_001034851	Q6ZSG2	F196A_HUMAN	hypothetical protein LOC642938	188										ovary(2)	2																		---	---	---	---
MKI67	4288	broad.mit.edu	37	10	129900837	129900837	+	Intron	SNP	T	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:129900837T>G	uc001lke.2	-						MKI67_uc001lkf.2_Intron	NM_002417	NP_002408			antigen identified by monoclonal antibody Ki-67						cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)																---	---	---	---
PWWP2B	170394	broad.mit.edu	37	10	134218991	134218991	+	Silent	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:134218991G>A	uc001lll.3	+	2	1016	c.987G>A	c.(985-987)CCG>CCA	p.P329P	PWWP2B_uc009ybe.2_Silent_p.P329P	NM_138499	NP_612508	Q6NUJ5	PWP2B_HUMAN	PWWP domain containing 2 isoform 1	329											0		all_cancers(35;6.69e-12)|all_epithelial(44;1.55e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00144)|all_neural(114;0.0299)|Breast(234;0.106)|Colorectal(31;0.109)|Melanoma(40;0.123)|Glioma(114;0.203)|all_hematologic(284;0.224)		OV - Ovarian serous cystadenocarcinoma(35;7.49e-05)|Epithelial(32;0.00016)|all cancers(32;0.000186)														---	---	---	---
KNDC1	85442	broad.mit.edu	37	10	135020777	135020777	+	Missense_Mutation	SNP	A	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:135020777A>C	uc001llz.1	+	20	3717	c.3716A>C	c.(3715-3717)AAG>ACG	p.K1239T		NM_152643	NP_689856	Q76NI1	VKIND_HUMAN	kinase non-catalytic C-lobe domain (KIND)	1239					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction					upper_aerodigestive_tract(1)|ovary(1)	2		all_cancers(35;4.16e-10)|all_epithelial(44;2.07e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00145)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.173)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;8.77e-06)|Epithelial(32;1.13e-05)|all cancers(32;1.51e-05)														---	---	---	---
TUBGCP2	10844	broad.mit.edu	37	10	135102440	135102440	+	Missense_Mutation	SNP	C	T	T	rs148597749	by1000genomes	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:135102440C>T	uc001lmg.1	-	10	1802	c.1445G>A	c.(1444-1446)CGG>CAG	p.R482Q	TUBGCP2_uc001lmf.1_Missense_Mutation_p.R75Q|TUBGCP2_uc010qvc.1_Missense_Mutation_p.R510Q|TUBGCP2_uc009ybk.1_Missense_Mutation_p.R482Q|TUBGCP2_uc010qvd.1_Missense_Mutation_p.R352Q|TUBGCP2_uc001lmh.1_RNA	NM_006659	NP_006650	Q9BSJ2	GCP2_HUMAN	tubulin, gamma complex associated protein 2	482					G2/M transition of mitotic cell cycle|microtubule nucleation|protein complex assembly	centrosome|cytoplasmic microtubule|cytosol|spindle pole	protein binding				0		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;8.87e-06)|all cancers(32;8.98e-06)|Epithelial(32;1.15e-05)														---	---	---	---
BRSK2	9024	broad.mit.edu	37	11	1469024	1469024	+	Intron	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:1469024G>A	uc001lti.2	+						BRSK2_uc009ycv.1_Intron|BRSK2_uc001lth.1_Intron|BRSK2_uc001ltj.2_Intron|BRSK2_uc001ltk.2_Intron|BRSK2_uc001ltl.2_Intron|BRSK2_uc001ltm.2_Intron|BRSK2_uc001ltn.2_Intron|BRSK2_uc010qwx.1_Intron|BRSK2_uc009ycw.2_5'Flank	NM_003957	NP_003948			BR serine/threonine kinase 2						establishment of cell polarity|neuron differentiation		ATP binding|magnesium ion binding|protein serine/threonine kinase activity				0		all_epithelial(84;4.17e-05)|Breast(177;0.000307)|Ovarian(85;0.0014)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00144)|Lung(200;0.0713)|LUSC - Lung squamous cell carcinoma(625;0.0842)														---	---	---	---
MRGPRE	116534	broad.mit.edu	37	11	3249927	3249927	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:3249927C>T	uc001lxq.3	-	2	410	c.100G>A	c.(100-102)GGC>AGC	p.G34S		NM_001039165	NP_001034254	Q86SM8	MRGRE_HUMAN	MAS-related GPR, member E	34	Helical; Name=1; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			large_intestine(1)|ovary(1)	2		Medulloblastoma(188;0.00106)|all_epithelial(84;0.00111)|Breast(177;0.00328)|Ovarian(85;0.00556)|all_neural(188;0.00681)		BRCA - Breast invasive adenocarcinoma(625;0.00529)|LUSC - Lung squamous cell carcinoma(625;0.19)														---	---	---	---
OR52B4	143496	broad.mit.edu	37	11	4389524	4389524	+	Missense_Mutation	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:4389524A>G	uc010qye.1	-	1	2	c.2T>C	c.(1-3)ATG>ACG	p.M1T		NM_001005161	NP_001005161	Q8NGK2	O52B4_HUMAN	olfactory receptor, family 52, subfamily B,	1	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|Breast(177;0.0249)|all_neural(188;0.0577)		Epithelial(150;1.57e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0826)|LUSC - Lung squamous cell carcinoma(625;0.19)														---	---	---	---
HBB	3043	broad.mit.edu	37	11	5248013	5248013	+	Missense_Mutation	SNP	G	C	C	rs33948615		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:5248013G>C	uc001mae.1	-	2	159	c.109C>G	c.(109-111)CCT>GCT	p.P37A		NM_000518	NP_000509	P68871	HBB_HUMAN	beta globin	37			P -> T (in Linkoping/Finlandia; O(2) affinity up).|P -> R (in Sunnybrook).|P -> S (in North Chicago; O(2) affinity up).		blood coagulation|hydrogen peroxide catabolic process|nitric oxide transport|positive regulation of cell death|positive regulation of nitric oxide biosynthetic process|protein heterooligomerization|regulation of blood pressure|regulation of blood vessel size	haptoglobin-hemoglobin complex|hemoglobin complex	heme binding|hemoglobin binding|oxygen binding|oxygen transporter activity			central_nervous_system(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;2.76e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)	Iron Dextran(DB00893)									Sickle_Cell_Trait				---	---	---	---
ILK	3611	broad.mit.edu	37	11	6630183	6630183	+	Missense_Mutation	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:6630183A>G	uc001mee.2	+	6	652	c.517A>G	c.(517-519)ACC>GCC	p.T173A	ILK_uc001mef.2_Missense_Mutation_p.T173A|ILK_uc010rap.1_Missense_Mutation_p.T39A|ILK_uc010raq.1_Silent_p.P140P|ILK_uc001meg.2_Missense_Mutation_p.T19A|ILK_uc001meh.2_Missense_Mutation_p.T173A|ILK_uc001mei.2_5'Flank	NM_001014794	NP_001014794	Q13418	ILK_HUMAN	integrin-linked kinase	173	ANK 5.				cell junction assembly|cell proliferation|cell-matrix adhesion|integrin-mediated signaling pathway|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of phosphorylation|positive regulation of transcription, DNA-dependent	cytosol|focal adhesion	ATP binding|protein serine/threonine kinase activity			central_nervous_system(1)	1		Breast(177;7.61e-05)|Medulloblastoma(188;0.00263)|all_neural(188;0.026)|all_lung(207;0.152)		Epithelial(150;5.49e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00012)|Lung(200;0.00942)|LUSC - Lung squamous cell carcinoma(625;0.0163)														---	---	---	---
OR10A4	283297	broad.mit.edu	37	11	6898607	6898607	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:6898607C>T	uc010rat.1	+	1	729	c.729C>T	c.(727-729)TCC>TCT	p.S243S		NM_207186	NP_997069	Q9H209	O10A4_HUMAN	olfactory receptor, family 10, subfamily A,	243	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.78e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)														---	---	---	---
AMPD3	272	broad.mit.edu	37	11	10483178	10483178	+	Missense_Mutation	SNP	C	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:10483178C>A	uc001mio.1	+	2	447	c.112C>A	c.(112-114)CTG>ATG	p.L38M	AMPD3_uc010rbz.1_Translation_Start_Site|AMPD3_uc001min.1_Missense_Mutation_p.L47M|AMPD3_uc009yfw.1_RNA|AMPD3_uc009yfx.1_Missense_Mutation_p.L38M|AMPD3_uc009yfz.2_RNA|AMPD3_uc001mip.1_Missense_Mutation_p.L45M|AMPD3_uc009yfy.2_Missense_Mutation_p.L38M	NM_001025389	NP_001020560	Q01432	AMPD3_HUMAN	adenosine monophosphate deaminase 3 isoform 1B	38					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)														---	---	---	---
LYVE1	10894	broad.mit.edu	37	11	10582327	10582327	+	Missense_Mutation	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:10582327T>C	uc001miv.2	-	4	704	c.418A>G	c.(418-420)ATT>GTT	p.I140V	uc001miu.2_Intron|LYVE1_uc010rca.1_Missense_Mutation_p.I36V	NM_006691	NP_006682	Q9Y5Y7	LYVE1_HUMAN	lymphatic vessel endothelial hyaluronan receptor	140	Extracellular (Potential).				anatomical structure morphogenesis|cell-matrix adhesion|cellular component movement|response to wounding|transport	integral to plasma membrane|membrane fraction				central_nervous_system(1)|skin(1)	2				all cancers(16;7.22e-08)|Epithelial(150;1.03e-07)|BRCA - Breast invasive adenocarcinoma(625;0.0609)														---	---	---	---
ABCC8	6833	broad.mit.edu	37	11	17483306	17483306	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:17483306G>A	uc001mnc.2	-	5	772	c.646C>T	c.(646-648)CGC>TGC	p.R216C	ABCC8_uc010rcy.1_Missense_Mutation_p.R216C	NM_000352	NP_000343	Q09428	ABCC8_HUMAN	ATP-binding cassette, sub-family C, member 8	216	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)													---	---	---	---
ELF5	2001	broad.mit.edu	37	11	34502322	34502322	+	Missense_Mutation	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:34502322A>G	uc001mvo.1	-	6	928	c.698T>C	c.(697-699)CTG>CCG	p.L233P	ELF5_uc001mvp.1_Missense_Mutation_p.L223P|ELF5_uc009ykd.1_Missense_Mutation_p.L128P	NM_198381	NP_938195	Q9UKW6	ELF5_HUMAN	E74-like factor 5 ESE-2a	233	ETS.				cell proliferation|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1		Acute lymphoblastic leukemia(5;0.0087)|all_hematologic(20;0.0384)																---	---	---	---
TSPAN18	90139	broad.mit.edu	37	11	44931350	44931350	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:44931350C>T	uc001mye.3	+	3	319	c.158C>T	c.(157-159)ACG>ATG	p.T53M	TP53I11_uc001myf.1_Intron|TSPAN18_uc001myg.2_Missense_Mutation_p.T53M	NM_130783	NP_570139	Q96SJ8	TSN18_HUMAN	tetraspanin 18 isoform 2	53	Helical; (Potential).					integral to membrane					0																		---	---	---	---
OR4C46	119749	broad.mit.edu	37	11	51515361	51515361	+	Missense_Mutation	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:51515361T>C	uc010ric.1	+	1	80	c.80T>C	c.(79-81)GTT>GCT	p.V27A		NM_001004703	NP_001004703	A6NHA9	O4C46_HUMAN	olfactory receptor, family 4, subfamily C,	27	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1																		---	---	---	---
OR4P4	81300	broad.mit.edu	37	11	55405899	55405899	+	Missense_Mutation	SNP	A	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:55405899A>C	uc010rij.1	+	1	66	c.66A>C	c.(64-66)GAA>GAC	p.E22D		NM_001004124	NP_001004124	Q8NGL7	OR4P4_HUMAN	olfactory receptor, family 4, subfamily P,	22	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1																		---	---	---	---
OR5W2	390148	broad.mit.edu	37	11	55681941	55681941	+	Missense_Mutation	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:55681941A>G	uc010rir.1	-	1	118	c.118T>C	c.(118-120)TCA>CCA	p.S40P		NM_001001960	NP_001001960	Q8NH69	OR5W2_HUMAN	olfactory receptor, family 5, subfamily W,	40	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2																		---	---	---	---
OR5W2	390148	broad.mit.edu	37	11	55681953	55681953	+	Missense_Mutation	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:55681953T>C	uc010rir.1	-	1	106	c.106A>G	c.(106-108)ATC>GTC	p.I36V		NM_001001960	NP_001001960	Q8NH69	OR5W2_HUMAN	olfactory receptor, family 5, subfamily W,	36	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2																		---	---	---	---
OR9G9	504191	broad.mit.edu	37	11	56467894	56467894	+	Missense_Mutation	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:56467894T>C	uc010rjn.1	+	1	31	c.31T>C	c.(31-33)TTT>CTT	p.F11L		NM_001013358	NP_001013376	P0C7N8	OR9G9_HUMAN	olfactory receptor, family 9, subfamily G,	11	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0																		---	---	---	---
CTNND1	1500	broad.mit.edu	37	11	57575717	57575717	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:57575717G>A	uc001nmc.3	+	13	2615	c.2044G>A	c.(2044-2046)GAA>AAA	p.E682K	CTNND1_uc001nlh.1_Missense_Mutation_p.E682K|CTNND1_uc001nlu.3_Missense_Mutation_p.E575K|CTNND1_uc001nlt.3_Missense_Mutation_p.E575K|CTNND1_uc001nls.3_Missense_Mutation_p.E575K|CTNND1_uc001nlw.3_Missense_Mutation_p.E575K|CTNND1_uc001nmf.3_Missense_Mutation_p.E682K|CTNND1_uc001nmd.3_Missense_Mutation_p.E628K|CTNND1_uc001nlk.3_Missense_Mutation_p.E628K|CTNND1_uc001nme.3_Missense_Mutation_p.E676K|CTNND1_uc001nll.3_Missense_Mutation_p.E622K|CTNND1_uc001nmg.3_Missense_Mutation_p.E622K|CTNND1_uc001nlj.3_Missense_Mutation_p.E622K|CTNND1_uc001nlr.3_Missense_Mutation_p.E622K|CTNND1_uc001nlp.3_Missense_Mutation_p.E622K|CTNND1_uc001nlx.3_Missense_Mutation_p.E359K|CTNND1_uc001nlz.3_Missense_Mutation_p.E359K|CTNND1_uc009ymn.2_Missense_Mutation_p.E353K|CTNND1_uc001nlm.3_Missense_Mutation_p.E676K|CTNND1_uc001nly.3_Missense_Mutation_p.E353K|CTNND1_uc001nmb.3_Missense_Mutation_p.E353K|CTNND1_uc001nma.3_Missense_Mutation_p.E353K|CTNND1_uc001nmi.3_Missense_Mutation_p.E581K|CTNND1_uc001nmh.3_Missense_Mutation_p.E676K|CTNND1_uc001nlq.3_Missense_Mutation_p.E581K|CTNND1_uc001nln.3_Missense_Mutation_p.E676K|CTNND1_uc001nli.3_Missense_Mutation_p.E676K|CTNND1_uc001nlo.3_Missense_Mutation_p.E575K|CTNND1_uc001nlv.3_Missense_Mutation_p.E575K	NM_001085458	NP_001078927	O60716	CTND1_HUMAN	catenin, delta 1 isoform 1ABC	682	ARM 7.				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)																---	---	---	---
ZFP91	80829	broad.mit.edu	37	11	58378437	58378437	+	Missense_Mutation	SNP	A	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:58378437A>T	uc001nmx.3	+	5	800	c.632A>T	c.(631-633)GAG>GTG	p.E211V	ZFP91_uc001nmy.3_Missense_Mutation_p.E210V|ZFP91-CNTF_uc010rkm.1_RNA	NM_053023	NP_444251	Q96JP5	ZFP91_HUMAN	zinc finger protein 91	211	Glu-rich.				activation of NF-kappaB-inducing kinase activity|protein K63-linked ubiquitination	nucleus	nucleic acid binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1		Breast(21;0.00725)|all_epithelial(135;0.0101)|all_lung(304;0.24)																---	---	---	---
PATL1	219988	broad.mit.edu	37	11	59416970	59416970	+	Silent	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:59416970A>G	uc001noe.3	-	14	1841	c.1698T>C	c.(1696-1698)TAT>TAC	p.Y566Y	PATL1_uc009yms.1_Silent_p.Y536Y|PATL1_uc010rkw.1_Silent_p.Y271Y	NM_152716	NP_689929	Q86TB9	PATL1_HUMAN	protein associated with topoisomerase II homolog	566	Region C.				cytoplasmic mRNA processing body assembly|deadenylation-dependent decapping of nuclear-transcribed mRNA	cytoplasmic mRNA processing body	protein binding|RNA binding			ovary(1)	1																		---	---	---	---
STX3	6809	broad.mit.edu	37	11	59564791	59564791	+	Silent	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:59564791G>A	uc001nog.2	+	10	1012	c.822G>A	c.(820-822)TTG>TTA	p.L274L	STX3_uc010rkx.1_Intron|STX3_uc010rky.1_Intron|STX3_uc009ymt.1_Silent_p.L140L	NM_004177	NP_004168	Q13277	STX3_HUMAN	syntaxin 3	274	Helical; Anchor for type IV membrane protein; (Potential).				cellular response to oxidative stress|intracellular protein transport|neuron projection development|neurotransmitter transport	apical plasma membrane|azurophil granule|cell-cell junction|growth cone|integral to membrane|plasma membrane enriched fraction|SNARE complex|specific granule	arachidonic acid binding|SNAP receptor activity			ovary(2)	2																		---	---	---	---
INCENP	3619	broad.mit.edu	37	11	61917561	61917561	+	Silent	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:61917561G>A	uc001nsw.1	+	18	2626	c.2424G>A	c.(2422-2424)CCG>CCA	p.P808P	INCENP_uc001nsx.1_Silent_p.P804P|INCENP_uc001nsy.1_Silent_p.P222P	NM_001040694	NP_001035784	Q9NQS7	INCE_HUMAN	inner centromere protein antigens 135/155kDa	808					chromosome segregation|cytokinesis|mitotic prometaphase	centromeric heterochromatin|condensed chromosome kinetochore|cytosol|microtubule|spindle	protein binding			lung(1)	1																		---	---	---	---
PYGM	5837	broad.mit.edu	37	11	64525753	64525753	+	Missense_Mutation	SNP	C	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:64525753C>A	uc001oax.3	-	4	1310	c.493G>T	c.(493-495)GGG>TGG	p.G165W	PYGM_uc001oay.3_Intron	NM_005609	NP_005600	P11217	PYGM_HUMAN	muscle glycogen phosphorylase isoform 1	165					glucose metabolic process|glycogen catabolic process	cytosol	glycogen phosphorylase activity|protein binding			ovary(2)	2					Pyridoxal Phosphate(DB00114)													---	---	---	---
SYVN1	84447	broad.mit.edu	37	11	64897791	64897791	+	Missense_Mutation	SNP	C	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:64897791C>G	uc001odb.2	-	12	1260	c.1166G>C	c.(1165-1167)GGC>GCC	p.G389A	SYVN1_uc001odc.2_Missense_Mutation_p.G389A|SYVN1_uc009yqc.2_Missense_Mutation_p.G338A	NM_172230	NP_757385	Q86TM6	SYVN1_HUMAN	synoviolin 1 isoform b	389	Pro-rich.|Cytoplasmic (Potential).				ER-associated protein catabolic process|response to stress	endoplasmic reticulum membrane|integral to membrane|nucleus	acid-amino acid ligase activity|protein binding|zinc ion binding			ovary(1)	1																		---	---	---	---
LTBP3	4054	broad.mit.edu	37	11	65321785	65321785	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:65321785G>A	uc001oej.2	-	2	667	c.398C>T	c.(397-399)CCG>CTG	p.P133L	LTBP3_uc010roi.1_Missense_Mutation_p.P16L|LTBP3_uc001oei.2_Missense_Mutation_p.P133L|LTBP3_uc010roj.1_Intron|LTBP3_uc010rok.1_Missense_Mutation_p.P44L	NM_001130144	NP_001123616	Q9NS15	LTBP3_HUMAN	latent transforming growth factor beta binding	133	EGF-like 1.|Gly-rich.					extracellular region	calcium ion binding|growth factor binding			central_nervous_system(2)|lung(1)	3																		---	---	---	---
CABP4	57010	broad.mit.edu	37	11	67226097	67226097	+	Intron	SNP	C	A	A	rs72934713	byFrequency;by1000genomes	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:67226097C>A	uc001olo.2	+						CABP4_uc001oln.2_Intron	NM_145200	NP_660201			calcium binding protein 4						visual perception	cytoplasm|extracellular region|terminal button	calcium ion binding				0			BRCA - Breast invasive adenocarcinoma(15;8.18e-06)															---	---	---	---
TCIRG1	10312	broad.mit.edu	37	11	67818098	67818098	+	Missense_Mutation	SNP	T	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:67818098T>G	uc001one.2	+	19	2489	c.2381T>G	c.(2380-2382)CTC>CGC	p.L794R	TCIRG1_uc001ong.2_Missense_Mutation_p.L578R|TCIRG1_uc001onh.2_Missense_Mutation_p.L496R|TCIRG1_uc001oni.2_Missense_Mutation_p.L298R|TCIRG1_uc009ysd.2_Intron	NM_006019	NP_006010	Q13488	VPP3_HUMAN	T-cell, immune regulator 1 isoform a	794	Cytoplasmic (Potential).				ATP hydrolysis coupled proton transport|cellular defense response|cellular iron ion homeostasis|insulin receptor signaling pathway|positive regulation of cell proliferation|transferrin transport	apical plasma membrane|endosome membrane|integral to plasma membrane|proton-transporting two-sector ATPase complex, proton-transporting domain	hydrogen ion transmembrane transporter activity			ovary(1)	1																		---	---	---	---
P2RY6	5031	broad.mit.edu	37	11	73007624	73007624	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:73007624C>T	uc001otm.2	+	4	466	c.61C>T	c.(61-63)CGC>TGC	p.R21C	P2RY6_uc001otn.2_Missense_Mutation_p.R21C|P2RY6_uc001oto.2_Missense_Mutation_p.R21C|P2RY6_uc001otp.2_Missense_Mutation_p.R21C|P2RY6_uc001otq.2_Missense_Mutation_p.R21C|P2RY6_uc001otr.2_Missense_Mutation_p.R21C|P2RY6_uc001ots.2_Missense_Mutation_p.R21C	NM_176796	NP_789766	Q15077	P2RY6_HUMAN	pyrimidinergic receptor P2Y6	21	Extracellular (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger	integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(1)	1																		---	---	---	---
C2CD3	26005	broad.mit.edu	37	11	73748596	73748596	+	Silent	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:73748596G>A	uc001ouu.2	-	30	6035	c.5808C>T	c.(5806-5808)AGC>AGT	p.S1936S	C2CD3_uc001out.2_RNA	NM_015531	NP_056346	Q4AC94	C2CD3_HUMAN	C2 calcium-dependent domain containing 3	1936						centrosome				ovary(4)|pancreas(2)|skin(1)	7	Breast(11;4.16e-06)																	---	---	---	---
SYTL2	54843	broad.mit.edu	37	11	85428536	85428536	+	Intron	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:85428536G>A	uc010rth.1	-						SYTL2_uc010rtg.1_Intron|SYTL2_uc010rti.1_Silent_p.C551C|SYTL2_uc010rtj.1_Silent_p.C503C|SYTL2_uc001pav.2_5'Flank|SYTL2_uc010rte.1_5'UTR|SYTL2_uc001pax.2_5'UTR|SYTL2_uc001paz.2_5'UTR|SYTL2_uc001pba.2_5'UTR|SYTL2_uc001pay.2_Intron|SYTL2_uc001paw.2_5'UTR|SYTL2_uc009yvj.2_RNA|SYTL2_uc001pbd.2_Silent_p.C873C|SYTL2_uc001pbb.2_Silent_p.C873C|SYTL2_uc001pbc.2_Intron|SYTL2_uc010rtf.1_Intron	NM_001162951	NP_001156423			synaptotagmin-like 2 isoform g						intracellular protein transport|vesicle docking involved in exocytosis	exocytic vesicle|extrinsic to plasma membrane|melanosome|membrane fraction	neurexin binding|phosphatidylinositol-4,5-bisphosphate binding|phosphatidylserine binding|Rab GTPase binding			ovary(2)|large_intestine(1)	3		Acute lymphoblastic leukemia(157;4.19e-06)|all_hematologic(158;0.0033)		KIRC - Kidney renal clear cell carcinoma(183;0.202)|Kidney(183;0.237)														---	---	---	---
CEP164	22897	broad.mit.edu	37	11	117261607	117261607	+	Silent	SNP	A	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:117261607A>T	uc001prc.2	+	16	2196	c.2049A>T	c.(2047-2049)GCA>GCT	p.A683A	CEP164_uc001prb.2_Silent_p.A686A|CEP164_uc010rxk.1_Silent_p.A657A|CEP164_uc001prf.2_RNA|CEP164_uc009yzp.1_RNA|CEP164_uc001prg.1_Silent_p.A116A	NM_014956	NP_055771	Q9UPV0	CE164_HUMAN	centrosomal protein 164kDa	683	Glu-rich.				cell division|DNA repair|G2/M transition of mitotic cell cycle|mitosis	centriole|cytosol|nucleus				ovary(1)|central_nervous_system(1)	2	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;4e-05)|Epithelial(105;0.0008)														---	---	---	---
AMICA1	120425	broad.mit.edu	37	11	118083204	118083204	+	Missense_Mutation	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:118083204A>G	uc001psk.2	-	3	290	c.116T>C	c.(115-117)CTG>CCG	p.L39P	AMICA1_uc001psh.2_5'UTR|AMICA1_uc009yzw.1_RNA|AMICA1_uc001psi.2_Missense_Mutation_p.L29P|AMICA1_uc001psj.2_Missense_Mutation_p.L39P|AMICA1_uc010rxw.1_5'UTR|AMICA1_uc010rxx.1_Missense_Mutation_p.L39P|AMICA1_uc001psl.1_Intron	NM_001098526	NP_001091996	Q86YT9	JAML1_HUMAN	adhesion molecule, interacts with CXADR antigen	39	Ig-like V-type 1.|Extracellular (Potential).				blood coagulation|cell adhesion|leukocyte migration|regulation of immune response	cell junction|integral to membrane				ovary(1)	1	all_hematologic(175;0.046)	Medulloblastoma(222;0.0425)|Breast(348;0.181)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.4e-05)														---	---	---	---
MLL	4297	broad.mit.edu	37	11	118359351	118359351	+	Missense_Mutation	SNP	G	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:118359351G>T	uc001pta.2	+	11	4378	c.4355G>T	c.(4354-4356)TGT>TTT	p.C1452F	MLL_uc001ptb.2_Missense_Mutation_p.C1452F|MLL_uc001pte.1_RNA	NM_005933	NP_005924	Q03164	MLL1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	1452	PHD-type 1.				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)				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								---	---	---	---
TECTA	7007	broad.mit.edu	37	11	120989148	120989148	+	Missense_Mutation	SNP	A	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:120989148A>C	uc010rzo.1	+	6	924	c.924A>C	c.(922-924)AAA>AAC	p.K308N		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	308	VWFC.				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)														---	---	---	---
TECTA	7007	broad.mit.edu	37	11	120996139	120996139	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:120996139C>T	uc010rzo.1	+	7	1332	c.1332C>T	c.(1330-1332)TAC>TAT	p.Y444Y		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	444	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)														---	---	---	---
ZNF202	7753	broad.mit.edu	37	11	123601252	123601252	+	Missense_Mutation	SNP	C	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:123601252C>A	uc001pzd.1	-	4	745	c.345G>T	c.(343-345)GAG>GAT	p.E115D	ZNF202_uc001pzc.1_Translation_Start_Site|ZNF202_uc001pze.1_Missense_Mutation_p.E115D|ZNF202_uc001pzf.1_Missense_Mutation_p.E115D	NM_003455	NP_003446	O95125	ZN202_HUMAN	zinc finger protein 202	115	SCAN box.				lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter|viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1		Breast(109;0.00204)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.03)														---	---	---	---
OR8B2	26595	broad.mit.edu	37	11	124252382	124252382	+	Silent	SNP	G	A	A	rs2320232		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:124252382G>A	uc010sai.1	-	1	858	c.858C>T	c.(856-858)CCC>CCT	p.P286P		NM_001005468	NP_001005468	Q96RD0	OR8B2_HUMAN	olfactory receptor, family 8, subfamily B,	286	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0277)														---	---	---	---
SRPR	6734	broad.mit.edu	37	11	126135974	126135974	+	Missense_Mutation	SNP	G	A	A	rs138456100	byFrequency	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:126135974G>A	uc001qdh.2	-	8	986	c.935C>T	c.(934-936)GCG>GTG	p.A312V	SRPR_uc010sbm.1_Missense_Mutation_p.A284V	NM_003139	NP_003130	P08240	SRPR_HUMAN	signal recognition particle receptor	312					SRP-dependent cotranslational protein targeting to membrane	integral to membrane|signal recognition particle receptor complex	GTP binding|GTPase activity|receptor activity|signal recognition particle binding				0	all_hematologic(175;0.145)			BRCA - Breast invasive adenocarcinoma(274;1.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0736)														---	---	---	---
GLB1L2	89944	broad.mit.edu	37	11	134241040	134241040	+	Missense_Mutation	SNP	C	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:134241040C>A	uc001qhp.2	+	13	1542	c.1354C>A	c.(1354-1356)CAG>AAG	p.Q452K	GLB1L2_uc009zdg.1_RNA	NM_138342	NP_612351	Q8IW92	GLBL2_HUMAN	galactosidase, beta 1-like 2 precursor	452					carbohydrate metabolic process	extracellular region	cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(1)|pancreas(1)|skin(1)	3	all_hematologic(175;0.127)	all_cancers(12;2.85e-18)|all_epithelial(12;1.21e-12)|all_lung(97;0.000276)|Lung NSC(97;0.000518)|Breast(109;0.00122)|Medulloblastoma(222;0.0399)|all_neural(223;0.0412)|Esophageal squamous(93;0.0844)		Epithelial(10;1.37e-11)|all cancers(11;2.2e-10)|BRCA - Breast invasive adenocarcinoma(10;3.09e-10)|OV - Ovarian serous cystadenocarcinoma(99;0.000885)|Lung(977;0.223)														---	---	---	---
CD27	939	broad.mit.edu	37	12	6554270	6554270	+	Silent	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:6554270G>A	uc001qod.2	+	1	220	c.9G>A	c.(7-9)CGG>CGA	p.R3R	LOC678655_uc001qob.2_Intron|LOC678655_uc001qoc.2_Intron|LOC678655_uc009zel.1_Intron|CD27_uc001qoe.2_5'Flank	NM_001242	NP_001233	P26842	CD27_HUMAN	tumor necrosis factor receptor superfamily,	3					anti-apoptosis|apoptosis|cell surface receptor linked signaling pathway|immunoglobulin mediated immune response|induction of apoptosis|positive regulation of B cell differentiation|positive regulation of JNK cascade|release of cytoplasmic sequestered NF-kappaB	extracellular region|integral to plasma membrane	caspase inhibitor activity|protein binding|transmembrane receptor activity				0																		---	---	---	---
CHD4	1108	broad.mit.edu	37	12	6697051	6697051	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:6697051C>T	uc001qpo.2	-	24	3694	c.3530G>A	c.(3529-3531)CGT>CAT	p.R1177H	CHD4_uc001qpn.2_Missense_Mutation_p.R1170H|CHD4_uc001qpp.2_Missense_Mutation_p.R1174H	NM_001273	NP_001264	Q14839	CHD4_HUMAN	chromodomain helicase DNA binding protein 4	1177	Helicase C-terminal.				chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|zinc ion binding			central_nervous_system(2)	2																		---	---	---	---
A2M	2	broad.mit.edu	37	12	9243902	9243902	+	Silent	SNP	G	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:9243902G>T	uc001qvk.1	-	19	2477	c.2364C>A	c.(2362-2364)GCC>GCA	p.A788A	A2M_uc009zgk.1_Silent_p.A638A	NM_000014	NP_000005	P01023	A2MG_HUMAN	alpha-2-macroglobulin precursor	788					blood coagulation, intrinsic pathway|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|extracellular space|platelet alpha granule lumen	enzyme binding|GTPase activator activity|interleukin-1 binding|interleukin-8 binding|serine-type endopeptidase inhibitor activity|tumor necrosis factor binding			central_nervous_system(4)|skin(1)	5					Bacitracin(DB00626)|Becaplermin(DB00102)													---	---	---	---
CD69	969	broad.mit.edu	37	12	9907700	9907700	+	Silent	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:9907700T>C	uc001qwk.2	-	3	426	c.345A>G	c.(343-345)GAA>GAG	p.E115E	CD69_uc010sgu.1_Silent_p.E115E|CD69_uc010sgv.1_Silent_p.E115E	NM_001781	NP_001772	Q07108	CD69_HUMAN	CD69 molecule	115	C-type lectin.|Extracellular (Potential).					integral to plasma membrane	sugar binding|transmembrane receptor activity				0																		---	---	---	---
MANSC1	54682	broad.mit.edu	37	12	12491412	12491412	+	Silent	SNP	G	A	A	rs147279934		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:12491412G>A	uc001rai.1	-	3	564	c.306C>T	c.(304-306)AAC>AAT	p.N102N	MANSC1_uc010shm.1_Silent_p.N36N|MANSC1_uc001raj.1_Silent_p.N68N|MANSC1_uc009zht.1_Silent_p.N21N	NM_018050	NP_060520	Q9H8J5	MANS1_HUMAN	MANSC domain containing 1 precursor	102	MANSC.|Extracellular (Potential).					integral to membrane					0		Prostate(47;0.0865)		BRCA - Breast invasive adenocarcinoma(232;0.185)														---	---	---	---
SLCO1B3	28234	broad.mit.edu	37	12	21229503	21229503	+	Missense_Mutation	SNP	G	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:21229503G>T	uc010sil.1	+	15	2113	c.2048G>T	c.(2047-2049)GGA>GTA	p.G683V	LST-3TM12_uc010sim.1_Missense_Mutation_p.G622V|LST-3TM12_uc010sin.1_Missense_Mutation_p.G575V			Q9NPD5	SO1B3_HUMAN	SubName: Full=Liver-specific organic anion transporter 3TM13; SubName: Full=Organic anion transporter LST-3c;	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|cytoplasm|integral to plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(2)|ovary(1)|skin(1)	4	Esophageal squamous(101;0.149)																	---	---	---	---
HDAC7	51564	broad.mit.edu	37	12	48183343	48183343	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:48183343G>A	uc010slo.1	-	18	2305	c.2110C>T	c.(2110-2112)CGG>TGG	p.R704W	HDAC7_uc009zku.2_Intron|HDAC7_uc001rqe.2_Missense_Mutation_p.R138W|HDAC7_uc001rqj.3_Missense_Mutation_p.R667W|HDAC7_uc001rqk.3_Missense_Mutation_p.R687W|HDAC7_uc010slp.1_5'Flank	NM_015401	NP_056216	Q8WUI4	HDAC7_HUMAN	histone deacetylase 7 isoform a	665	Histone deacetylase.			R -> W (in Ref. 5; BAA91474).	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)														---	---	---	---
GPD1	2819	broad.mit.edu	37	12	50499353	50499353	+	Missense_Mutation	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:50499353A>G	uc001rvz.2	+	3	275	c.242A>G	c.(241-243)CAG>CGG	p.Q81R	GPD1_uc010smp.1_Missense_Mutation_p.Q81R|GPD1_uc001rwa.2_Intron	NM_005276	NP_005267	P21695	GPDA_HUMAN	glycerol-3-phosphate dehydrogenase 1 (soluble)	81					glycerol-3-phosphate catabolic process|triglyceride biosynthetic process	cytosol|glycerol-3-phosphate dehydrogenase complex	glycerol-3-phosphate dehydrogenase|protein homodimerization activity				0					NADH(DB00157)													---	---	---	---
KRT73	319101	broad.mit.edu	37	12	53004555	53004555	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:53004555G>A	uc001sas.2	-	7	1210	c.1175C>T	c.(1174-1176)GCC>GTC	p.A392V		NM_175068	NP_778238	Q86Y46	K2C73_HUMAN	keratin 73	392	Rod.|Coil 2.					keratin filament	structural molecule activity			large_intestine(2)|ovary(2)|skin(2)	6				BRCA - Breast invasive adenocarcinoma(357;0.189)														---	---	---	---
KRT8	3856	broad.mit.edu	37	12	53298482	53298482	+	Missense_Mutation	SNP	A	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:53298482A>T	uc001sbd.2	-	1	387	c.284T>A	c.(283-285)ATC>AAC	p.I95N	KRT8_uc009zmj.2_Missense_Mutation_p.I95N|KRT8_uc009zmk.1_Missense_Mutation_p.I123N|KRT8_uc009zml.1_Missense_Mutation_p.I95N|KRT8_uc009zmm.1_Missense_Mutation_p.I95N	NM_002273	NP_002264	P05787	K2C8_HUMAN	keratin 8	95	Coil 1A.|Rod.				cytoskeleton organization|interspecies interaction between organisms	cytoplasm|keratin filament|nuclear matrix|nucleoplasm	protein binding|structural molecule activity			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(357;0.108)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)													---	---	---	---
ERBB3	2065	broad.mit.edu	37	12	56482560	56482560	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:56482560C>T	uc001sjh.2	+	9	1210	c.1017C>T	c.(1015-1017)CGC>CGT	p.R339R	ERBB3_uc009zoj.2_Intron|ERBB3_uc010sqb.1_Intron|ERBB3_uc010sqc.1_Silent_p.R280R|ERBB3_uc001sji.2_Silent_p.R30R	NM_001982	NP_001973	P21860	ERBB3_HUMAN	erbB-3 isoform 1 precursor	339	Extracellular (Potential).				cranial nerve development|heart development|negative regulation of cell adhesion|negative regulation of neuron apoptosis|negative regulation of secretion|negative regulation of signal transduction|neuron apoptosis|phosphatidylinositol 3-kinase cascade|positive regulation of phosphatidylinositol 3-kinase cascade|regulation of cell proliferation|Schwann cell differentiation|transmembrane receptor protein tyrosine kinase signaling pathway|wound healing	basolateral plasma membrane|extracellular space|integral to plasma membrane|receptor complex	ATP binding|growth factor binding|protein heterodimerization activity|protein homodimerization activity|protein tyrosine kinase activator activity|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(3)|central_nervous_system(2)|stomach(1)|ovary(1)|skin(1)	8			OV - Ovarian serous cystadenocarcinoma(18;0.112)															---	---	---	---
ANKRD52	283373	broad.mit.edu	37	12	56642004	56642004	+	Missense_Mutation	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:56642004T>C	uc001skm.3	-	18	1871	c.1781A>G	c.(1780-1782)TAC>TGC	p.Y594C		NM_173595	NP_775866	Q8NB46	ANR52_HUMAN	ankyrin repeat domain 52	594	ANK 17.						protein binding			ovary(2)	2																		---	---	---	---
BAZ2A	11176	broad.mit.edu	37	12	56994529	56994529	+	Missense_Mutation	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:56994529A>G	uc001slq.1	-	23	4738	c.4544T>C	c.(4543-4545)CTA>CCA	p.L1515P	BAZ2A_uc001slp.1_Missense_Mutation_p.L1513P|BAZ2A_uc001slo.1_Missense_Mutation_p.L321P|BAZ2A_uc009zov.1_Missense_Mutation_p.L481P|BAZ2A_uc009zow.1_Missense_Mutation_p.L1483P	NM_013449	NP_038477	Q9UIF9	BAZ2A_HUMAN	bromodomain adjacent to zinc finger domain, 2A	1515					chromatin silencing at rDNA|DNA methylation|transcription, DNA-dependent	chromatin silencing complex|nucleolus|rDNA heterochromatin	DNA binding|histone acetyl-lysine binding|ligand-dependent nuclear receptor binding|RNA binding|zinc ion binding				0																		---	---	---	---
LRP1	4035	broad.mit.edu	37	12	57589858	57589858	+	Intron	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:57589858G>A	uc001snd.2	+							NM_002332	NP_002323			low density lipoprotein-related protein 1						aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)													---	---	---	---
GLI1	2735	broad.mit.edu	37	12	57858512	57858512	+	Missense_Mutation	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:57858512T>C	uc001snx.2	+	4	328	c.250T>C	c.(250-252)TCC>CCC	p.S84P	GLI1_uc009zpp.2_RNA|GLI1_uc009zpq.2_5'UTR|GLI1_uc009zpr.1_RNA	NM_005269	NP_005260	P08151	GLI1_HUMAN	GLI family zinc finger 1 isoform 1	84					epidermal cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|osteoblast differentiation|positive regulation of DNA replication|positive regulation of smoothened signaling pathway|positive regulation of transcription from RNA polymerase II promoter	cytosol|nucleus	transcription regulatory region DNA binding|zinc ion binding			skin(4)|ovary(4)|breast(3)|central_nervous_system(1)|urinary_tract(1)|kidney(1)|pancreas(1)	15			GBM - Glioblastoma multiforme(3;3.99e-32)															---	---	---	---
AVIL	10677	broad.mit.edu	37	12	58209783	58209783	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:58209783G>A	uc001sqj.1	-	1	70	c.41C>T	c.(40-42)CCT>CTT	p.P14L	AVIL_uc009zqe.1_5'UTR|AVIL_uc001sql.3_5'Flank	NM_006576	NP_006567	O75366	AVIL_HUMAN	advillin	14	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)																	---	---	---	---
XPOT	11260	broad.mit.edu	37	12	64812728	64812728	+	Missense_Mutation	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:64812728A>G	uc001ssb.2	+	6	769	c.343A>G	c.(343-345)ACA>GCA	p.T115A	XPOT_uc009zqm.1_Missense_Mutation_p.T25A	NM_007235	NP_009166	O43592	XPOT_HUMAN	tRNA exportin	115	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)														---	---	---	---
XPOT	11260	broad.mit.edu	37	12	64812733	64812733	+	Silent	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:64812733G>A	uc001ssb.2	+	6	774	c.348G>A	c.(346-348)GAG>GAA	p.E116E	XPOT_uc009zqm.1_Silent_p.E26E	NM_007235	NP_009166	O43592	XPOT_HUMAN	tRNA exportin	116	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)														---	---	---	---
NUP107	57122	broad.mit.edu	37	12	69109437	69109437	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:69109437C>T	uc001suf.2	+	12	1115	c.1000C>T	c.(1000-1002)CCC>TCC	p.P334S	NUP107_uc001sug.2_Missense_Mutation_p.P181S|NUP107_uc010stj.1_Missense_Mutation_p.P305S	NM_020401	NP_065134	P57740	NU107_HUMAN	nucleoporin 107kDa	334					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			skin(1)	1	Breast(13;6.25e-06)		Lung(24;0.000131)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.00694)															---	---	---	---
PTPRR	5801	broad.mit.edu	37	12	71094956	71094956	+	Silent	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:71094956G>A	uc001swi.1	-	7	1571	c.1155C>T	c.(1153-1155)GAC>GAT	p.D385D	PTPRR_uc001swh.1_Silent_p.D140D|PTPRR_uc009zrs.2_Silent_p.D234D|PTPRR_uc010stq.1_Silent_p.D273D|PTPRR_uc010str.1_Silent_p.D234D	NM_002849	NP_002840	Q15256	PTPRR_HUMAN	protein tyrosine phosphatase, receptor type, R	385	Cytoplasmic (Potential).				in utero embryonic development	cell surface|Golgi apparatus|integral to membrane|nucleus|perinuclear region of cytoplasm|plasma membrane	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			skin(2)|ovary(1)	3			GBM - Glioblastoma multiforme(2;5.67e-07)|Lung(24;0.00283)|OV - Ovarian serous cystadenocarcinoma(12;0.00578)|LUSC - Lung squamous cell carcinoma(43;0.132)	COAD - Colon adenocarcinoma(1;0.136)														---	---	---	---
TRHDE	29953	broad.mit.edu	37	12	72666574	72666574	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:72666574G>A	uc001sxa.2	+	1	46	c.16G>A	c.(16-18)GCC>ACC	p.A6T	LOC283392_uc010stv.1_Missense_Mutation_p.R46C	NM_013381	NP_037513	Q9UKU6	TRHDE_HUMAN	thyrotropin-releasing hormone degrading enzyme	6	Cytoplasmic (Potential).				cell-cell signaling|proteolysis|signal transduction	integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(2)|skin(1)	3																		---	---	---	---
PPFIA2	8499	broad.mit.edu	37	12	81657028	81657028	+	Missense_Mutation	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:81657028T>C	uc001szo.1	-	31	3858	c.3697A>G	c.(3697-3699)AGA>GGA	p.R1233G	PPFIA2_uc010sue.1_Intron|PPFIA2_uc010sug.1_RNA|PPFIA2_uc010suh.1_RNA|PPFIA2_uc010sui.1_RNA|PPFIA2_uc010suj.1_RNA|PPFIA2_uc009zsi.1_RNA|PPFIA2_uc010suf.1_RNA|PPFIA2_uc009zsh.2_RNA	NM_003625	NP_003616	B7Z663	B7Z663_HUMAN	PTPRF interacting protein alpha 2	1132										ovary(3)|lung(2)|pancreas(1)	6																		---	---	---	---
UTP20	27340	broad.mit.edu	37	12	101679515	101679515	+	Intron	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:101679515T>C	uc001tia.1	+						UTP20_uc009ztz.1_Intron	NM_014503	NP_055318			down-regulated in metastasis						endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|negative regulation of cell proliferation	90S preribosome|cytoplasm|nucleolus|nucleoplasm|preribosome, small subunit precursor|small-subunit processome	protein binding			ovary(2)|breast(2)	4																		---	---	---	---
TCP11L2	255394	broad.mit.edu	37	12	106729801	106729801	+	Intron	SNP	A	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:106729801A>T	uc001tln.2	+							NM_152772	NP_689985			t-complex 11 (mouse) like 2											ovary(3)	3																		---	---	---	---
PRDM4	11108	broad.mit.edu	37	12	108147777	108147777	+	Silent	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:108147777T>C	uc001tmp.2	-	4	692	c.255A>G	c.(253-255)TTA>TTG	p.L85L	PRDM4_uc001tmq.2_RNA	NM_012406	NP_036538	Q9UKN5	PRDM4_HUMAN	PR domain containing 4	85					cell proliferation|negative regulation of cell cycle|nerve growth factor receptor signaling pathway|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding			breast(1)|skin(1)	2																		---	---	---	---
CIT	11113	broad.mit.edu	37	12	120208708	120208708	+	Intron	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:120208708G>A	uc001txi.1	-						CIT_uc001txh.1_Intron|CIT_uc001txj.1_Missense_Mutation_p.R697C	NM_007174	NP_009105			citron						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)														---	---	---	---
MLXIP	22877	broad.mit.edu	37	12	122619900	122619900	+	Intron	SNP	G	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:122619900G>T	uc001ubq.2	+						MLXIP_uc001ubt.2_Intron	NM_014938	NP_055753			MLX interacting protein						regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrial outer membrane|nucleus	DNA binding			ovary(2)	2	all_neural(191;0.0837)|Medulloblastoma(191;0.163)	Lung NSC(355;0.0659)		OV - Ovarian serous cystadenocarcinoma(86;0.000599)|Epithelial(86;0.00102)|BRCA - Breast invasive adenocarcinoma(302;0.233)														---	---	---	---
PITPNM2	57605	broad.mit.edu	37	12	123490022	123490022	+	Missense_Mutation	SNP	C	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:123490022C>A	uc001uej.1	-	6	856	c.717G>T	c.(715-717)ATG>ATT	p.M239I	PITPNM2_uc001uek.1_Missense_Mutation_p.M239I|PITPNM2_uc009zxu.1_Missense_Mutation_p.M239I	NM_020845	NP_065896	Q9BZ72	PITM2_HUMAN	phosphatidylinositol transfer protein,	239					metabolic process|transport	endomembrane system|integral to membrane|intracellular membrane-bounded organelle	calcium ion binding|lipid binding			ovary(1)|central_nervous_system(1)|skin(1)	3	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.55e-05)|Epithelial(86;8.43e-05)|BRCA - Breast invasive adenocarcinoma(302;0.123)														---	---	---	---
TCTN2	79867	broad.mit.edu	37	12	124155800	124155800	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:124155800C>T	uc001ufp.2	+	1	141	c.13C>T	c.(13-15)CCT>TCT	p.P5S	TCTN2_uc009zya.2_Missense_Mutation_p.P5S	NM_024809	NP_079085	Q96GX1	TECT2_HUMAN	tectonic family member 2 isoform 1	5					cilium assembly|smoothened signaling pathway	integral to membrane				ovary(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000163)|Epithelial(86;0.000502)|all cancers(50;0.00451)														---	---	---	---
DNAH10	196385	broad.mit.edu	37	12	124265777	124265777	+	Missense_Mutation	SNP	C	T	T	rs144283758	by1000genomes	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:124265777C>T	uc001uft.3	+	6	614	c.589C>T	c.(589-591)CGG>TGG	p.R197W		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	197	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)														---	---	---	---
TMEM132D	121256	broad.mit.edu	37	12	129559011	129559011	+	Silent	SNP	C	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:129559011C>A	uc009zyl.1	-	9	3037	c.2709G>T	c.(2707-2709)GGG>GGT	p.G903G	TMEM132D_uc001uia.2_Silent_p.G441G	NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	903	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)														---	---	---	---
TMEM132D	121256	broad.mit.edu	37	12	129559436	129559436	+	Nonsense_Mutation	SNP	C	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:129559436C>A	uc009zyl.1	-	9	2612	c.2284G>T	c.(2284-2286)GGA>TGA	p.G762*	TMEM132D_uc001uia.2_Nonsense_Mutation_p.G300*	NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	762	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)														---	---	---	---
RIMBP2	23504	broad.mit.edu	37	12	130884319	130884319	+	Missense_Mutation	SNP	A	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:130884319A>T	uc001uil.2	-	18	3201	c.3037T>A	c.(3037-3039)TTC>ATC	p.F1013I		NM_015347	NP_056162	O15034	RIMB2_HUMAN	RIM-binding protein 2	1013	SH3 3.					cell junction|synapse				upper_aerodigestive_tract(3)|ovary(3)|large_intestine(2)|central_nervous_system(2)|pancreas(1)	11	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.213)		OV - Ovarian serous cystadenocarcinoma(86;4.29e-06)|all cancers(50;4.56e-05)|Epithelial(86;5.41e-05)														---	---	---	---
RIMBP2	23504	broad.mit.edu	37	12	130898840	130898840	+	Nonsense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:130898840G>A	uc001uil.2	-	14	2646	c.2482C>T	c.(2482-2484)CGA>TGA	p.R828*		NM_015347	NP_056162	O15034	RIMB2_HUMAN	RIM-binding protein 2	828						cell junction|synapse				upper_aerodigestive_tract(3)|ovary(3)|large_intestine(2)|central_nervous_system(2)|pancreas(1)	11	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.213)		OV - Ovarian serous cystadenocarcinoma(86;4.29e-06)|all cancers(50;4.56e-05)|Epithelial(86;5.41e-05)														---	---	---	---
EP400	57634	broad.mit.edu	37	12	132464315	132464315	+	Missense_Mutation	SNP	C	T	T	rs111485547		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:132464315C>T	uc001ujn.2	+	2	1447	c.1412C>T	c.(1411-1413)GCG>GTG	p.A471V	EP400_uc001ujl.2_Missense_Mutation_p.A470V|EP400_uc001ujm.2_Missense_Mutation_p.A471V|EP400_uc001ujj.1_Missense_Mutation_p.A470V|EP400_uc001ujk.2_Missense_Mutation_p.A507V	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	507					histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)														---	---	---	---
EP400	57634	broad.mit.edu	37	12	132471349	132471349	+	Silent	SNP	T	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:132471349T>G	uc001ujn.2	+	5	2255	c.2220T>G	c.(2218-2220)ACT>ACG	p.T740T	EP400_uc001ujl.2_Silent_p.T739T|EP400_uc001ujm.2_Silent_p.T740T|EP400_uc001ujj.1_Silent_p.T703T|EP400_uc001ujk.2_Silent_p.T776T	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	776					histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)														---	---	---	---
EP400	57634	broad.mit.edu	37	12	132511986	132511986	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:132511986C>T	uc001ujn.2	+	25	5054	c.5019C>T	c.(5017-5019)GGC>GGT	p.G1673G	EP400_uc001ujl.2_Silent_p.G1672G|EP400_uc001ujm.2_Silent_p.G1592G	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	1709					histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)														---	---	---	---
TNFRSF19	55504	broad.mit.edu	37	13	24233283	24233283	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:24233283C>T	uc001uov.1	+	6	604	c.540C>T	c.(538-540)ACC>ACT	p.T180T	TNFRSF19_uc001uot.2_Silent_p.T180T|TNFRSF19_uc010tcu.1_Silent_p.T48T|TNFRSF19_uc001uow.2_Silent_p.T180T	NM_018647	NP_061117	Q9NS68	TNR19_HUMAN	tumor necrosis factor receptor superfamily,	180	Helical; (Potential).				apoptosis|induction of apoptosis|JNK cascade	integral to membrane|mitochondrion	tumor necrosis factor receptor activity			kidney(1)|skin(1)	2		all_cancers(29;3.4e-22)|all_epithelial(30;8.75e-19)|all_lung(29;5.09e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00193)|Epithelial(112;0.0137)|OV - Ovarian serous cystadenocarcinoma(117;0.0465)|GBM - Glioblastoma multiforme(144;0.184)|Lung(94;0.19)														---	---	---	---
SOHLH2	54937	broad.mit.edu	37	13	36748962	36748962	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:36748962G>A	uc001uvj.2	-	7	775	c.686C>T	c.(685-687)CCG>CTG	p.P229L	SOHLH2_uc010tei.1_Missense_Mutation_p.P306L	NM_017826	NP_060296	Q9NX45	SOLH2_HUMAN	spermatogenesis and oogenesis specific basic	229	Helix-loop-helix motif.				cell differentiation|multicellular organismal development|oogenesis|regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	DNA binding				0		Breast(139;0.0615)|Lung SC(185;0.0743)|Prostate(109;0.184)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;4.63e-08)|Epithelial(112;2.67e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00272)|BRCA - Breast invasive adenocarcinoma(63;0.00685)|GBM - Glioblastoma multiforme(144;0.0273)														---	---	---	---
CCNA1	8900	broad.mit.edu	37	13	37012966	37012966	+	Silent	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:37012966A>G	uc001uvr.3	+	5	1205	c.855A>G	c.(853-855)AAA>AAG	p.K285K	CCNA1_uc010teo.1_Silent_p.K241K|CCNA1_uc010abq.2_Silent_p.K241K|CCNA1_uc010abp.2_Silent_p.K241K|CCNA1_uc001uvs.3_Silent_p.K284K|CCNA1_uc010abr.2_Intron	NM_003914	NP_003905	P78396	CCNA1_HUMAN	cyclin A1 isoform a	285					cell division|G2/M transition of mitotic cell cycle|male meiosis I|mitosis|regulation of cyclin-dependent protein kinase activity|regulation of transcription involved in G1/S phase of mitotic cell cycle|spermatogenesis	cytosol|microtubule cytoskeleton|nucleoplasm	protein kinase binding			lung(2)|skin(2)|ovary(1)	5		Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.174)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;1.91e-07)|Epithelial(112;1.22e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00623)|BRCA - Breast invasive adenocarcinoma(63;0.0119)|GBM - Glioblastoma multiforme(144;0.0242)														---	---	---	---
DGKH	160851	broad.mit.edu	37	13	42701682	42701682	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:42701682C>T	uc001uyl.1	+	2	297	c.276C>T	c.(274-276)CGC>CGT	p.R92R	DGKH_uc010tfh.1_Silent_p.R92R|DGKH_uc001uym.1_Silent_p.R92R	NM_178009	NP_821077	Q86XP1	DGKH_HUMAN	diacylglycerol kinase, eta isoform 2	92	PH.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation|protein oligomerization	endosome|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(2)	2		Lung NSC(96;1.02e-05)|Prostate(109;0.0168)|Lung SC(185;0.0262)|Breast(139;0.0709)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;5.88e-05)|GBM - Glioblastoma multiforme(144;0.000935)|BRCA - Breast invasive adenocarcinoma(63;0.109)														---	---	---	---
CCDC122	160857	broad.mit.edu	37	13	44434049	44434049	+	Missense_Mutation	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:44434049A>G	uc010acf.2	-	5	573	c.314T>C	c.(313-315)GTA>GCA	p.V105A	CCDC122_uc010tfn.1_Missense_Mutation_p.V105A	NM_144974	NP_659411	Q5T0U0	CC122_HUMAN	coiled-coil domain containing 122	105	Potential.										0		Lung NSC(96;7.5e-06)|Breast(139;0.00765)|Hepatocellular(98;0.00826)|Prostate(109;0.0143)|Lung SC(185;0.0262)		GBM - Glioblastoma multiforme(144;0.000767)|BRCA - Breast invasive adenocarcinoma(63;0.128)														---	---	---	---
PCDH9	5101	broad.mit.edu	37	13	67801050	67801050	+	Missense_Mutation	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:67801050A>G	uc001vik.2	-	2	2215	c.1523T>C	c.(1522-1524)CTT>CCT	p.L508P	PCDH9_uc001vil.2_Missense_Mutation_p.L508P|PCDH9_uc010thl.1_Missense_Mutation_p.L508P|PCDH9_uc001vin.3_Missense_Mutation_p.L508P	NM_203487	NP_982354	Q9HC56	PCDH9_HUMAN	protocadherin 9 isoform 1 precursor	508	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)|skin(1)	6		Hepatocellular(98;0.0906)|Breast(118;0.107)		GBM - Glioblastoma multiforme(99;0.00819)														---	---	---	---
POU4F1	5457	broad.mit.edu	37	13	79175974	79175974	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:79175974C>T	uc001vkv.2	-	2	1070	c.836G>A	c.(835-837)CGC>CAC	p.R279H	uc001vku.1_Intron	NM_006237	NP_006228	Q01851	PO4F1_HUMAN	POU domain, class 4, transcription factor 1	279	POU-specific.				axonogenesis|regulation of transcription from RNA polymerase II promoter|synapse assembly	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.0848)		GBM - Glioblastoma multiforme(99;0.129)														---	---	---	---
SLITRK5	26050	broad.mit.edu	37	13	88328786	88328786	+	Missense_Mutation	SNP	C	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:88328786C>A	uc001vln.2	+	2	1362	c.1143C>A	c.(1141-1143)AAC>AAA	p.N381K	SLITRK5_uc010tic.1_Missense_Mutation_p.N140K	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	381	Extracellular (Potential).|LRRNT.					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)																	---	---	---	---
GPC5	2262	broad.mit.edu	37	13	92101092	92101092	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:92101092G>A	uc010tif.1	+	2	607	c.241G>A	c.(241-243)GCT>ACT	p.A81T		NM_004466	NP_004457	P78333	GPC5_HUMAN	glypican 5 precursor	81						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)	5	all_cancers(3;1.43e-07)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)	Lung NSC(4;0.00454)																---	---	---	---
ABCC4	10257	broad.mit.edu	37	13	95840745	95840745	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:95840745C>T	uc001vmd.3	-	10	1434	c.1315G>A	c.(1315-1317)GAA>AAA	p.E439K	ABCC4_uc010afk.2_Missense_Mutation_p.E439K|ABCC4_uc001vme.2_Missense_Mutation_p.E439K|ABCC4_uc010tih.1_Missense_Mutation_p.E364K|ABCC4_uc001vmf.2_Missense_Mutation_p.E396K|ABCC4_uc010afl.1_Missense_Mutation_p.E396K|ABCC4_uc010afm.1_Missense_Mutation_p.E452K	NM_005845	NP_005836	O15439	MRP4_HUMAN	ATP-binding cassette, sub-family C, member 4	439	ABC transporter 1.				platelet activation|platelet degranulation	integral to membrane|membrane fraction|plasma membrane|platelet dense granule membrane	15-hydroxyprostaglandin dehydrogenase (NAD+) activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|chloride channel activity			central_nervous_system(3)|skin(1)	4	all_neural(89;0.0878)|Medulloblastoma(90;0.163)				Cefazolin(DB01327)													---	---	---	---
DZIP1	22873	broad.mit.edu	37	13	96258321	96258321	+	Intron	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:96258321A>G	uc001vmk.2	-						DZIP1_uc001vml.2_Intron	NM_198968	NP_945319			DAZ interacting protein 1 isoform 2						germ cell development|multicellular organismal development|spermatogenesis	cytoplasm|nucleus	nucleic acid binding|protein binding|zinc ion binding			ovary(2)	2	all_neural(89;0.0878)|Breast(111;0.148)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.141)															---	---	---	---
FARP1	10160	broad.mit.edu	37	13	99037041	99037041	+	Missense_Mutation	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:99037041A>G	uc001vnj.2	+	7	890	c.554A>G	c.(553-555)TAC>TGC	p.Y185C	FARP1_uc001vnh.2_Missense_Mutation_p.Y185C	NM_005766	NP_005757	Q9Y4F1	FARP1_HUMAN	FERM, RhoGEF, and pleckstrin domain protein 1	185	FERM.				regulation of Rho protein signal transduction	cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|Rho guanyl-nucleotide exchange factor activity			breast(2)	2	all_neural(89;0.0982)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.233)															---	---	---	---
PARP2	10038	broad.mit.edu	37	14	20818769	20818769	+	Missense_Mutation	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:20818769A>G	uc001vxc.2	+	5	476	c.448A>G	c.(448-450)AGA>GGA	p.R150G	PARP2_uc001vxd.2_Missense_Mutation_p.R137G|PARP2_uc001vxb.1_Missense_Mutation_p.R150G	NM_005484	NP_005475	Q9UGN5	PARP2_HUMAN	poly (ADP-ribose) polymerase family, member 2	150					protein ADP-ribosylation	nucleolus|nucleoplasm	DNA binding|NAD+ ADP-ribosyltransferase activity			ovary(1)|pancreas(1)	2	all_cancers(95;0.00092)	all_lung(585;0.235)	Epithelial(56;5.34e-07)|all cancers(55;3.7e-06)	GBM - Glioblastoma multiforme(265;0.00888)|READ - Rectum adenocarcinoma(17;0.0649)									Direct_reversal_of_damage|PARP_enzymes_that_bind_to_DNA					---	---	---	---
TEP1	7011	broad.mit.edu	37	14	20841176	20841176	+	Silent	SNP	T	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:20841176T>G	uc001vxe.2	-	48	6985	c.6945A>C	c.(6943-6945)ACA>ACC	p.T2315T	TEP1_uc010ahj.1_RNA|TEP1_uc010ahk.2_Silent_p.T1658T|TEP1_uc010tlf.1_RNA|TEP1_uc010tlg.1_Silent_p.T2207T|TEP1_uc010tlh.1_Silent_p.T653T	NM_007110	NP_009041	Q99973	TEP1_HUMAN	telomerase-associated protein 1	2315	WD 16.				telomere maintenance via recombination	chromosome, telomeric region|cytoplasm|nuclear matrix|soluble fraction|telomerase holoenzyme complex	ATP binding|RNA binding			ovary(5)	5	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;7.42e-08)|all cancers(55;6.46e-07)	GBM - Glioblastoma multiforme(265;0.028)|READ - Rectum adenocarcinoma(17;0.233)														---	---	---	---
PNP	4860	broad.mit.edu	37	14	20942680	20942680	+	Silent	SNP	C	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:20942680C>A	uc001vxo.3	+	3	373	c.231C>A	c.(229-231)GCC>GCA	p.A77A	PNP_uc010ahn.2_Silent_p.A77A|PNP_uc001vxn.3_Translation_Start_Site	NM_000270	NP_000261	P00491	PNPH_HUMAN	nucleoside phosphorylase	77					immune response|inosine catabolic process|interleukin-2 secretion|NAD biosynthesis via nicotinamide riboside salvage pathway|nicotinamide riboside catabolic process|positive regulation of alpha-beta T cell differentiation|positive regulation of T cell proliferation|purine base metabolic process|purine nucleotide catabolic process|purine-containing compound salvage|response to drug|urate biosynthetic process	cytoskeleton|cytosol	drug binding|nucleoside binding|phosphate binding|purine base binding|purine-nucleoside phosphorylase activity			ovary(2)	2					Aciclovir(DB00787)|Cladribine(DB00242)|Mercaptopurine(DB01033)													---	---	---	---
EFS	10278	broad.mit.edu	37	14	23829429	23829429	+	Missense_Mutation	SNP	C	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:23829429C>A	uc001wjo.2	-	3	967	c.359G>T	c.(358-360)TGC>TTC	p.C120F	EFS_uc001wjp.2_Missense_Mutation_p.C27F|EFS_uc010tnm.1_Missense_Mutation_p.C27F	NM_005864	NP_005855	O43281	EFS_HUMAN	embryonal Fyn-associated substrate isoform 1	120	Pro-rich.				cell adhesion|intracellular signal transduction	cytoplasm	SH3 domain binding			large_intestine(1)	1	all_cancers(95;7.12e-06)			GBM - Glioblastoma multiforme(265;0.00649)														---	---	---	---
NPAS3	64067	broad.mit.edu	37	14	34269602	34269602	+	Missense_Mutation	SNP	G	A	A	rs141427321	byFrequency	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:34269602G>A	uc001wru.2	+	12	2153	c.2089G>A	c.(2089-2091)GGC>AGC	p.G697S	NPAS3_uc001wrs.2_Missense_Mutation_p.G684S|NPAS3_uc001wrt.2_Missense_Mutation_p.G665S|NPAS3_uc001wrv.2_Missense_Mutation_p.G667S	NM_173159	NP_071406	Q8IXF0	NPAS3_HUMAN	neuronal PAS domain protein 3 isoform 3	697	Gly-rich.				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)														---	---	---	---
SSTR1	6751	broad.mit.edu	37	14	38679277	38679277	+	Missense_Mutation	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:38679277T>C	uc001wul.1	+	3	1300	c.683T>C	c.(682-684)TTT>TCT	p.F228S	SSTR1_uc010amu.1_Intron	NM_001049	NP_001040	P30872	SSR1_HUMAN	somatostatin receptor 1	228	Helical; Name=5; (Potential).				digestion|G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cell proliferation|response to nutrient	integral to plasma membrane	somatostatin receptor activity			central_nervous_system(3)|ovary(1)|lung(1)	5	Hepatocellular(127;0.213)|Esophageal squamous(585;0.22)		Lung(238;3.93e-06)|LUAD - Lung adenocarcinoma(48;2.62e-05)|Epithelial(34;0.187)	GBM - Glioblastoma multiforme(112;0.00444)	Octreotide(DB00104)													---	---	---	---
MGAT2	4247	broad.mit.edu	37	14	50088621	50088621	+	Missense_Mutation	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:50088621A>G	uc001wwr.2	+	1	1133	c.635A>G	c.(634-636)AAT>AGT	p.N212S	SDCCAG1_uc010anj.1_Intron|RPL36AL_uc001wwq.1_5'Flank	NM_002408	NP_002399	Q10469	MGAT2_HUMAN	mannosyl (alpha-1,6-)-glycoprotein	212	Lumenal (Potential).				oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|Golgi stack|integral to membrane|membrane fraction	alpha-1,6-mannosylglycoprotein 2-beta-N-acetylglucosaminyltransferase activity				0	all_epithelial(31;0.0021)|Breast(41;0.0124)																	---	---	---	---
ZFYVE26	23503	broad.mit.edu	37	14	68238816	68238816	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:68238816G>A	uc001xka.2	-	28	5571	c.5432C>T	c.(5431-5433)CCG>CTG	p.P1811L	ZFYVE26_uc010tsz.1_RNA|ZFYVE26_uc001xkc.3_Missense_Mutation_p.P1811L	NM_015346	NP_056161	Q68DK2	ZFY26_HUMAN	zinc finger, FYVE domain containing 26	1811					cell cycle|cell death|cytokinesis|double-strand break repair via homologous recombination	centrosome|midbody	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			ovary(9)|breast(2)	11				all cancers(60;0.000763)|OV - Ovarian serous cystadenocarcinoma(108;0.0011)|BRCA - Breast invasive adenocarcinoma(234;0.0115)														---	---	---	---
PTGR2	145482	broad.mit.edu	37	14	74343780	74343780	+	Missense_Mutation	SNP	G	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:74343780G>T	uc001xow.2	+	5	588	c.428G>T	c.(427-429)GGG>GTG	p.G143V	PTGR2_uc010tue.1_Missense_Mutation_p.G143V|PTGR2_uc001xox.2_Missense_Mutation_p.G143V|ZNF410_uc001xoy.1_RNA	NM_001146154	NP_001139626	Q8N8N7	PTGR2_HUMAN	prostaglandin reductase 2	143					prostaglandin metabolic process		15-oxoprostaglandin 13-oxidase activity|zinc ion binding				0																		---	---	---	---
AHSA1	10598	broad.mit.edu	37	14	77935519	77935519	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:77935519C>T	uc001xtw.2	+	9	1104	c.944C>T	c.(943-945)ACG>ATG	p.T315M		NM_012111	NP_036243	O95433	AHSA1_HUMAN	activator of heat shock 90kDa protein ATPase	315					protein folding|response to stress	cytosol|endoplasmic reticulum	ATPase activator activity|chaperone binding				0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0281)														---	---	---	---
C14orf109	26175	broad.mit.edu	37	14	93651840	93651840	+	Intron	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:93651840T>C	uc010auo.2	+						MOAP1_uc001ybj.2_5'Flank|C14orf109_uc001ybk.3_Intron	NM_001098621	NP_001092091			hypothetical protein LOC26175 isoform 1							integral to membrane					0		all_cancers(154;0.11)|Acute lymphoblastic leukemia(33;0.0488)		Epithelial(152;0.176)|all cancers(159;0.197)|COAD - Colon adenocarcinoma(157;0.202)														---	---	---	---
KIAA1409	57578	broad.mit.edu	37	14	93954017	93954017	+	Missense_Mutation	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:93954017T>C	uc001ybv.1	+	2	180	c.97T>C	c.(97-99)TCA>CCA	p.S33P	KIAA1409_uc001ybs.1_Missense_Mutation_p.S33P|KIAA1409_uc001ybu.1_Missense_Mutation_p.S33P	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	210						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)														---	---	---	---
C14orf177	283598	broad.mit.edu	37	14	99182697	99182697	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:99182697G>A	uc001yfz.1	+	3	588	c.169G>A	c.(169-171)GCC>ACC	p.A57T		NM_182560	NP_872366	Q52M58	CN177_HUMAN	hypothetical protein LOC283598	57											0		Melanoma(154;0.128)																---	---	---	---
DYNC1H1	1778	broad.mit.edu	37	14	102508629	102508629	+	Intron	SNP	G	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:102508629G>T	uc001yks.2	+							NM_001376	NP_001367			cytoplasmic dynein 1 heavy chain 1						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																		---	---	---	---
PLD4	122618	broad.mit.edu	37	14	105396449	105396449	+	Intron	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:105396449G>A	uc001ypu.1	+						PLD4_uc010tyl.1_Intron	NM_138790	NP_620145			phospholipase D4						lipid catabolic process	integral to membrane	NAPE-specific phospholipase D activity|phospholipase D activity			central_nervous_system(1)|skin(1)	2		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.00067)|OV - Ovarian serous cystadenocarcinoma(23;0.00976)|Epithelial(46;0.0201)|GBM - Glioblastoma multiforme(11;0.116)		Choline(DB00122)													---	---	---	---
GABRG3	2567	broad.mit.edu	37	15	27725940	27725940	+	Intron	SNP	A	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:27725940A>C	uc001zbg.1	+						GABRG3_uc001zbf.2_Missense_Mutation_p.N240T	NM_033223	NP_150092			gamma-aminobutyric acid (GABA) A receptor, gamma						gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity				0		all_lung(180;4.58e-12)|Breast(32;0.000625)|Colorectal(260;0.235)		all cancers(64;3.15e-07)|Epithelial(43;1.17e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0261)														---	---	---	---
HERC2	8924	broad.mit.edu	37	15	28473458	28473458	+	Silent	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:28473458G>A	uc001zbj.2	-	35	5476	c.5370C>T	c.(5368-5370)CTC>CTT	p.L1790L		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	1790					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)														---	---	---	---
CHRNA7	1139	broad.mit.edu	37	15	32460285	32460285	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:32460285G>A	uc001zft.2	+	10	1207	c.1135G>A	c.(1135-1137)GCC>ACC	p.A379T	uc001zfv.1_Intron|CHRNA7_uc010baf.2_Missense_Mutation_p.A198T|CHRNA7_uc010bak.2_Missense_Mutation_p.A294T	NM_000746	NP_000737	P36544	ACHA7_HUMAN	cholinergic receptor, nicotinic, alpha 7	379	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)													---	---	---	---
FMN1	342184	broad.mit.edu	37	15	33359423	33359423	+	Silent	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:33359423G>A	uc001zhf.3	-	1	663	c.663C>T	c.(661-663)AAC>AAT	p.N221N	FMN1_uc001zhg.2_Silent_p.N221N	NM_001103184	NP_001096654	Q68DA7	FMN1_HUMAN	formin 1	Error:Variant_position_missing_in_Q68DA7_after_alignment					actin cytoskeleton organization	actin cytoskeleton|adherens junction|cytoplasm|nucleus	actin binding			ovary(1)	1		all_lung(180;1.14e-07)		all cancers(64;3.05e-15)|Epithelial(43;1.67e-10)|GBM - Glioblastoma multiforme(186;4.95e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0262)														---	---	---	---
FAM98B	283742	broad.mit.edu	37	15	38773701	38773701	+	Missense_Mutation	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:38773701T>C	uc001zkb.1	+	7	973	c.938T>C	c.(937-939)ATA>ACA	p.I313T	FAM98B_uc001zkc.2_Intron	NM_001042429	NP_001035894	Q52LJ0	FA98B_HUMAN	family with sequence similarity 98, member B	313						tRNA-splicing ligase complex	protein binding			ovary(1)	1		all_cancers(109;3.11e-17)|all_epithelial(112;2.64e-15)|Lung NSC(122;2.11e-11)|all_lung(180;5.61e-10)|Melanoma(134;0.0574)		GBM - Glioblastoma multiforme(113;9e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0209)														---	---	---	---
PLA2G4D	283748	broad.mit.edu	37	15	42371822	42371822	+	Silent	SNP	C	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:42371822C>A	uc001zox.2	-	13	1325	c.1230G>T	c.(1228-1230)CGG>CGT	p.R410R		NM_178034	NP_828848	Q86XP0	PA24D_HUMAN	phospholipase A2, group IVD	410	PLA2c.				phospholipid catabolic process	cytoplasmic vesicle membrane|cytosol	metal ion binding|phospholipase A2 activity			large_intestine(1)|skin(1)	2		all_cancers(109;6.37e-17)|all_epithelial(112;3.78e-15)|Lung NSC(122;5.01e-09)|all_lung(180;2.24e-08)|Melanoma(134;0.019)|Ovarian(310;0.143)|Colorectal(260;0.245)		OV - Ovarian serous cystadenocarcinoma(18;4.9e-17)|GBM - Glioblastoma multiforme(94;1.02e-06)														---	---	---	---
LIPC	3990	broad.mit.edu	37	15	58838067	58838067	+	Missense_Mutation	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:58838067T>C	uc010bga.1	+	7	1309	c.701T>C	c.(700-702)ATC>ACC	p.I234T	LIPC_uc010bfz.1_Missense_Mutation_p.I234T|LIPC_uc002afa.1_Missense_Mutation_p.I234T|LIPC_uc010bgb.1_Missense_Mutation_p.I132T|LIPC_uc010ugy.1_Missense_Mutation_p.I173T	NM_000236	NP_000227	P11150	LIPC_HUMAN	lipase C precursor	234					cholesterol homeostasis|chylomicron remnant clearance|fatty acid biosynthetic process|high-density lipoprotein particle remodeling|intermediate-density lipoprotein particle remodeling|low-density lipoprotein particle remodeling|phosphatidylcholine catabolic process|triglyceride catabolic process|triglyceride homeostasis|very-low-density lipoprotein particle remodeling	high-density lipoprotein particle	apolipoprotein binding|heparin binding|low-density lipoprotein particle binding|phospholipase activity|triglyceride lipase activity			ovary(1)	1		Colorectal(260;0.215)		GBM - Glioblastoma multiforme(80;0.00213)|all cancers(107;0.00548)														---	---	---	---
RAB8B	51762	broad.mit.edu	37	15	63551864	63551864	+	Silent	SNP	C	T	T	rs138589907		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:63551864C>T	uc002alz.2	+	6	549	c.453C>T	c.(451-453)AGC>AGT	p.S151S	RAB8B_uc010uih.1_Silent_p.S151S	NM_016530	NP_057614	Q92930	RAB8B_HUMAN	RAB8B, member RAS oncogene family	151					protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding|GTPase activity			ovary(1)|kidney(1)	2																		---	---	---	---
CLPX	10845	broad.mit.edu	37	15	65450095	65450095	+	Missense_Mutation	SNP	T	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:65450095T>G	uc002aom.2	-	8	1118	c.1046A>C	c.(1045-1047)AAA>ACA	p.K349T	CLPX_uc010uiu.1_RNA|CLPX_uc010bhg.1_Missense_Mutation_p.K349T	NM_006660	NP_006651	O76031	CLPX_HUMAN	ClpX caseinolytic protease X homolog precursor	349					protein folding|proteolysis involved in cellular protein catabolic process	mitochondrial endopeptidase Clp complex|mitochondrial inner membrane|mitochondrial nucleoid	ATP binding|ATPase activity|metal ion binding|peptidase activator activity|unfolded protein binding				0																		---	---	---	---
NEO1	4756	broad.mit.edu	37	15	73590961	73590961	+	Intron	SNP	G	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:73590961G>T	uc002avm.3	+						NEO1_uc010ukx.1_Intron|NEO1_uc010uky.1_Intron|NEO1_uc010ukz.1_Intron|NEO1_uc002avn.3_Intron	NM_002499	NP_002490			neogenin homolog 1 precursor						axon guidance|cell adhesion|positive regulation of muscle cell differentiation	Golgi apparatus|integral to plasma membrane|nucleus				pancreas(1)	1																		---	---	---	---
MAN2C1	4123	broad.mit.edu	37	15	75651071	75651071	+	Silent	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:75651071G>A	uc002baf.2	-	19	2237	c.2220C>T	c.(2218-2220)GAC>GAT	p.D740D	MAN2C1_uc002bag.2_Silent_p.D740D|MAN2C1_uc002bah.2_Silent_p.D757D|MAN2C1_uc010bkk.2_Silent_p.D641D	NM_006715	NP_006706	Q9NTJ4	MA2C1_HUMAN	mannosidase, alpha, class 2C, member 1	740					mannose metabolic process		alpha-mannosidase activity|carbohydrate binding|protein binding|zinc ion binding				0																		---	---	---	---
BNC1	646	broad.mit.edu	37	15	83935708	83935708	+	Silent	SNP	G	A	A	rs140144251	byFrequency	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:83935708G>A	uc002bjt.1	-	3	403	c.315C>T	c.(313-315)CCC>CCT	p.P105P	BNC1_uc010uos.1_Silent_p.P93P	NM_001717	NP_001708	Q01954	BNC1_HUMAN	basonuclin 1	105					epidermis development|positive regulation of cell proliferation	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3																		---	---	---	---
ZSCAN2	54993	broad.mit.edu	37	15	85165031	85165031	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:85165031C>T	uc002bkr.2	+	3	1831	c.1605C>T	c.(1603-1605)TGC>TGT	p.C535C	ZSCAN2_uc010bmz.1_Silent_p.C533C|ZSCAN2_uc010bna.2_Silent_p.C385C|ZSCAN2_uc010uox.1_Intron|ZSCAN2_uc010uoy.1_Intron|ZSCAN2_uc010uoz.1_Intron	NM_181877	NP_870992	Q7Z7L9	ZSCA2_HUMAN	zinc finger protein 29 isoform 1	535	C2H2-type 12.				cell differentiation|multicellular organismal development|spermatogenesis|viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2				UCEC - Uterine corpus endometrioid carcinoma (272;0.168)|all cancers(203;5.43e-22)														---	---	---	---
MRPS11	64963	broad.mit.edu	37	15	89010975	89010975	+	Silent	SNP	G	A	A	rs2289417	byFrequency	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:89010975G>A	uc002bml.2	+	1	292	c.27G>A	c.(25-27)TCG>TCA	p.S9S	MRPL46_uc002bmi.1_5'Flank|MRPL46_uc002bmj.2_5'Flank|MRPL46_uc002bmk.2_5'Flank|MRPS11_uc002bmm.2_Silent_p.S9S|MRPS11_uc002bmn.2_Silent_p.S9S|MRPS11_uc010bnj.2_RNA	NM_022839	NP_073750	P82912	RT11_HUMAN	mitochondrial ribosomal protein S11 isoform a	9					DNA damage response, detection of DNA damage|translation	mitochondrial small ribosomal subunit	structural constituent of ribosome				0	Lung NSC(78;0.203)		BRCA - Breast invasive adenocarcinoma(143;0.188)															---	---	---	---
FANCI	55215	broad.mit.edu	37	15	89811680	89811680	+	Missense_Mutation	SNP	G	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:89811680G>T	uc010bnp.1	+	10	896	c.806G>T	c.(805-807)GGC>GTC	p.G269V	FANCI_uc002bnm.1_Missense_Mutation_p.G269V|FANCI_uc002bnn.1_RNA|FANCI_uc002bnp.1_Missense_Mutation_p.G90V	NM_001113378	NP_001106849	Q9NVI1	FANCI_HUMAN	Fanconi anemia, complementation group I isoform	269					cell cycle|DNA repair	nucleoplasm	protein binding			ovary(2)	2	Lung NSC(78;0.0472)|all_lung(78;0.089)												Direct_reversal_of_damage|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				---	---	---	---
IQGAP1	8826	broad.mit.edu	37	15	91037956	91037956	+	Missense_Mutation	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:91037956A>G	uc002bpl.1	+	36	4741	c.4640A>G	c.(4639-4641)AAG>AGG	p.K1547R	IQGAP1_uc010uqg.1_Missense_Mutation_p.K168R	NM_003870	NP_003861	P46940	IQGA1_HUMAN	IQ motif containing GTPase activating protein 1	1547	C2.				energy reserve metabolic process|regulation of insulin secretion|small GTPase mediated signal transduction	actin filament|cytoplasm|midbody|nucleus|plasma membrane	calmodulin binding|GTPase inhibitor activity|protein phosphatase binding|Ras GTPase activator activity			ovary(2)|lung(2)|central_nervous_system(2)|pancreas(1)|skin(1)	8	Melanoma(11;0.00551)|Lung NSC(78;0.0237)|all_lung(78;0.0488)		BRCA - Breast invasive adenocarcinoma(143;0.0745)|KIRC - Kidney renal clear cell carcinoma(17;0.138)|Kidney(142;0.194)															---	---	---	---
RGMA	56963	broad.mit.edu	37	15	93588281	93588281	+	Missense_Mutation	SNP	G	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:93588281G>C	uc002bss.1	-	4	1572	c.1300C>G	c.(1300-1302)CCC>GCC	p.P434A	RGMA_uc002bsq.1_Missense_Mutation_p.P418A|RGMA_uc010boi.1_Missense_Mutation_p.P325A|RGMA_uc002bsr.1_Missense_Mutation_p.P325A|RGMA_uc010urc.1_Missense_Mutation_p.P442A	NM_020211	NP_064596	Q96B86	RGMA_HUMAN	RGM domain family, member A precursor	434					axon guidance	anchored to membrane|endoplasmic reticulum|plasma membrane					0	Lung NSC(78;0.0542)|all_lung(78;0.0786)		BRCA - Breast invasive adenocarcinoma(143;0.0312)|OV - Ovarian serous cystadenocarcinoma(32;0.108)															---	---	---	---
SYNM	23336	broad.mit.edu	37	15	99672605	99672605	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:99672605G>A	uc002bup.2	+	6	4160	c.4040G>A	c.(4039-4041)GGC>GAC	p.G1347D	SYNM_uc002buo.2_Intron|SYNM_uc002buq.2_Intron	NM_145728	NP_663780	O15061	SYNEM_HUMAN	desmuslin isoform A	1347	Tail.|Interaction with DMD and UTRN.|Interaction with TLN1 and VCL.				intermediate filament cytoskeleton organization	adherens junction|costamere|intermediate filament|neurofilament cytoskeleton	intermediate filament binding|structural constituent of cytoskeleton|structural constituent of muscle|vinculin binding			ovary(3)|central_nervous_system(1)	4																		---	---	---	---
ADAMTS17	170691	broad.mit.edu	37	15	100649263	100649263	+	Silent	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:100649263G>A	uc002bvv.1	-	14	2026	c.1947C>T	c.(1945-1947)GCC>GCT	p.A649A	ADAMTS17_uc002bvx.1_Silent_p.A406A	NM_139057	NP_620688	Q8TE56	ATS17_HUMAN	ADAM metallopeptidase with thrombospondin type 1	649	Cys-rich.				proteolysis	intracellular|proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.00299)|all_lung(78;0.00457)|Melanoma(26;0.00571)		OV - Ovarian serous cystadenocarcinoma(32;0.0013)|LUSC - Lung squamous cell carcinoma(107;0.132)|Lung(145;0.161)	COAD - Colon adenocarcinoma(1;0.111)|all cancers(203;0.219)														---	---	---	---
MPG	4350	broad.mit.edu	37	16	135493	135493	+	Missense_Mutation	SNP	C	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:135493C>A	uc002cfn.2	+	5	932	c.614C>A	c.(613-615)GCC>GAC	p.A205D	MPG_uc002cfm.2_Missense_Mutation_p.A188D|MPG_uc002cfo.2_Missense_Mutation_p.A200D|NPRL3_uc010uua.1_Intron|NPRL3_uc002cfp.1_Intron	NM_002434	NP_002425	P29372	3MG_HUMAN	N-methylpurine-DNA glycosylase isoform a	205					depurination|DNA dealkylation involved in DNA repair	nucleoplasm	alkylbase DNA N-glycosylase activity|damaged DNA binding|identical protein binding			ovary(1)|skin(1)	2		all_cancers(16;9.01e-08)|all_epithelial(16;7.64e-07)|Hepatocellular(780;0.000325)|Lung NSC(18;0.0104)|all_lung(18;0.0239)											BER_DNA_glycosylases					---	---	---	---
MPG	4350	broad.mit.edu	37	16	135720	135720	+	Missense_Mutation	SNP	G	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:135720G>T	uc002cfn.2	+	5	1159	c.841G>T	c.(841-843)GGC>TGC	p.G281C	MPG_uc002cfm.2_Missense_Mutation_p.G264C|MPG_uc002cfo.2_Missense_Mutation_p.G276C|NPRL3_uc010uua.1_Intron|NPRL3_uc002cfp.1_Intron	NM_002434	NP_002425	P29372	3MG_HUMAN	N-methylpurine-DNA glycosylase isoform a	281					depurination|DNA dealkylation involved in DNA repair	nucleoplasm	alkylbase DNA N-glycosylase activity|damaged DNA binding|identical protein binding			ovary(1)|skin(1)	2		all_cancers(16;9.01e-08)|all_epithelial(16;7.64e-07)|Hepatocellular(780;0.000325)|Lung NSC(18;0.0104)|all_lung(18;0.0239)											BER_DNA_glycosylases					---	---	---	---
PDIA2	64714	broad.mit.edu	37	16	335661	335661	+	Silent	SNP	C	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:335661C>A	uc002cgn.1	+	12	2185	c.1077C>A	c.(1075-1077)TCC>TCA	p.S359S	PDIA2_uc010bqt.1_Silent_p.S204S|PDIA2_uc002cgo.1_Silent_p.S359S	NM_006849	NP_006840	Q13087	PDIA2_HUMAN	protein disulfide isomerase A2 precursor	359					apoptosis|cell redox homeostasis|glycerol ether metabolic process|protein folding|protein retention in ER lumen|response to hypoxia	endoplasmic reticulum lumen	electron carrier activity|protein binding|protein disulfide isomerase activity|protein disulfide oxidoreductase activity|steroid binding			central_nervous_system(1)|skin(1)	2		all_cancers(16;6.71e-07)|all_epithelial(16;1.59e-06)|Hepatocellular(16;0.000105)|Lung NSC(18;0.00769)|all_lung(18;0.0186)																---	---	---	---
TMEM204	79652	broad.mit.edu	37	16	1584349	1584349	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:1584349G>A	uc002cmc.2	+	2	471	c.73G>A	c.(73-75)GCC>ACC	p.A25T	IFT140_uc002clz.2_Intron|IFT140_uc002cmb.2_Intron|TMEM204_uc002cmd.2_Missense_Mutation_p.A25T|TMEM204_uc010brr.1_Missense_Mutation_p.A25T	NM_024600	NP_078876	Q9BSN7	TM204_HUMAN	transmembrane protein 204	25	Helical; (Potential).				response to stress	adherens junction|integral to membrane					0		Hepatocellular(780;0.219)																---	---	---	---
IFT140	9742	broad.mit.edu	37	16	1652483	1652483	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:1652483G>A	uc002cmb.2	-	4	619	c.257C>T	c.(256-258)ACG>ATG	p.T86M		NM_014714	NP_055529	Q96RY7	IF140_HUMAN	intraflagellar transport 140	86	WD 2.									ovary(3)|pancreas(1)|skin(1)	5		Hepatocellular(780;0.219)																---	---	---	---
MAPK8IP3	23162	broad.mit.edu	37	16	1817877	1817877	+	Missense_Mutation	SNP	G	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:1817877G>T	uc002cmk.2	+	28	3598	c.3478G>T	c.(3478-3480)GGC>TGC	p.G1160C	MAPK8IP3_uc002cml.2_Missense_Mutation_p.G1154C|MAPK8IP3_uc010uvl.1_Missense_Mutation_p.G1161C	NM_015133	NP_055948	Q9UPT6	JIP3_HUMAN	mitogen-activated protein kinase 8 interacting	1160					vesicle-mediated transport	Golgi membrane	kinesin binding|MAP-kinase scaffold activity|protein kinase binding			breast(2)|central_nervous_system(1)	3																		---	---	---	---
PKD1	5310	broad.mit.edu	37	16	2164260	2164260	+	Missense_Mutation	SNP	G	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:2164260G>T	uc002cos.1	-	11	2973	c.2764C>A	c.(2764-2766)CTC>ATC	p.L922I	PKD1_uc002cot.1_Missense_Mutation_p.L922I	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	922	Extracellular (Potential).|PKD 3.				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																		---	---	---	---
TRAF7	84231	broad.mit.edu	37	16	2225603	2225603	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:2225603G>A	uc002cow.2	+	17	1705	c.1606G>A	c.(1606-1608)GGC>AGC	p.G536S		NM_032271	NP_115647	Q6Q0C0	TRAF7_HUMAN	TNF receptor-associated factor 7	536	WD 4.				activation of MAPKKK activity|apoptosis|regulation of apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic membrane-bounded vesicle|ubiquitin ligase complex	identical protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3																		---	---	---	---
CCNF	899	broad.mit.edu	37	16	2487152	2487152	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:2487152C>T	uc002cqd.1	+	5	457	c.369C>T	c.(367-369)CGC>CGT	p.R123R	CCNF_uc002cqe.1_5'UTR	NM_001761	NP_001752	P41002	CCNF_HUMAN	cyclin F	123					cell division|mitosis|negative regulation of centrosome duplication|protein ubiquitination|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	centriole|nucleus|SCF ubiquitin ligase complex	protein binding			central_nervous_system(1)|kidney(1)	2		Ovarian(90;0.17)																---	---	---	---
CCNF	899	broad.mit.edu	37	16	2489836	2489836	+	Intron	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:2489836C>T	uc002cqd.1	+						CCNF_uc002cqe.1_Intron	NM_001761	NP_001752			cyclin F						cell division|mitosis|negative regulation of centrosome duplication|protein ubiquitination|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	centriole|nucleus|SCF ubiquitin ligase complex	protein binding			central_nervous_system(1)|kidney(1)	2		Ovarian(90;0.17)																---	---	---	---
PRSS22	64063	broad.mit.edu	37	16	2905627	2905627	+	Silent	SNP	G	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:2905627G>C	uc002cry.1	-	4	573	c.507C>G	c.(505-507)CTC>CTG	p.L169L	PRSS22_uc002crz.1_Intron	NM_022119	NP_071402	Q9GZN4	BSSP4_HUMAN	protease, serine, 22 precursor	169	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			central_nervous_system(1)	1																		---	---	---	---
ZNF205	7755	broad.mit.edu	37	16	3170173	3170173	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:3170173C>T	uc002cub.2	+	7	1647	c.1512C>T	c.(1510-1512)TAC>TAT	p.Y504Y	ZNF205_uc002cua.2_Silent_p.Y504Y	NM_001042428	NP_001035893	O95201	ZN205_HUMAN	zinc finger protein 205	504	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding				0																		---	---	---	---
ANKS3	124401	broad.mit.edu	37	16	4751097	4751097	+	Missense_Mutation	SNP	T	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:4751097T>G	uc002cxj.1	-	11	1453	c.1158A>C	c.(1156-1158)CAA>CAC	p.Q386H	ANKS3_uc010uxr.1_5'Flank|ANKS3_uc002cxh.1_5'Flank|ANKS3_uc002cxi.1_Missense_Mutation_p.Q313H|ANKS3_uc002cxk.2_Missense_Mutation_p.Q257H|ANKS3_uc002cxl.2_Missense_Mutation_p.Q213H|ANKS3_uc010uxs.1_Missense_Mutation_p.Q313H|ANKS3_uc002cxm.2_Missense_Mutation_p.Q180H	NM_133450	NP_597707	Q6ZW76	ANKS3_HUMAN	ankyrin repeat and sterile alpha motif domain	386											0																		---	---	---	---
C16orf62	57020	broad.mit.edu	37	16	19567040	19567040	+	5'UTR	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:19567040G>A	uc002dgn.1	+	1					C16orf62_uc002dgo.1_5'UTR|C16orf62_uc010vas.1_5'UTR|C16orf62_uc002dgm.1_5'UTR	NM_020314	NP_064710			hypothetical protein LOC57020							integral to membrane				ovary(1)	1																		---	---	---	---
ANKS4B	257629	broad.mit.edu	37	16	21261872	21261872	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:21261872C>T	uc010bwp.1	+	2	1028	c.985C>T	c.(985-987)CTG>TTG	p.L329L	CRYM_uc010bwq.1_Intron	NM_145865	NP_665872	Q8N8V4	ANS4B_HUMAN	harmonin-interacting ankyrin-repeat containing	329										ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0565)														---	---	---	---
CACNG3	10368	broad.mit.edu	37	16	24372865	24372865	+	Missense_Mutation	SNP	A	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:24372865A>C	uc002dmf.2	+	4	1829	c.629A>C	c.(628-630)AAA>ACA	p.K210T		NM_006539	NP_006530	O60359	CCG3_HUMAN	voltage-dependent calcium channel gamma-3	210					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)														---	---	---	---
ZKSCAN2	342357	broad.mit.edu	37	16	25251408	25251408	+	Missense_Mutation	SNP	C	T	T	rs61742943	byFrequency	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:25251408C>T	uc002dod.3	-	7	3040	c.2633G>A	c.(2632-2634)CGG>CAG	p.R878Q	ZKSCAN2_uc010vcl.1_Missense_Mutation_p.R674Q	NM_001012981	NP_001012999	Q63HK3	ZKSC2_HUMAN	zinc finger with KRAB and SCAN domains 2	878	C2H2-type 4.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)|breast(1)	4				GBM - Glioblastoma multiforme(48;0.0378)														---	---	---	---
ATXN2L	11273	broad.mit.edu	37	16	28837682	28837682	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:28837682G>A	uc002drc.2	+	5	755	c.587G>A	c.(586-588)CGA>CAA	p.R196Q	uc010vct.1_Intron|ATXN2L_uc010byl.1_Missense_Mutation_p.R196Q|ATXN2L_uc002drb.2_Missense_Mutation_p.R196Q|ATXN2L_uc002dqy.2_Missense_Mutation_p.R196Q|ATXN2L_uc002dra.2_Missense_Mutation_p.R196Q|ATXN2L_uc002dqz.2_Missense_Mutation_p.R196Q|ATXN2L_uc010vdb.1_Missense_Mutation_p.R196Q|ATXN2L_uc002dre.2_Missense_Mutation_p.R196Q|ATXN2L_uc002drf.2_5'UTR	NM_007245	NP_009176	Q8WWM7	ATX2L_HUMAN	ataxin 2 related protein isoform A	196						membrane				upper_aerodigestive_tract(1)|ovary(1)	2																		---	---	---	---
NFATC2IP	84901	broad.mit.edu	37	16	28970422	28970422	+	Splice_Site	SNP	G	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:28970422G>C	uc002dru.2	+	7	1116	c.1101_splice	c.e7+1	p.R367_splice	uc010vct.1_Intron|NFATC2IP_uc002drt.2_Splice_Site_p.R88_splice|NFATC2IP_uc002drv.2_Splice_Site_p.R86_splice|NFATC2IP_uc010vdh.1_Splice_Site_p.R75_splice	NM_032815	NP_116204			nuclear factor of activated T-cells,							cytoplasm|nucleus				ovary(1)	1																		---	---	---	---
ASPHD1	253982	broad.mit.edu	37	16	29913005	29913005	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:29913005C>T	uc002dut.2	+	1	859	c.713C>T	c.(712-714)CCT>CTT	p.P238L	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|SEZ6L2_uc002dup.3_5'Flank|SEZ6L2_uc002dur.3_5'Flank|SEZ6L2_uc002duq.3_5'Flank|SEZ6L2_uc002dus.3_5'Flank|SEZ6L2_uc010vec.1_5'Flank|SEZ6L2_uc010ved.1_5'Flank|ASPHD1_uc002duu.3_RNA|ASPHD1_uc010bzi.2_RNA	NM_181718	NP_859069	Q5U4P2	ASPH1_HUMAN	aspartate beta-hydroxylase domain containing 1	238	Lumenal (Potential).				peptidyl-amino acid modification	integral to endoplasmic reticulum membrane	oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peptide-aspartate beta-dioxygenase activity				0																		---	---	---	---
ITFG1	81533	broad.mit.edu	37	16	47292655	47292655	+	Intron	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:47292655G>A	uc002eet.2	-						ITFG1_uc010vgg.1_Intron|ITFG1_uc010vgh.1_Intron	NM_030790	NP_110417			integrin alpha FG-GAP repeat containing 1							extracellular region|integral to membrane				ovary(1)|central_nervous_system(1)	2		all_cancers(37;0.0613)|all_lung(18;0.0543)|Lung NSC(13;0.227)																---	---	---	---
ADCY7	113	broad.mit.edu	37	16	50339707	50339707	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:50339707G>A	uc002egd.1	+	13	1967	c.1699G>A	c.(1699-1701)GAT>AAT	p.D567N	ADCY7_uc002egc.1_Missense_Mutation_p.D567N	NM_001114	NP_001105	P51828	ADCY7_HUMAN	adenylate cyclase 7	567	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to ethanol|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|positive regulation of cAMP biosynthetic process|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			skin(1)	1		all_cancers(37;0.0127)		GBM - Glioblastoma multiforme(240;0.195)	Bromocriptine(DB01200)													---	---	---	---
NLRC5	84166	broad.mit.edu	37	16	57060176	57060176	+	Nonsense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:57060176C>T	uc002ekk.1	+	6	1546	c.1321C>T	c.(1321-1323)CAG>TAG	p.Q441*	NLRC5_uc010ccq.1_RNA|NLRC5_uc002ekn.2_Nonsense_Mutation_p.Q246*|NLRC5_uc002ekl.2_Nonsense_Mutation_p.Q246*|NLRC5_uc002ekm.2_Nonsense_Mutation_p.Q246*|NLRC5_uc010ccr.1_RNA	NM_032206	NP_115582	Q86WI3	NLRC5_HUMAN	nucleotide-binding oligomerization domains 27	441	NACHT.				defense response to virus|innate immune response|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|negative regulation of type I interferon-mediated signaling pathway|positive regulation of interferon-gamma-mediated signaling pathway|positive regulation of MHC class I biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type I interferon-mediated signaling pathway|regulation of kinase activity	cytosol|nucleus	ATP binding|protein binding|RNA polymerase II core promoter sequence-specific DNA binding			ovary(4)|skin(2)|breast(1)	7		all_neural(199;0.225)																---	---	---	---
NLRC5	84166	broad.mit.edu	37	16	57060249	57060249	+	Missense_Mutation	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:57060249T>C	uc002ekk.1	+	6	1619	c.1394T>C	c.(1393-1395)CTG>CCG	p.L465P	NLRC5_uc010ccq.1_RNA|NLRC5_uc002ekn.2_Missense_Mutation_p.L270P|NLRC5_uc002ekl.2_Missense_Mutation_p.L270P|NLRC5_uc002ekm.2_Missense_Mutation_p.L270P|NLRC5_uc010ccr.1_RNA	NM_032206	NP_115582	Q86WI3	NLRC5_HUMAN	nucleotide-binding oligomerization domains 27	465	NACHT.				defense response to virus|innate immune response|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|negative regulation of type I interferon-mediated signaling pathway|positive regulation of interferon-gamma-mediated signaling pathway|positive regulation of MHC class I biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type I interferon-mediated signaling pathway|regulation of kinase activity	cytosol|nucleus	ATP binding|protein binding|RNA polymerase II core promoter sequence-specific DNA binding			ovary(4)|skin(2)|breast(1)	7		all_neural(199;0.225)																---	---	---	---
CNOT1	23019	broad.mit.edu	37	16	58557362	58557362	+	Missense_Mutation	SNP	G	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:58557362G>T	uc002env.2	-	47	7122	c.6829C>A	c.(6829-6831)CCA>ACA	p.P2277T	CNOT1_uc002enw.2_RNA|CNOT1_uc002enu.3_Missense_Mutation_p.P2272T|CNOT1_uc002ent.2_Missense_Mutation_p.P215T|CNOT1_uc010vik.1_Missense_Mutation_p.P1234T	NM_016284	NP_057368	A5YKK6	CNOT1_HUMAN	CCR4-NOT transcription complex, subunit 1	2277					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol				ovary(4)|central_nervous_system(2)	6				Kidney(780;0.0722)|OV - Ovarian serous cystadenocarcinoma(108;0.173)|Epithelial(162;0.239)														---	---	---	---
CES2	8824	broad.mit.edu	37	16	66976054	66976054	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:66976054G>A	uc002eqr.2	+	9	2376	c.1376G>A	c.(1375-1377)GGG>GAG	p.G459E	CES2_uc002eqq.2_Missense_Mutation_p.G459E|CES2_uc002eqs.2_Missense_Mutation_p.G302E	NM_003869	NP_003860	O00748	EST2_HUMAN	carboxylesterase 2 isoform 1	395					catabolic process	endoplasmic reticulum lumen	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0663)|Epithelial(162;0.166)														---	---	---	---
KIAA0895L	653319	broad.mit.edu	37	16	67214239	67214239	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:67214239C>T	uc002ert.2	-	2	1050	c.275G>A	c.(274-276)CGG>CAG	p.R92Q	KIAA0895L_uc002err.2_5'Flank|KIAA0895L_uc002ers.2_5'Flank|KIAA0895L_uc002eru.2_Missense_Mutation_p.R92Q|EXOC3L_uc002erv.1_RNA	NM_001040715	NP_001035805	Q68EN5	K895L_HUMAN	hypothetical protein LOC653319	92											0																		---	---	---	---
SLC9A5	6553	broad.mit.edu	37	16	67292327	67292327	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:67292327G>A	uc002esm.2	+	10	1666	c.1603G>A	c.(1603-1605)GAT>AAT	p.D535N	SLC9A5_uc010cee.2_Missense_Mutation_p.D240N|SLC9A5_uc010vji.1_Missense_Mutation_p.D39N	NM_004594	NP_004585	Q14940	SL9A5_HUMAN	solute carrier family 9 (sodium/hydrogen	535					regulation of pH	integral to membrane|plasma membrane	sodium:hydrogen antiporter activity			ovary(1)|pancreas(1)	2		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00376)|Epithelial(162;0.0173)|all cancers(182;0.116)														---	---	---	---
ST3GAL2	6483	broad.mit.edu	37	16	70422378	70422378	+	Missense_Mutation	SNP	G	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:70422378G>T	uc002eyw.2	-	3	2713	c.605C>A	c.(604-606)CCT>CAT	p.P202H	ST3GAL2_uc002eyx.2_Missense_Mutation_p.P202H	NM_006927	NP_008858	Q16842	SIA4B_HUMAN	ST3 beta-galactoside alpha-2,3-sialyltransferase	202	Lumenal (Potential).				amino sugar metabolic process	extracellular region|Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,3-sialyltransferase activity			ovary(1)	1		Ovarian(137;0.0694)																---	---	---	---
KLHL36	79786	broad.mit.edu	37	16	84690684	84690684	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:84690684G>A	uc002fig.2	+	3	412	c.271G>A	c.(271-273)GGC>AGC	p.G91S	KLHL36_uc010chl.2_Missense_Mutation_p.G90S	NM_024731	NP_079007	Q8N4N3	KLH36_HUMAN	kelch-like 36	91	BTB.									skin(2)	2																		---	---	---	---
SNAI3	333929	broad.mit.edu	37	16	88748098	88748098	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:88748098C>T	uc002flj.2	-	2	169	c.101G>A	c.(100-102)TGT>TAT	p.C34Y	MGC23284_uc002fli.3_Intron	NM_178310	NP_840101	Q3KNW1	SNAI3_HUMAN	snail homolog 3	34					oxidation-reduction process		copper ion binding|DNA binding|zinc ion binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.048)														---	---	---	---
ACSF3	197322	broad.mit.edu	37	16	89167698	89167698	+	Silent	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:89167698T>C	uc002fmp.2	+	3	949	c.609T>C	c.(607-609)AGT>AGC	p.S203S	ACSF3_uc010cig.1_Silent_p.S203S|ACSF3_uc010cih.1_Intron|ACSF3_uc002fmq.1_RNA|ACSF3_uc010cii.1_RNA|ACSF3_uc002fmr.1_5'Flank	NM_174917	NP_777577	Q4G176	ACSF3_HUMAN	acyl-CoA synthetase family member 3 precursor	203	ATP (By similarity).				fatty acid metabolic process	mitochondrion	acid-thiol ligase activity|ATP binding				0				BRCA - Breast invasive adenocarcinoma(80;0.0281)														---	---	---	---
ABR	29	broad.mit.edu	37	17	914045	914045	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:914045C>T	uc002fsd.2	-	20	2270	c.2160G>A	c.(2158-2160)ACG>ACA	p.T720T	ABR_uc002fse.2_Silent_p.T674T|ABR_uc010vqf.1_Silent_p.T171T|ABR_uc010vqg.1_Silent_p.T502T|ABR_uc002fsg.2_Silent_p.T683T|ABR_uc002fsh.1_Silent_p.T328T|ABR_uc002fsf.2_Silent_p.T257T	NM_021962	NP_068781	Q12979	ABR_HUMAN	active breakpoint cluster region-related	720	Rho-GAP.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding|Rho guanyl-nucleotide exchange factor activity			upper_aerodigestive_tract(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0228)														---	---	---	---
LOC284009	284009	broad.mit.edu	37	17	2310297	2310297	+	3'UTR	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:2310297T>C	uc002fus.2	-	3						NM_001025459	NP_001020630			SubName: Full=Putative uncharacterized protein LOC284009;												0																		---	---	---	---
TRPV1	7442	broad.mit.edu	37	17	3494385	3494385	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:3494385C>T	uc010vrr.1	-	3	1004	c.477G>A	c.(475-477)CTG>CTA	p.L159L	TRPV1_uc010vro.1_Silent_p.L159L|TRPV1_uc010vrp.1_Silent_p.L159L|TRPV1_uc010vrq.1_Silent_p.L157L|TRPV1_uc010vrs.1_Silent_p.L159L|TRPV1_uc010vrt.1_Silent_p.L159L|TRPV1_uc010vru.1_Silent_p.L159L	NM_080706	NP_542437	Q8NER1	TRPV1_HUMAN	transient receptor potential cation channel,	159	Cytoplasmic (Potential).|ANK 2.				cell surface receptor linked signaling pathway|chemosensory behavior|thermoception	cell junction|dendritic spine membrane|integral to plasma membrane|postsynaptic membrane	ATP binding|calcium channel activity|calmodulin binding			ovary(1)	1				Lung(1;0.055)|COAD - Colon adenocarcinoma(5;0.0896)|LUAD - Lung adenocarcinoma(1115;0.131)	Alpha-Linolenic Acid(DB00132)|Aspartame(DB00168)|Icosapent(DB00159)													---	---	---	---
KIF1C	10749	broad.mit.edu	37	17	4905816	4905816	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:4905816C>T	uc002gan.1	+	7	813	c.487C>T	c.(487-489)CGG>TGG	p.R163W		NM_006612	NP_006603	O43896	KIF1C_HUMAN	kinesin family member 1C	163	Kinesin-motor.				microtubule-based movement|retrograde vesicle-mediated transport, Golgi to ER	endoplasmic reticulum|Golgi apparatus|microtubule	ATP binding|microtubule motor activity			breast(2)	2																		---	---	---	---
DHX33	56919	broad.mit.edu	37	17	5364373	5364373	+	Silent	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:5364373G>A	uc002gca.2	-	4	737	c.735C>T	c.(733-735)GGC>GGT	p.G245G	DHX33_uc002gbz.2_Silent_p.G16G|DHX33_uc002gcb.2_Silent_p.G72G|DHX33_uc010clf.2_Intron	NM_020162	NP_064547	Q9H6R0	DHX33_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 33	245	Helicase ATP-binding.					nucleolus	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(1)|pancreas(1)	2																		---	---	---	---
ACAP1	9744	broad.mit.edu	37	17	7246726	7246726	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:7246726C>T	uc002ggd.2	+	6	579	c.373C>T	c.(373-375)CGG>TGG	p.R125W		NM_014716	NP_055531	Q15027	ACAP1_HUMAN	centaurin beta1	125	BAR.|Required for formation of endosomal tubules when overexpressed with PIP5K1C.				intracellular signal transduction|lipid metabolic process|protein transport|regulation of ARF GTPase activity		ARF GTPase activator activity|phospholipase C activity|protein binding|zinc ion binding			breast(2)|large_intestine(1)	3																		---	---	---	---
DNAH9	1770	broad.mit.edu	37	17	11607574	11607574	+	Missense_Mutation	SNP	G	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:11607574G>T	uc002gne.2	+	25	5274	c.5206G>T	c.(5206-5208)GCC>TCC	p.A1736S	DNAH9_uc010coo.2_Missense_Mutation_p.A1030S	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	1736	Stem (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)														---	---	---	---
DNAH9	1770	broad.mit.edu	37	17	11671900	11671900	+	Missense_Mutation	SNP	A	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:11671900A>T	uc002gne.2	+	37	7369	c.7301A>T	c.(7300-7302)AAG>ATG	p.K2434M	DNAH9_uc010coo.2_Missense_Mutation_p.K1728M	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	2434					cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)														---	---	---	---
TTC19	54902	broad.mit.edu	37	17	15902817	15902817	+	Silent	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:15902817G>A	uc002gph.1	+	1	36	c.18G>A	c.(16-18)ACG>ACA	p.T6T	ZSWIM7_uc002gpe.2_Intron|ZSWIM7_uc002gpf.2_Intron|ZSWIM7_uc002gpg.2_Intron|TTC19_uc010cox.1_RNA	NM_017775	NP_060245	Q6DKK2	TTC19_HUMAN	tetratricopeptide repeat domain 19	Error:Variant_position_missing_in_Q6DKK2_after_alignment					cell cycle|cytokinesis|mitochondrial respiratory chain complex III assembly	centrosome|midbody|mitochondrial inner membrane	protein binding			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (92;0.0837)														---	---	---	---
RASD1	51655	broad.mit.edu	37	17	17399230	17399230	+	Missense_Mutation	SNP	C	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:17399230C>A	uc002gri.2	-	1	478	c.266G>T	c.(265-267)CGG>CTG	p.R89L		NM_016084	NP_057168	Q9Y272	RASD1_HUMAN	RAS, dexamethasone-induced 1 precursor	89					G-protein coupled receptor protein signaling pathway|small GTPase mediated signal transduction	nucleus|perinuclear region of cytoplasm|plasma membrane	GTP binding|GTPase activity				0																		---	---	---	---
FLII	2314	broad.mit.edu	37	17	18154278	18154278	+	Silent	SNP	G	A	A	rs144125005		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:18154278G>A	uc002gsr.1	-	14	1701	c.1650C>T	c.(1648-1650)GGC>GGT	p.G550G	FLII_uc002gsq.1_Silent_p.G421G|FLII_uc010cpy.1_Silent_p.G539G|FLII_uc010vxn.1_Silent_p.G519G|FLII_uc010vxo.1_Silent_p.G495G|FLII_uc002gss.1_Silent_p.G549G	NM_002018	NP_002009	Q13045	FLII_HUMAN	flightless I homolog	550	Interaction with ACTL6A.|Gelsolin-like 1.				multicellular organismal development|muscle contraction|regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|nucleus	actin binding			central_nervous_system(1)|skin(1)	2	all_neural(463;0.228)																	---	---	---	---
FLII	2314	broad.mit.edu	37	17	18154776	18154776	+	Missense_Mutation	SNP	G	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:18154776G>C	uc002gsr.1	-	13	1450	c.1399C>G	c.(1399-1401)CGG>GGG	p.R467G	FLII_uc002gsq.1_Missense_Mutation_p.R338G|FLII_uc010cpy.1_Missense_Mutation_p.R456G|FLII_uc010vxn.1_Missense_Mutation_p.R436G|FLII_uc010vxo.1_Missense_Mutation_p.R412G|FLII_uc002gss.1_Missense_Mutation_p.R466G	NM_002018	NP_002009	Q13045	FLII_HUMAN	flightless I homolog	467					multicellular organismal development|muscle contraction|regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|nucleus	actin binding			central_nervous_system(1)|skin(1)	2	all_neural(463;0.228)																	---	---	---	---
KCNJ12	3768	broad.mit.edu	37	17	21318850	21318850	+	Missense_Mutation	SNP	C	T	T	rs140486656		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:21318850C>T	uc002gyv.1	+	3	901	c.196C>T	c.(196-198)CGC>TGC	p.R66C		NM_021012	NP_066292	Q14500	IRK12_HUMAN	potassium inwardly-rectifying channel, subfamily	66	Cytoplasmic (By similarity).				blood circulation|muscle contraction|regulation of heart contraction|synaptic transmission	integral to membrane	inward rectifier potassium channel activity|ion channel inhibitor activity|potassium channel regulator activity			ovary(3)|skin(1)	4				Colorectal(15;0.0183)|COAD - Colon adenocarcinoma(3;0.0732)	Dofetilide(DB00204)										Prostate(3;0.18)			---	---	---	---
ANKRD13B	124930	broad.mit.edu	37	17	27936092	27936092	+	Intron	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:27936092C>T	uc002hei.2	+						ANKRD13B_uc002heh.2_Intron|ANKRD13B_uc002hej.2_Intron	NM_152345	NP_689558			ankyrin repeat domain 13B												0																		---	---	---	---
SOCS7	30837	broad.mit.edu	37	17	36522218	36522218	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:36522218G>A	uc002hqa.2	+	5	1232	c.1109G>A	c.(1108-1110)AGC>AAC	p.S370N	SOCS7_uc010cvl.2_Missense_Mutation_p.S336N|SOCS7_uc002hqb.2_RNA	NM_014598	NP_055413	O14512	SOCS7_HUMAN	suppressor of cytokine signaling 7	370	Mediates interaction with SORBS3.				intracellular signal transduction|negative regulation of signal transduction|regulation of growth	cytoplasm|nucleus|plasma membrane	protein binding|SH3 domain binding			skin(1)	1	Breast(7;3.47e-17)																	---	---	---	---
FKBP10	60681	broad.mit.edu	37	17	39974510	39974510	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:39974510C>T	uc002hxv.2	+	3	886	c.561C>T	c.(559-561)GAC>GAT	p.D187D	FKBP10_uc002hxw.1_5'Flank	NM_021939	NP_068758	Q96AY3	FKB10_HUMAN	FK506 binding protein 10 precursor	187	PPIase FKBP-type 2.				protein folding	endoplasmic reticulum lumen|membrane	calcium ion binding|FK506 binding|peptidyl-prolyl cis-trans isomerase activity			ovary(1)	1		Breast(137;0.00122)		BRCA - Breast invasive adenocarcinoma(366;0.148)														---	---	---	---
STAT3	6774	broad.mit.edu	37	17	40474420	40474420	+	Missense_Mutation	SNP	C	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:40474420C>A	uc002hzl.1	-	21	2221	c.1981G>T	c.(1981-1983)GAT>TAT	p.D661Y	STAT3_uc002hzk.1_Missense_Mutation_p.D661Y|STAT3_uc002hzm.1_Missense_Mutation_p.D661Y|STAT3_uc010wgh.1_Missense_Mutation_p.D563Y|STAT3_uc002hzn.1_Missense_Mutation_p.D661Y	NM_139276	NP_644805	P40763	STAT3_HUMAN	signal transducer and activator of transcription	661	SH2.				cellular component movement|eating behavior|eye photoreceptor cell differentiation|glucose homeostasis|interleukin-6-mediated signaling pathway|interspecies interaction between organisms|JAK-STAT cascade involved in growth hormone signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|protein import into nucleus|response to estradiol stimulus|sexual reproduction|temperature homeostasis	cytosol|nucleus|plasma membrane	calcium ion binding|ligand-regulated transcription factor activity|protein dimerization activity|protein kinase binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription factor binding|transcription regulatory region DNA binding			ovary(1)|lung(1)|breast(1)|central_nervous_system(1)	4		all_cancers(22;1.39e-06)|all_epithelial(22;2.95e-05)|Breast(137;0.000135)		BRCA - Breast invasive adenocarcinoma(366;0.139)										Hyperimmunoglobulin_E_Recurrent_Infection_Syndrome				---	---	---	---
MPP2	4355	broad.mit.edu	37	17	41955297	41955297	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:41955297C>T	uc010wip.1	-	13	1729	c.1672G>A	c.(1672-1674)GGG>AGG	p.G558R	MPP2_uc002ien.1_Missense_Mutation_p.G530R|MPP2_uc010wim.1_Missense_Mutation_p.G502R|MPP2_uc002ieo.1_Missense_Mutation_p.G513R|MPP2_uc010win.1_Missense_Mutation_p.G374R|MPP2_uc010wio.1_Missense_Mutation_p.G502R	NM_005374	NP_005365	Q14168	MPP2_HUMAN	palmitoylated membrane protein 2	537	Guanylate kinase-like.				signal transduction	cell surface|integral to plasma membrane|membrane fraction	guanylate kinase activity				0		Breast(137;0.00314)		BRCA - Breast invasive adenocarcinoma(366;0.12)														---	---	---	---
FMNL1	752	broad.mit.edu	37	17	43322382	43322382	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:43322382C>T	uc002iin.2	+	21	2835	c.2635C>T	c.(2635-2637)CTG>TTG	p.L879L	FMNL1_uc002iiq.2_Silent_p.L457L|FMNL1_uc010dag.2_RNA|LOC100133991_uc010dah.2_5'Flank	NM_005892	NP_005883	O95466	FMNL_HUMAN	formin-like 1	879	FH2.				actin cytoskeleton organization		actin binding|Rho GTPase binding			pancreas(1)	1																		---	---	---	---
GOSR2	9570	broad.mit.edu	37	17	45016026	45016026	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:45016026G>A	uc002ila.2	+	6	612	c.539G>A	c.(538-540)CGG>CAG	p.R180Q	GOSR2_uc010wkh.1_Missense_Mutation_p.R180Q|GOSR2_uc002ikz.2_Missense_Mutation_p.R180Q	NM_004287	NP_004278	O14653	GOSR2_HUMAN	golgi SNAP receptor complex member 2 isoform A	180	Cytoplasmic (Potential).				cellular membrane fusion|ER to Golgi vesicle-mediated transport|protein transport	Golgi membrane|integral to membrane	transporter activity			ovary(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(9;0.102)															---	---	---	---
KPNB1	3837	broad.mit.edu	37	17	45754442	45754442	+	Missense_Mutation	SNP	C	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:45754442C>A	uc002ilt.1	+	17	2388	c.2052C>A	c.(2050-2052)AAC>AAA	p.N684K	KPNB1_uc010wkw.1_Missense_Mutation_p.N539K|KPNB1_uc010wkx.1_Missense_Mutation_p.N468K	NM_002265	NP_002256	Q14974	IMB1_HUMAN	karyopherin beta 1	684					DNA fragmentation involved in apoptotic nuclear change|NLS-bearing substrate import into nucleus|protein import into nucleus, translocation|ribosomal protein import into nucleus|viral genome transport in host cell|viral infectious cycle	cytosol|nuclear pore|nucleoplasm	nuclear localization sequence binding|protein domain specific binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3																		---	---	---	---
SNX11	29916	broad.mit.edu	37	17	46189428	46189428	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:46189428C>T	uc002inf.1	+	3	377	c.23C>T	c.(22-24)TCG>TTG	p.S8L	SNX11_uc010wlg.1_5'UTR|SNX11_uc010wlh.1_5'UTR|SNX11_uc010wli.1_5'UTR|SNX11_uc010wlj.1_Intron|SNX11_uc002ing.1_Missense_Mutation_p.S8L|SNX11_uc002inh.1_Missense_Mutation_p.S8L	NM_152244	NP_689450	Q9Y5W9	SNX11_HUMAN	sorting nexin 11	8					cell communication|protein transport	membrane	phosphatidylinositol binding				0																		---	---	---	---
HOXB3	3213	broad.mit.edu	37	17	46628177	46628177	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:46628177G>A	uc002inn.2	-	2	1215	c.815C>T	c.(814-816)ACG>ATG	p.T272M	HOXB3_uc010wlm.1_Missense_Mutation_p.T199M|HOXB3_uc010dbf.2_Missense_Mutation_p.T272M|HOXB3_uc010dbg.2_Missense_Mutation_p.T272M|HOXB3_uc002ino.2_Missense_Mutation_p.T272M|HOXB3_uc010wlk.1_Missense_Mutation_p.T140M|HOXB3_uc010wll.1_Missense_Mutation_p.T199M	NM_002146	NP_002137	P14651	HXB3_HUMAN	homeobox B3	272					angiogenesis	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0																OREG0024516	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
MYCBPAP	84073	broad.mit.edu	37	17	48606375	48606375	+	Intron	SNP	G	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:48606375G>T	uc010wmr.1	+						MYCBPAP_uc002iqz.2_Intron	NM_032133	NP_115509			Myc-binding protein-associated protein						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)															---	---	---	---
BCAS3	54828	broad.mit.edu	37	17	58980003	58980003	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:58980003G>A	uc002iyv.3	+	11	870	c.761G>A	c.(760-762)CGT>CAT	p.R254H	BCAS3_uc010wow.1_Intron|BCAS3_uc002iyu.3_Missense_Mutation_p.R254H|BCAS3_uc002iyw.3_Missense_Mutation_p.R250H|BCAS3_uc002iyx.1_Missense_Mutation_p.R69H|BCAS3_uc002iyy.3_Missense_Mutation_p.R25H	NM_001099432	NP_001092902	Q9H6U6	BCAS3_HUMAN	breast carcinoma amplified sequence 3 isoform 1	254						nucleus				ovary(2)|central_nervous_system(2)|skin(1)	5			BRCA - Breast invasive adenocarcinoma(1;3.11e-12)|Epithelial(12;8.2e-07)|all cancers(12;5.33e-06)															---	---	---	---
MARCH10	162333	broad.mit.edu	37	17	60837269	60837269	+	Silent	SNP	T	C	C	rs146472679	byFrequency	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:60837269T>C	uc010ddr.2	-	4	547	c.309A>G	c.(307-309)TCA>TCG	p.S103S	MARCH10_uc002jag.3_Silent_p.S103S|MARCH10_uc010dds.2_Silent_p.S103S|MARCH10_uc002jah.2_Silent_p.S103S	NM_001100875	NP_001094345	Q8NA82	MARHA_HUMAN	ring finger protein 190	103							ligase activity|zinc ion binding				0																		---	---	---	---
FTSJ3	117246	broad.mit.edu	37	17	61901290	61901290	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:61901290C>T	uc002jbz.2	-	12	1255	c.1177G>A	c.(1177-1179)GAG>AAG	p.E393K	FTSJ3_uc002jca.2_Missense_Mutation_p.E393K	NM_017647	NP_060117	Q8IY81	RRMJ3_HUMAN	FtsJ homolog 3	393					RNA methylation|rRNA processing	nucleolus	methyltransferase activity|nucleic acid binding			ovary(1)	1																		---	---	---	---
ICAM2	3384	broad.mit.edu	37	17	62081214	62081214	+	Missense_Mutation	SNP	G	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:62081214G>T	uc002jdu.3	-	3	671	c.439C>A	c.(439-441)CTC>ATC	p.L147I	C17orf72_uc002jdt.3_3'UTR|C17orf72_uc010wpu.1_3'UTR|C17orf72_uc010wpv.1_3'UTR|C17orf72_uc010wpw.1_3'UTR|ICAM2_uc002jdw.3_Missense_Mutation_p.L147I|ICAM2_uc010ded.2_Missense_Mutation_p.L147I|ICAM2_uc002jdx.3_Missense_Mutation_p.L147I|ICAM2_uc002jdv.3_Missense_Mutation_p.L147I	NM_000873	NP_000864	P13598	ICAM2_HUMAN	intercellular adhesion molecule 2 precursor	147	Ig-like C2-type 2.|Extracellular (Potential).				cell-cell adhesion|regulation of immune response	integral to plasma membrane	integrin binding			ovary(1)	1																		---	---	---	---
ERN1	2081	broad.mit.edu	37	17	62137923	62137923	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:62137923G>A	uc002jdz.2	-	11	1225	c.1112C>T	c.(1111-1113)GCG>GTG	p.A371V		NM_001433	NP_001424	O75460	ERN1_HUMAN	endoplasmic reticulum to nucleus signalling 1	371	Lumenal (Potential).				activation of signaling protein activity involved in unfolded protein response|apoptosis|cell cycle arrest|induction of apoptosis|mRNA processing|regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to endoplasmic reticulum membrane	ATP binding|endoribonuclease activity, producing 5'-phosphomonoesters|magnesium ion binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(4)|lung(2)|stomach(1)|ovary(1)|kidney(1)	9																		---	---	---	---
KPNA2	3838	broad.mit.edu	37	17	66040114	66040114	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:66040114C>T	uc002jgk.2	+	8	1223	c.1091C>T	c.(1090-1092)GCC>GTC	p.A364V	KPNA2_uc002jgl.2_Missense_Mutation_p.A364V	NM_002266	NP_002257	P52292	IMA2_HUMAN	karyopherin alpha 2	364	ARM 7.|NLS binding site (minor) (By similarity).				DNA metabolic process|G2 phase of mitotic cell cycle|interspecies interaction between organisms|M phase specific microtubule process|NLS-bearing substrate import into nucleus|regulation of DNA recombination	cytoplasm|nuclear pore|nucleoplasm	histone deacetylase binding|nuclear localization sequence binding|protein transporter activity			central_nervous_system(2)	2	all_cancers(12;1.18e-09)		BRCA - Breast invasive adenocarcinoma(8;1.03e-07)|LUSC - Lung squamous cell carcinoma(166;0.24)															---	---	---	---
SOX9	6662	broad.mit.edu	37	17	70119058	70119058	+	Missense_Mutation	SNP	C	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:70119058C>G	uc002jiw.2	+	2	1002	c.630C>G	c.(628-630)GAC>GAG	p.D210E	uc002jiv.2_5'Flank	NM_000346	NP_000337	P48436	SOX9_HUMAN	transcription factor SOX9	210					cAMP-mediated signaling|negative regulation of transcription, DNA-dependent|positive regulation of branching involved in ureteric bud morphogenesis|protein complex assembly|renal vesicle induction	nucleus|protein complex	core promoter sequence-specific DNA binding|enhancer binding|protein kinase A catalytic subunit binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription				0		Colorectal(1115;0.245)	STAD - Stomach adenocarcinoma(260;0.119)															---	---	---	---
SOX9	6662	broad.mit.edu	37	17	70120258	70120258	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:70120258C>T	uc002jiw.2	+	3	1632	c.1260C>T	c.(1258-1260)TAC>TAT	p.Y420Y		NM_000346	NP_000337	P48436	SOX9_HUMAN	transcription factor SOX9	420					cAMP-mediated signaling|negative regulation of transcription, DNA-dependent|positive regulation of branching involved in ureteric bud morphogenesis|protein complex assembly|renal vesicle induction	nucleus|protein complex	core promoter sequence-specific DNA binding|enhancer binding|protein kinase A catalytic subunit binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription				0		Colorectal(1115;0.245)	STAD - Stomach adenocarcinoma(260;0.119)															---	---	---	---
TNRC6C	57690	broad.mit.edu	37	17	76045711	76045711	+	Missense_Mutation	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:76045711A>G	uc002jud.2	+	4	1168	c.568A>G	c.(568-570)ATG>GTG	p.M190V	TNRC6C_uc002juf.2_Missense_Mutation_p.M190V|TNRC6C_uc002jue.2_Missense_Mutation_p.M190V	NM_018996	NP_061869	Q9HCJ0	TNR6C_HUMAN	trinucleotide repeat containing 6C isoform 2	190	Sufficient for interaction with argonaute family proteins.				gene silencing by RNA|regulation of translation		nucleotide binding|RNA binding			ovary(1)|central_nervous_system(1)	2			BRCA - Breast invasive adenocarcinoma(99;0.00269)|Lung(188;0.0973)															---	---	---	---
USP36	57602	broad.mit.edu	37	17	76832231	76832231	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:76832231C>T	uc002jvz.1	-	3	540	c.215G>A	c.(214-216)CGC>CAC	p.R72H	USP36_uc002jwa.1_Missense_Mutation_p.R72H|USP36_uc002jwd.1_Missense_Mutation_p.R72H	NM_025090	NP_079366	Q9P275	UBP36_HUMAN	ubiquitin specific peptidase 36	72					ubiquitin-dependent protein catabolic process	nucleolus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|ovary(1)|breast(1)|kidney(1)	5			BRCA - Breast invasive adenocarcinoma(99;0.000842)|OV - Ovarian serous cystadenocarcinoma(97;0.151)															---	---	---	---
CCDC40	55036	broad.mit.edu	37	17	78023799	78023799	+	Intron	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:78023799G>A	uc010dht.2	+						CCDC40_uc010wub.1_Intron|CCDC40_uc002jxm.3_Intron	NM_017950	NP_060420			coiled-coil domain containing 40						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)															---	---	---	---
CCDC40	55036	broad.mit.edu	37	17	78069228	78069228	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:78069228G>A	uc010dht.2	+	18	3026	c.2999G>A	c.(2998-3000)CGG>CAG	p.R1000Q	CCDC40_uc002jxm.3_Missense_Mutation_p.R783Q|CCDC40_uc002jxn.3_Missense_Mutation_p.R396Q	NM_017950	NP_060420	Q4G0X9	CCD40_HUMAN	coiled-coil domain containing 40	1000					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)															---	---	---	---
CARD14	79092	broad.mit.edu	37	17	78157813	78157813	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:78157813C>T	uc002jxw.1	+	4	646	c.451C>T	c.(451-453)CGG>TGG	p.R151W	CARD14_uc002jxt.1_RNA|CARD14_uc002jxv.2_Missense_Mutation_p.R151W|CARD14_uc010wud.1_RNA	NM_024110	NP_077015	Q9BXL6	CAR14_HUMAN	caspase recruitment domain protein 14 isoform 1	151	Potential.				activation of NF-kappaB-inducing kinase activity|positive regulation of protein phosphorylation|regulation of apoptosis	aggresome|cytoplasm|plasma membrane	CARD domain binding			ovary(4)|skin(1)	5	all_neural(118;0.0952)		OV - Ovarian serous cystadenocarcinoma(97;0.017)|BRCA - Breast invasive adenocarcinoma(99;0.0908)															---	---	---	---
B3GNTL1	146712	broad.mit.edu	37	17	80919007	80919007	+	Silent	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:80919007G>A	uc002kgg.1	-	8	665	c.651C>T	c.(649-651)GGC>GGT	p.G217G	B3GNTL1_uc002kgf.1_Silent_p.G106G|B3GNTL1_uc002kge.1_RNA	NM_001009905	NP_001009905	Q67FW5	B3GNL_HUMAN	UDP-GlcNAc:betaGal	217							transferase activity, transferring glycosyl groups			ovary(1)|pancreas(1)	2	Breast(20;0.000443)|all_neural(118;0.0779)	all_cancers(8;0.0396)|all_epithelial(8;0.0556)	BRCA - Breast invasive adenocarcinoma(99;0.0517)|OV - Ovarian serous cystadenocarcinoma(97;0.0868)															---	---	---	---
GNAL	2774	broad.mit.edu	37	18	11881145	11881145	+	3'UTR	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:11881145G>A	uc010dkz.2	+	13					GNAL_uc002kqc.2_3'UTR|GNAL_uc002kqd.2_3'UTR|GNAL_uc010wzt.1_3'UTR	NM_001142339	NP_001135811			guanine nucleotide binding protein (G protein),						activation of adenylate cyclase activity by dopamine receptor signaling pathway|inhibition of adenylate cyclase activity by G-protein signaling pathway|sensory perception of smell|synaptic transmission	heterotrimeric G-protein complex	adenylate cyclase activity|G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GTP binding|GTPase activity|signal transducer activity			ovary(1)	1																		---	---	---	---
CEP192	55125	broad.mit.edu	37	18	13049878	13049878	+	Missense_Mutation	SNP	C	T	T	rs142411472		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:13049878C>T	uc010xac.1	+	17	3085	c.3005C>T	c.(3004-3006)ACG>ATG	p.T1002M	CEP192_uc010dlf.1_RNA|CEP192_uc010xad.1_Missense_Mutation_p.T527M|CEP192_uc002kru.2_RNA|CEP192_uc002krs.1_Missense_Mutation_p.T743M	NM_032142	NP_115518	E9PF99	E9PF99_HUMAN	centrosomal protein 192kDa	1002										ovary(4)|pancreas(1)	5																		---	---	---	---
DSG1	1828	broad.mit.edu	37	18	28913591	28913591	+	Nonsense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:28913591C>T	uc002kwp.2	+	7	936	c.724C>T	c.(724-726)CGA>TGA	p.R242*		NM_001942	NP_001933	Q02413	DSG1_HUMAN	desmoglein 1 preproprotein	242	Extracellular (Potential).|Cadherin 2.				calcium-dependent cell-cell adhesion|cell-cell junction assembly|cellular component disassembly involved in apoptosis|homophilic cell adhesion|protein stabilization	cytosol|desmosome|integral to membrane|internal side of plasma membrane	calcium ion binding|gamma-catenin binding|toxin binding			skin(3)|ovary(2)|central_nervous_system(2)	7			OV - Ovarian serous cystadenocarcinoma(10;0.00559)															---	---	---	---
SETBP1	26040	broad.mit.edu	37	18	42532846	42532846	+	Missense_Mutation	SNP	T	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:42532846T>G	uc010dni.2	+	4	3837	c.3541T>G	c.(3541-3543)TTC>GTC	p.F1181V		NM_015559	NP_056374	Q9Y6X0	SETBP_HUMAN	SET binding protein 1 isoform a	1181						nucleus	DNA binding			upper_aerodigestive_tract(2)|large_intestine(1)	3				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)										Schinzel-Giedion_syndrome				---	---	---	---
TCEB3B	51224	broad.mit.edu	37	18	44560283	44560283	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:44560283C>T	uc002lcr.1	-	1	1706	c.1353G>A	c.(1351-1353)CCG>CCA	p.P451P	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_016427	NP_057511	Q8IYF1	ELOA2_HUMAN	elongin A2	451					regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter	integral to membrane|nucleus	DNA binding			ovary(2)|large_intestine(1)|pancreas(1)	4																		---	---	---	---
FECH	2235	broad.mit.edu	37	18	55217935	55217935	+	3'UTR	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:55217935C>T	uc002lgq.3	-	11					FECH_uc002lgp.3_3'UTR|FECH_uc002lgr.3_3'UTR	NM_000140	NP_000131			ferrochelatase isoform b precursor						generation of precursor metabolites and energy|heme biosynthetic process|protoporphyrinogen IX metabolic process|response to light stimulus	mitochondrial inner membrane|mitochondrial matrix	2 iron, 2 sulfur cluster binding|ferrochelatase activity|ferrous iron binding|protein binding			central_nervous_system(1)	1		Colorectal(73;0.227)																---	---	---	---
GRP	2922	broad.mit.edu	37	18	56892843	56892843	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:56892843C>T	uc002lhv.2	+	2	357	c.259C>T	c.(259-261)CTC>TTC	p.L87F	GRP_uc002lhu.2_Missense_Mutation_p.L87F|GRP_uc002lhw.2_Missense_Mutation_p.L87F	NM_002091	NP_002082	P07492	GRP_HUMAN	gastrin-releasing peptide isoform 1	87					neuropeptide signaling pathway	extracellular space	neuropeptide hormone activity				0		Colorectal(73;0.0946)																---	---	---	---
CYB5A	1528	broad.mit.edu	37	18	71920841	71920841	+	Missense_Mutation	SNP	C	T	T	rs145656581	byFrequency	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:71920841C>T	uc002lli.2	-	5	494	c.383G>A	c.(382-384)CGC>CAC	p.R128H	CYB5A_uc002llh.2_3'UTR	NM_148923	NP_683725	P00167	CYB5_HUMAN	cytochrome b-5 isoform 1	128	Helical; (Potential).				electron transport chain|water-soluble vitamin metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial outer membrane	aldo-keto reductase (NADP) activity|cytochrome-c oxidase activity|enzyme binding|heme binding				0		Esophageal squamous(42;0.0749)|Prostate(75;0.157)|Melanoma(33;0.211)			Methoxyflurane(DB01028)													---	---	---	---
ZNF516	9658	broad.mit.edu	37	18	74153438	74153438	+	Missense_Mutation	SNP	G	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:74153438G>T	uc010dqx.1	-	2	1808	c.1573C>A	c.(1573-1575)CGC>AGC	p.R525S	ZNF516_uc002lme.2_RNA	NM_014643	NP_055458	Q92618	ZN516_HUMAN	zinc finger protein 516	525	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Prostate(75;0.0869)|Esophageal squamous(42;0.129)		OV - Ovarian serous cystadenocarcinoma(15;7.64e-06)|BRCA - Breast invasive adenocarcinoma(31;0.238)														---	---	---	---
MBP	4155	broad.mit.edu	37	18	74817183	74817183	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:74817183G>A	uc010xfd.1	-	2	299	c.35C>T	c.(34-36)GCC>GTC	p.A12V	MBP_uc002lmr.2_Missense_Mutation_p.A12V	NM_001025101	NP_001020272	P02686	MBP_HUMAN	Golli-mbp isoform 1	12					central nervous system development|immune response|synaptic transmission	plasma membrane	structural constituent of myelin sheath			haematopoietic_and_lymphoid_tissue(1)	1		Prostate(75;0.0865)|Esophageal squamous(42;0.129)|Melanoma(33;0.211)		OV - Ovarian serous cystadenocarcinoma(15;1.79e-06)|BRCA - Breast invasive adenocarcinoma(31;0.113)|READ - Rectum adenocarcinoma(1;0.188)														---	---	---	---
SALL3	27164	broad.mit.edu	37	18	76753543	76753543	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:76753543G>A	uc002lmt.2	+	2	1552	c.1552G>A	c.(1552-1554)GTG>ATG	p.V518M	SALL3_uc010dra.2_Missense_Mutation_p.V125M	NM_171999	NP_741996	Q9BXA9	SALL3_HUMAN	sal-like 3	518					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Esophageal squamous(42;0.129)|Melanoma(33;0.16)|Prostate(75;0.167)		OV - Ovarian serous cystadenocarcinoma(15;4.69e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0256)														---	---	---	---
ATP9B	374868	broad.mit.edu	37	18	77105582	77105582	+	Intron	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:77105582G>A	uc002lmx.2	+						ATP9B_uc002lmw.1_Intron|ATP9B_uc002lmz.1_Intron|ATP9B_uc002lna.2_Intron|ATP9B_uc002lnb.1_Intron|ATP9B_uc010drb.2_5'Flank	NM_198531	NP_940933			ATPase, class II, type 9B						ATP biosynthetic process	integral to membrane	aminophospholipid transporter activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|cation-transporting ATPase activity|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)	3		Esophageal squamous(42;0.018)|Melanoma(33;0.0964)|Prostate(75;0.171)		OV - Ovarian serous cystadenocarcinoma(15;1.44e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0405)														---	---	---	---
CTDP1	9150	broad.mit.edu	37	18	77475181	77475181	+	Missense_Mutation	SNP	A	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:77475181A>C	uc002lnh.1	+	8	1868	c.1721A>C	c.(1720-1722)CAG>CCG	p.Q574P	CTDP1_uc002lni.1_Missense_Mutation_p.Q574P|CTDP1_uc010drd.1_Missense_Mutation_p.Q574P	NM_004715	NP_004706	Q9Y5B0	CTDP1_HUMAN	CTD (carboxy-terminal domain, RNA polymerase II,	574					positive regulation of viral transcription|protein dephosphorylation|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	CTD phosphatase activity|DNA-directed RNA polymerase activity				0		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;5.2e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0277)														---	---	---	---
PTBP1	5725	broad.mit.edu	37	19	804214	804214	+	Intron	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:804214T>C	uc002lpr.2	+						PTBP1_uc002lpp.2_Intron|PTBP1_uc002lpq.2_Intron|PTBP1_uc002lps.2_Intron|PTBP1_uc002lpt.2_Intron|PTBP1_uc002lpu.1_Intron	NM_031991	NP_114368			polypyrimidine tract-binding protein 1 isoform						negative regulation of muscle cell differentiation|nuclear mRNA splicing, via spliceosome|regulation of alternative nuclear mRNA splicing, via spliceosome	heterogeneous nuclear ribonucleoprotein complex|nucleolus|nucleoplasm	mRNA binding|nucleotide binding|poly-pyrimidine tract binding|protein binding			kidney(1)|skin(1)	2		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;0.000172)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		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)														---	---	---	---
C19orf22	91300	broad.mit.edu	37	19	902078	902078	+	Missense_Mutation	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:902078A>G	uc002lqg.2	-	2	192	c.124T>C	c.(124-126)TCG>CCG	p.S42P	C19orf22_uc002lqh.2_Intron|C19orf22_uc002lqi.2_Missense_Mutation_p.S42P|C19orf22_uc002lqj.2_5'UTR	NM_138774	NP_620129	Q96D70	CS022_HUMAN	hypothetical protein LOC91300	42						nucleus	nucleic acid binding			pancreas(1)	1		Acute lymphoblastic leukemia(61;4.36e-14)|all_hematologic(61;4.84e-09)|Lung NSC(49;0.000226)|all_lung(49;0.000353)|Breast(49;0.00066)		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)														---	---	---	---
C19orf6	91304	broad.mit.edu	37	19	1010864	1010864	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:1010864C>T	uc002lqr.1	-	11	1494	c.1348G>A	c.(1348-1350)GAG>AAG	p.E450K	uc002lqp.1_5'Flank|C19orf6_uc002lqq.1_RNA|C19orf6_uc002lqs.1_3'UTR	NM_001033026	NP_001028198	Q4ZIN3	MBRL_HUMAN	membralin isoform 1	450						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)														---	---	---	---
THOP1	7064	broad.mit.edu	37	19	2810725	2810725	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:2810725C>T	uc002lwj.2	+	11	1885	c.1730C>T	c.(1729-1731)GCG>GTG	p.A577V	THOP1_uc010xgz.1_Missense_Mutation_p.A456V|THOP1_uc002lwk.2_Missense_Mutation_p.A88V	NM_003249	NP_003240	P52888	THOP1_HUMAN	thimet oligopeptidase 1	577					proteolysis	cytoplasm	metal ion binding|metalloendopeptidase activity|protein binding			ovary(2)|central_nervous_system(1)	3				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)														---	---	---	---
ZNF555	148254	broad.mit.edu	37	19	2852714	2852714	+	Silent	SNP	G	A	A	rs139480369	by1000genomes	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:2852714G>A	uc002lwo.2	+	4	740	c.651G>A	c.(649-651)CGG>CGA	p.R217R	ZNF555_uc002lwn.3_Silent_p.R216R	NM_152791	NP_690004	Q8NEP9	ZN555_HUMAN	zinc finger protein 555	217	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				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)														---	---	---	---
ZNF556	80032	broad.mit.edu	37	19	2877633	2877633	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:2877633C>T	uc002lwp.1	+	4	764	c.677C>T	c.(676-678)ACT>ATT	p.T226I	ZNF556_uc002lwq.2_Missense_Mutation_p.T225I	NM_024967	NP_079243	Q9HAH1	ZN556_HUMAN	zinc finger protein 556	226					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(3)	3				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)														---	---	---	---
GNA11	2767	broad.mit.edu	37	19	3113410	3113410	+	Missense_Mutation	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:3113410T>C	uc002lxd.2	+	3	646	c.404T>C	c.(403-405)CTG>CCG	p.L135P		NM_002067	NP_002058	P29992	GNA11_HUMAN	guanine nucleotide binding protein (G protein),	135					activation of phospholipase C activity by dopamine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|platelet activation|protein ADP-ribosylation|regulation of action potential	cytoplasm|heterotrimeric G-protein complex	G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GTP binding|GTPase activity|signal transducer activity			eye(70)|skin(16)	86		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.79e-05)|OV - Ovarian serous cystadenocarcinoma(105;2.68e-113)|Epithelial(107;1.22e-111)|all cancers(105;5.78e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00141)|STAD - Stomach adenocarcinoma(1328;0.181)				Mis		uveal melanoma								---	---	---	---
PLIN4	729359	broad.mit.edu	37	19	4504698	4504698	+	Nonsense_Mutation	SNP	C	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:4504698C>A	uc002mar.1	-	6	3847	c.3847G>T	c.(3847-3849)GAG>TAG	p.E1283*	PLIN4_uc010dub.1_Nonsense_Mutation_p.E307*	NM_001080400	NP_001073869	Q96Q06	PLIN4_HUMAN	plasma membrane associated protein, S3-12	1283						lipid particle|plasma membrane					0																		---	---	---	---
TICAM1	148022	broad.mit.edu	37	19	4818338	4818338	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:4818338C>T	uc002mbi.2	-	2	303	c.52G>A	c.(52-54)GCA>ACA	p.A18T		NM_182919	NP_891549	Q8IUC6	TCAM1_HUMAN	toll-like receptor adaptor molecule 1	18					apoptosis|I-kappaB kinase/NF-kappaB cascade|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB 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|endosome membrane|plasma membrane	protein kinase binding|signal transducer activity			breast(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0139)														---	---	---	---
PLIN3	10226	broad.mit.edu	37	19	4852210	4852210	+	Missense_Mutation	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:4852210A>G	uc002mbj.2	-	5	629	c.452T>C	c.(451-453)GTG>GCG	p.V151A	PLIN3_uc002mbk.2_Missense_Mutation_p.V139A|PLIN3_uc002mbl.3_Missense_Mutation_p.V151A	NM_005817	NP_005808	O60664	PLIN3_HUMAN	mannose 6 phosphate receptor binding protein 1	151					vesicle-mediated transport	endosome membrane|Golgi apparatus|lipid particle	protein binding				0					Galsulfase(DB01279)|Idursulfase(DB01271)											OREG0025175	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
PSPN	5623	broad.mit.edu	37	19	6375771	6375771	+	Silent	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:6375771G>A	uc010xja.1	-	1	90	c.90C>T	c.(88-90)CCC>CCT	p.P30P		NM_004158	NP_004149	O60542	PSPN_HUMAN	persephin precursor	30					axon guidance|central nervous system development		growth factor activity			skin(1)	1																		---	---	---	---
KIAA1543	57662	broad.mit.edu	37	19	7682705	7682705	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:7682705C>T	uc002mgv.3	+	17	3613	c.3512C>T	c.(3511-3513)GCG>GTG	p.A1171V	KIAA1543_uc002mgu.3_Missense_Mutation_p.A1198V|KIAA1543_uc002mgw.2_Missense_Mutation_p.A301V	NM_020902	NP_065953	Q9P1Y5	CAMP3_HUMAN	NEZHA isoform 2	1171	CKK.				epithelial cell-cell adhesion|microtubule anchoring|regulation of microtubule cytoskeleton organization|zonula adherens maintenance	cytoplasm|microtubule|zonula adherens	microtubule minus-end binding			pancreas(1)	1																		---	---	---	---
XAB2	56949	broad.mit.edu	37	19	7693109	7693109	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:7693109C>T	uc002mgx.2	-	2	153	c.127G>A	c.(127-129)GAG>AAG	p.E43K	uc010dvi.1_5'Flank	NM_020196	NP_064581	Q9HCS7	SYF1_HUMAN	XPA binding protein 2	43	HAT 1.				transcription, DNA-dependent|transcription-coupled nucleotide-excision repair	catalytic step 2 spliceosome|nucleoplasm	protein binding			central_nervous_system(2)|breast(1)|skin(1)	4													Direct_reversal_of_damage|NER					---	---	---	---
ZNF559	84527	broad.mit.edu	37	19	9452461	9452461	+	Missense_Mutation	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:9452461A>G	uc002mlg.2	+	7	981	c.334A>G	c.(334-336)ACT>GCT	p.T112A	ZNF559_uc002mlf.2_5'UTR|ZNF559_uc010dwl.1_5'UTR|ZNF559_uc010xkn.1_Missense_Mutation_p.T104A|ZNF559_uc010dwm.1_3'UTR|ZNF559_uc002mle.3_Missense_Mutation_p.T176A|ZNF559_uc010dwk.1_5'UTR|ZNF559_uc002mld.2_3'UTR|ZNF559_uc010dwo.1_Intron|ZNF177_uc002mli.2_Intron|ZNF177_uc002mlj.2_Intron	NM_032497	NP_115886	Q9BR84	ZN559_HUMAN	zinc finger protein 559	112	C2H2-type 1; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1																		---	---	---	---
ZNF559	84527	broad.mit.edu	37	19	9452553	9452553	+	Silent	SNP	C	T	T	rs147973414	byFrequency	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:9452553C>T	uc002mlg.2	+	7	1073	c.426C>T	c.(424-426)ATC>ATT	p.I142I	ZNF559_uc002mlf.2_5'UTR|ZNF559_uc010dwl.1_5'UTR|ZNF559_uc010xkn.1_Silent_p.I134I|ZNF559_uc010dwm.1_3'UTR|ZNF559_uc002mle.3_Silent_p.I206I|ZNF559_uc010dwk.1_5'UTR|ZNF559_uc002mld.2_3'UTR|ZNF559_uc010dwo.1_Intron|ZNF177_uc002mli.2_Intron|ZNF177_uc002mlj.2_Intron	NM_032497	NP_115886	Q9BR84	ZN559_HUMAN	zinc finger protein 559	142					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1																		---	---	---	---
ZNF561	93134	broad.mit.edu	37	19	9721783	9721783	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:9721783G>A	uc002mlu.2	-	6	759	c.554C>T	c.(553-555)GCT>GTT	p.A185V	ZNF561_uc010dwu.2_Missense_Mutation_p.A116V|ZNF561_uc010xkr.1_Missense_Mutation_p.A49V	NM_152289	NP_689502	Q8N587	ZN561_HUMAN	zinc finger protein 561	185	C2H2-type 2; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1																		---	---	---	---
PPAN-P2RY11	692312	broad.mit.edu	37	19	10221628	10221628	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:10221628C>T	uc002mna.2	+	12	1209	c.1209C>T	c.(1207-1209)TTC>TTT	p.F403F	PPAN-P2RY11_uc010xla.1_Silent_p.F403F|P2RY11_uc002mnc.2_5'Flank|PPAN_uc002mmz.1_Silent_p.F403F|PPAN_uc002mnb.1_Silent_p.F350F	NM_001040664	NP_001035754	Q9NQ55	SSF1_HUMAN	PPAN-P2RY11 protein	403					RNA splicing	nucleolus	protein binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(20;2.19e-08)|Epithelial(33;1.76e-05)|all cancers(31;3.54e-05)															---	---	---	---
DNMT1	1786	broad.mit.edu	37	19	10277310	10277310	+	Silent	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:10277310G>A	uc002mng.2	-	10	987	c.807C>T	c.(805-807)GGC>GGT	p.G269G	DNMT1_uc010xlc.1_Silent_p.G285G|DNMT1_uc002mnh.2_Silent_p.G164G|DNMT1_uc010xld.1_Silent_p.G269G|DNMT1_uc002mnk.2_RNA	NM_001379	NP_001370	P26358	DNMT1_HUMAN	DNA (cytosine-5-)-methyltransferase 1 isoform b	269	Interaction with the PRC2/EED-EZH2 complex (By similarity).				chromatin modification|maintenance of DNA methylation|negative regulation of histone H3-K9 methylation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of gene expression|positive regulation of histone H3-K4 methylation|transcription, DNA-dependent	nucleus	DNA (cytosine-5-)-methyltransferase activity|DNA binding|transcription factor binding			ovary(2)|prostate(1)|lung(1)|breast(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(20;1.59e-09)|Epithelial(33;2.86e-06)|all cancers(31;6.68e-06)		Azacitidine(DB00928)|Decitabine(DB01262)|Flucytosine(DB01099)|Ifosfamide(DB01181)|Procainamide(DB01035)													---	---	---	---
MAN2B1	4125	broad.mit.edu	37	19	12759146	12759146	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:12759146G>A	uc002mub.2	-	21	2583	c.2507C>T	c.(2506-2508)GCG>GTG	p.A836V	MAN2B1_uc010dyv.1_Missense_Mutation_p.A835V	NM_000528	NP_000519	O00754	MA2B1_HUMAN	mannosidase, alpha, class 2B, member 1	836					protein deglycosylation	lysosome	alpha-mannosidase activity|zinc ion binding			ovary(4)|central_nervous_system(2)	6																		---	---	---	---
RFX1	5989	broad.mit.edu	37	19	14074062	14074062	+	Silent	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:14074062G>A	uc002mxv.2	-	19	2868	c.2596C>T	c.(2596-2598)CTG>TTG	p.L866L		NM_002918	NP_002909	P22670	RFX1_HUMAN	regulatory factor X1	866	Necessary for dimerization.				immune response	nucleus	DNA binding|protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			lung(1)|pancreas(1)	2			OV - Ovarian serous cystadenocarcinoma(19;6.67e-23)															---	---	---	---
CYP4F8	11283	broad.mit.edu	37	19	15726481	15726481	+	Silent	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:15726481G>A	uc002nbi.2	+	2	118	c.54G>A	c.(52-54)CCG>CCA	p.P18P	CYP4F8_uc010xoi.1_Silent_p.P18P|CYP4F8_uc010xoj.1_Translation_Start_Site	NM_007253	NP_009184	P98187	CP4F8_HUMAN	cytochrome P450, family 4, subfamily F,	18	Helical; (Potential).				prostaglandin metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	alkane 1-monooxygenase activity|aromatase activity|electron carrier activity|heme binding|oxygen binding|protein binding			large_intestine(1)	1																		---	---	---	---
CYP4F8	11283	broad.mit.edu	37	19	15728958	15728958	+	Intron	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:15728958A>G	uc002nbi.2	+						CYP4F8_uc010xoi.1_Missense_Mutation_p.T116A|CYP4F8_uc010xoj.1_Intron	NM_007253	NP_009184			cytochrome P450, family 4, subfamily F,						prostaglandin metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	alkane 1-monooxygenase activity|aromatase activity|electron carrier activity|heme binding|oxygen binding|protein binding			large_intestine(1)	1																		---	---	---	---
ANKLE1	126549	broad.mit.edu	37	19	17394228	17394228	+	Missense_Mutation	SNP	G	A	A	rs10415287	byFrequency;by1000genomes	TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:17394228G>A	uc002nga.2	+	5	931	c.655G>A	c.(655-657)GCC>ACC	p.A219T	ANKLE1_uc010xpm.1_RNA|ANKLE1_uc010eao.1_Missense_Mutation_p.A241T|ANKLE1_uc010xpn.1_Missense_Mutation_p.A273T|ANKLE1_uc002nfy.2_Missense_Mutation_p.A208T|ANKLE1_uc002nfz.2_5'UTR	NM_152363	NP_689576	Q8NAG6	ANKL1_HUMAN	ankyrin repeat domain 41	219						nuclear envelope					0																		---	---	---	---
KIAA1683	80726	broad.mit.edu	37	19	18376152	18376152	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:18376152G>A	uc002nin.2	-	3	2414	c.2198C>T	c.(2197-2199)GCG>GTG	p.A733V	KIAA1683_uc010ebn.2_Missense_Mutation_p.A733V|KIAA1683_uc010xqe.1_Missense_Mutation_p.A687V	NM_025249	NP_079525	Q9H0B3	K1683_HUMAN	KIAA1683 isoform b	733						mitochondrion				ovary(2)	2																		---	---	---	---
C19orf60	55049	broad.mit.edu	37	19	18700331	18700331	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:18700331C>T	uc002njv.3	+	3	408	c.291C>T	c.(289-291)TTC>TTT	p.F97F	C19orf60_uc010ebs.2_Silent_p.F75F|C19orf60_uc002njw.3_Silent_p.F109F|C19orf60_uc002nju.2_Silent_p.F109F	NM_001100418	NP_001093888	Q96EN9	CS060_HUMAN	hypothetical protein LOC55049 isoform 1	97							protein binding				0																		---	---	---	---
SFRS14	10147	broad.mit.edu	37	19	19115185	19115185	+	Silent	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:19115185G>A	uc002nkx.2	-	7	2867	c.2721C>T	c.(2719-2721)CCC>CCT	p.P907P	SFRS14_uc002nkz.1_Silent_p.P921P|SFRS14_uc002nla.1_Silent_p.P907P|SFRS14_uc002nlb.2_Silent_p.P907P|SFRS14_uc010xqk.1_Silent_p.P676P	NM_014884	NP_055699	Q8IX01	SUGP2_HUMAN	splicing factor, arginine/serine-rich 14	907					mRNA processing|RNA splicing	nucleus	RNA binding				0			OV - Ovarian serous cystadenocarcinoma(5;3.05e-05)|Epithelial(12;0.00161)															---	---	---	---
ARMC6	93436	broad.mit.edu	37	19	19166101	19166101	+	Missense_Mutation	SNP	C	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:19166101C>A	uc002nld.2	+	7	1399	c.1051C>A	c.(1051-1053)CTG>ATG	p.L351M	ARMC6_uc002nlc.2_Missense_Mutation_p.L326M|ARMC6_uc010xql.1_Missense_Mutation_p.L258M|ARMC6_uc002nle.2_Missense_Mutation_p.L326M|ARMC6_uc010xqm.1_Missense_Mutation_p.L351M	NM_033415	NP_219483	Q6NXE6	ARMC6_HUMAN	armadillo repeat containing 6	351	ARM 3.						protein binding				0			OV - Ovarian serous cystadenocarcinoma(5;5.66e-06)|Epithelial(12;0.000391)															---	---	---	---
RBM42	79171	broad.mit.edu	37	19	36124838	36124838	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:36124838C>T	uc002oan.2	+	7	1010	c.934C>T	c.(934-936)CTG>TTG	p.L312L	RBM42_uc010eef.2_Silent_p.L258L|RBM42_uc002oao.2_Silent_p.L290L|RBM42_uc002oap.2_Silent_p.L282L|RBM42_uc002oaq.2_Silent_p.L283L|RBM42_uc010eeg.2_Silent_p.L283L	NM_024321	NP_077297	Q9BTD8	RBM42_HUMAN	RNA binding motif protein 42	312	Necessary for interaction with HNRNPK (By similarity).|Pro-rich.					cytoplasm|nucleus	nucleotide binding|RNA binding				0	all_lung(56;1.58e-07)|Lung NSC(56;2.43e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)															---	---	---	---
ZNF345	25850	broad.mit.edu	37	19	37368416	37368416	+	Missense_Mutation	SNP	A	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:37368416A>C	uc002oex.2	+	3	1062	c.684A>C	c.(682-684)AAA>AAC	p.K228N	ZNF345_uc002oey.3_Missense_Mutation_p.K228N|ZNF345_uc002oez.2_Intron	NM_003419	NP_003410	Q14585	ZN345_HUMAN	zinc finger protein 345	228					negative regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase III promoter|transcription from RNA polymerase II promoter|transcription from RNA polymerase III promoter	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)															---	---	---	---
ZNF345	25850	broad.mit.edu	37	19	37368636	37368636	+	Missense_Mutation	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:37368636A>G	uc002oex.2	+	3	1282	c.904A>G	c.(904-906)ACT>GCT	p.T302A	ZNF345_uc002oey.3_Missense_Mutation_p.T302A|ZNF345_uc002oez.2_Intron	NM_003419	NP_003410	Q14585	ZN345_HUMAN	zinc finger protein 345	302	C2H2-type 9.				negative regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase III promoter|transcription from RNA polymerase II promoter|transcription from RNA polymerase III promoter	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)															---	---	---	---
SAMD4B	55095	broad.mit.edu	37	19	39871247	39871247	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:39871247C>T	uc002olb.2	+	13	2705	c.1670C>T	c.(1669-1671)TCG>TTG	p.S557L	SAMD4B_uc002ola.2_Missense_Mutation_p.S557L	NM_018028	NP_060498	Q5PRF9	SMAG2_HUMAN	sterile alpha motif domain containing 4B	557							protein binding				0	all_cancers(60;2.5e-07)|all_lung(34;4.03e-08)|Lung NSC(34;4.66e-08)|all_epithelial(25;6.4e-07)|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)															---	---	---	---
PAF1	54623	broad.mit.edu	37	19	39879317	39879317	+	Splice_Site	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:39879317C>T	uc002old.2	-	10	916	c.741_splice	c.e10-1	p.R247_splice	PAF1_uc002ole.1_Splice_Site_p.R237_splice|PAF1_uc010xuv.1_Splice_Site|MED29_uc010xuw.1_5'Flank|MED29_uc002olf.2_5'Flank|MED29_uc010xux.1_5'Flank	NM_019088	NP_061961			Paf1, RNA polymerase II associated factor,						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)															---	---	---	---
LTBP4	8425	broad.mit.edu	37	19	41123127	41123127	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:41123127G>A	uc002ooh.1	+	25	3268	c.3268G>A	c.(3268-3270)GTG>ATG	p.V1090M	LTBP4_uc002oog.1_Missense_Mutation_p.V1053M|LTBP4_uc002ooi.1_Missense_Mutation_p.V1023M|LTBP4_uc002ooj.1_Translation_Start_Site|LTBP4_uc002ook.1_Intron|LTBP4_uc002ool.1_Intron|LTBP4_uc002oom.1_RNA|LTBP4_uc010xvp.1_Intron	NM_001042544	NP_001036009	Q8N2S1	LTBP4_HUMAN	latent transforming growth factor beta binding	1090	Cys-rich.|EGF-like 12; calcium-binding (Potential).				growth hormone secretion|multicellular organismal development|protein folding|regulation of cell differentiation|regulation of cell growth|regulation of proteolysis|regulation of transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|glycosaminoglycan binding|integrin binding|transforming growth factor beta binding|transforming growth factor beta receptor activity			central_nervous_system(1)	1			Lung(22;0.000158)|LUSC - Lung squamous cell carcinoma(20;0.000384)															---	---	---	---
SNRPA	6626	broad.mit.edu	37	19	41268833	41268833	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:41268833C>T	uc002ooz.2	+	4	989	c.454C>T	c.(454-456)CGC>TGC	p.R152C	SNRPA_uc002opa.2_Missense_Mutation_p.R102C	NM_004596	NP_004587	P09012	SNRPA_HUMAN	small nuclear ribonucleoprotein polypeptide A	152	Pro-rich.					nucleoplasm|spliceosomal complex	nucleotide binding|protein binding|RNA binding			skin(2)|ovary(1)|central_nervous_system(1)	4			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)															---	---	---	---
ATP1A3	478	broad.mit.edu	37	19	42471440	42471440	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:42471440C>T	uc002osg.2	-	22	3128	c.2974G>A	c.(2974-2976)GAC>AAC	p.D992N	ATP1A3_uc010xwf.1_Missense_Mutation_p.D1003N|ATP1A3_uc010xwg.1_Missense_Mutation_p.D962N|ATP1A3_uc010xwh.1_Missense_Mutation_p.D1005N|ATP1A3_uc002osh.2_Missense_Mutation_p.D992N	NM_152296	NP_689509	P13637	AT1A3_HUMAN	Na+/K+ -ATPase alpha 3 subunit	992	Helical; (Potential).				ATP biosynthetic process	endoplasmic reticulum|Golgi apparatus	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(1)|pancreas(1)	2																		---	---	---	---
CIC	23152	broad.mit.edu	37	19	42795871	42795871	+	Nonsense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:42795871C>T	uc002otf.1	+	11	2900	c.2860C>T	c.(2860-2862)CAG>TAG	p.Q954*		NM_015125	NP_055940	Q96RK0	CIC_HUMAN	capicua homolog	954	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(4)|breast(4)|lung(1)|central_nervous_system(1)|skin(1)	11		Prostate(69;0.00682)						T	DUX4	soft tissue sarcoma								---	---	---	---
C19orf61	56006	broad.mit.edu	37	19	44251591	44251591	+	Intron	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:44251591T>C	uc002oxj.2	-						C19orf61_uc002oxk.2_Intron|C19orf61_uc010eiy.1_Intron	NM_019108	NP_061981			SMG9 protein						nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	intracellular	protein binding				0		Prostate(69;0.0352)																---	---	---	---
KCNN4	3783	broad.mit.edu	37	19	44278410	44278410	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:44278410C>T	uc002oxl.2	-	3	1013	c.617G>A	c.(616-618)CGC>CAC	p.R206H	KCNN4_uc010eiz.2_Missense_Mutation_p.R119H|KCNN4_uc010eja.1_RNA	NM_002250	NP_002241	O15554	KCNN4_HUMAN	intermediate conductance calcium-activated	206					defense response	voltage-gated potassium channel complex	calcium-activated potassium channel activity|calmodulin binding			ovary(2)	2		Prostate(69;0.0352)			Clotrimazole(DB00257)|Halothane(DB01159)|Quinine(DB00468)											OREG0025535	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
ZNF227	7770	broad.mit.edu	37	19	44738862	44738862	+	Missense_Mutation	SNP	G	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:44738862G>T	uc002oyu.2	+	6	484	c.279G>T	c.(277-279)AAG>AAT	p.K93N	ZNF227_uc010xwu.1_Missense_Mutation_p.K42N|ZNF227_uc002oyv.2_Missense_Mutation_p.K93N|ZNF227_uc010xwv.1_Missense_Mutation_p.K42N|ZNF227_uc010xww.1_Missense_Mutation_p.K14N|ZNF227_uc002oyw.2_Missense_Mutation_p.K65N|ZNF227_uc010ejh.2_Missense_Mutation_p.K86N|ZNF235_uc002oyx.1_Intron	NM_182490	NP_872296	Q86WZ6	ZN227_HUMAN	zinc finger protein 227	93	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Prostate(69;0.0435)																---	---	---	---
PPP1R13L	10848	broad.mit.edu	37	19	45885875	45885875	+	Silent	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:45885875G>A	uc002pbn.2	-	12	2435	c.2358C>T	c.(2356-2358)ACC>ACT	p.T786T	PPP1R13L_uc002pbm.2_Silent_p.T365T|PPP1R13L_uc002pbo.2_Silent_p.T786T	NM_006663	NP_006654	Q8WUF5	IASPP_HUMAN	protein phosphatase 1, regulatory subunit 13	786	SH3.				apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	transcription corepressor activity|transcription factor binding			skin(1)	1		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0182)														---	---	---	---
HIF3A	64344	broad.mit.edu	37	19	46815457	46815457	+	Silent	SNP	C	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:46815457C>A	uc002peh.2	+	7	839	c.810C>A	c.(808-810)ATC>ATA	p.I270I	HIF3A_uc002pef.1_Silent_p.I270I|HIF3A_uc002peg.3_Silent_p.I270I|HIF3A_uc010xxx.1_RNA|HIF3A_uc002pei.3_Silent_p.I214I|HIF3A_uc002pej.1_Silent_p.I201I|HIF3A_uc002pek.2_Silent_p.I214I|HIF3A_uc010xxy.1_Silent_p.I201I|HIF3A_uc002pel.2_Silent_p.I268I|HIF3A_uc010xxz.1_Silent_p.I219I	NM_152795	NP_690008	Q9Y2N7	HIF3A_HUMAN	hypoxia inducible factor 3, alpha subunit	270	PAS 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3		Ovarian(192;0.00965)|all_neural(266;0.0887)		OV - Ovarian serous cystadenocarcinoma(262;0.00204)|all cancers(93;0.0107)|GBM - Glioblastoma multiforme(486;0.0489)|Epithelial(262;0.136)														---	---	---	---
TEAD2	8463	broad.mit.edu	37	19	49854546	49854546	+	Intron	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:49854546G>A	uc002pnj.2	-						TEAD2_uc002png.2_Intron|TEAD2_uc002pnh.2_Intron|TEAD2_uc002pni.2_Intron|TEAD2_uc010yao.1_Intron|TEAD2_uc010emw.2_Intron	NM_003598	NP_003589			TEA domain family member 2						hippo signaling cascade		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(2)|ovary(1)	3		all_lung(116;7.65e-05)|Lung NSC(112;0.000132)|all_neural(266;0.0506)|Ovarian(192;0.15)		OV - Ovarian serous cystadenocarcinoma(262;0.00093)|GBM - Glioblastoma multiforme(486;0.0467)														---	---	---	---
PRR12	57479	broad.mit.edu	37	19	50102838	50102838	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:50102838C>T	uc002poo.3	+	5	3988	c.3988C>T	c.(3988-3990)CCT>TCT	p.P1330S		NM_020719	NP_065770	Q9ULL5	PRR12_HUMAN	proline rich 12	509	Pro-rich.						DNA binding			central_nervous_system(1)|pancreas(1)	2		all_lung(116;2.45e-07)|Lung NSC(112;1.24e-06)|Ovarian(192;0.0728)|all_neural(266;0.0887)		OV - Ovarian serous cystadenocarcinoma(262;0.00319)|GBM - Glioblastoma multiforme(134;0.0132)														---	---	---	---
MYH14	79784	broad.mit.edu	37	19	50785086	50785086	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:50785086G>A	uc002prr.1	+	31	4450	c.4403G>A	c.(4402-4404)CGC>CAC	p.R1468H	MYH14_uc010enu.1_Missense_Mutation_p.R1509H|MYH14_uc002prq.1_Missense_Mutation_p.R1476H|MYH14_uc010ycb.1_Intron|MYH14_uc002prs.1_5'Flank	NM_024729	NP_079005	Q7Z406	MYH14_HUMAN	myosin, heavy chain 14 isoform 2	1468	Potential.				axon guidance|regulation of cell shape	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			central_nervous_system(1)	1		all_neural(266;0.0571)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00389)|GBM - Glioblastoma multiforme(134;0.0195)														---	---	---	---
SHANK1	50944	broad.mit.edu	37	19	51219986	51219986	+	Missense_Mutation	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:51219986A>G	uc002psx.1	-	1	210	c.191T>C	c.(190-192)GTC>GCC	p.V64A		NM_016148	NP_057232	Q9Y566	SHAN1_HUMAN	SH3 and multiple ankyrin repeat domains 1	64					cytoskeletal anchoring at plasma membrane	cell junction|cytoplasm|dendrite|membrane fraction|postsynaptic density|postsynaptic membrane	ionotropic glutamate receptor binding			large_intestine(2)	2		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00493)|GBM - Glioblastoma multiforme(134;0.0199)														---	---	---	---
ZNF808	388558	broad.mit.edu	37	19	53057635	53057635	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:53057635G>A	uc010epq.1	+	5	1643	c.1466G>A	c.(1465-1467)CGC>CAC	p.R489H	ZNF808_uc002pzq.2_RNA|ZNF808_uc010epr.1_5'Flank	NM_001039886	NP_001034975	Q8N4W9	ZN808_HUMAN	zinc finger protein 808	489	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(262;0.00501)|GBM - Glioblastoma multiforme(134;0.0213)														---	---	---	---
ZNF611	81856	broad.mit.edu	37	19	53209310	53209310	+	Missense_Mutation	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:53209310T>C	uc002pzz.2	-	7	1315	c.998A>G	c.(997-999)GAT>GGT	p.D333G	ZNF611_uc010eqc.2_Missense_Mutation_p.D263G|ZNF611_uc010ydo.1_Missense_Mutation_p.D263G|ZNF611_uc010ydr.1_Missense_Mutation_p.D264G|ZNF611_uc010ydp.1_Missense_Mutation_p.D333G|ZNF611_uc010ydq.1_Missense_Mutation_p.D333G|ZNF611_uc002qaa.3_Missense_Mutation_p.D263G	NM_030972	NP_112234	Q8N823	ZN611_HUMAN	zinc finger protein 611 isoform a	333	C2H2-type 4; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(262;0.0233)|GBM - Glioblastoma multiforme(134;0.04)														---	---	---	---
NDUFA3	4696	broad.mit.edu	37	19	54609301	54609301	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:54609301C>T	uc002qde.2	+	3	173	c.146C>T	c.(145-147)ACG>ATG	p.T49M	NDUFA3_uc002qdf.2_RNA	NM_004542	NP_004533	O95167	NDUA3_HUMAN	NADH dehydrogenase (ubiquinone) 1 alpha	49					mitochondrial electron transport, NADH to ubiquinone|transport	integral to membrane|mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity			breast(1)	1	all_cancers(19;0.004)|all_epithelial(19;0.00195)|all_lung(19;0.0193)|Lung NSC(19;0.0358)|Breast(117;0.137)|Ovarian(34;0.19)				NADH(DB00157)													---	---	---	---
ZNF324	25799	broad.mit.edu	37	19	58982366	58982366	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:58982366C>T	uc002qsw.1	+	4	601	c.507C>T	c.(505-507)CCC>CCT	p.P169P	ZNF324_uc002qsx.1_5'UTR	NM_014347	NP_055162	O75467	Z324A_HUMAN	zinc finger protein 324	169					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)														---	---	---	---
ZNF324	25799	broad.mit.edu	37	19	58983128	58983128	+	Silent	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:58983128G>A	uc002qsw.1	+	4	1363	c.1269G>A	c.(1267-1269)AAG>AAA	p.K423K	ZNF324_uc002qsx.1_Silent_p.K200K	NM_014347	NP_055162	O75467	Z324A_HUMAN	zinc finger protein 324	423					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)														---	---	---	---
TMC2	117532	broad.mit.edu	37	20	2621797	2621797	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:2621797G>A	uc002wgf.1	+	20	2536	c.2521G>A	c.(2521-2523)GCC>ACC	p.A841T	TMC2_uc002wgg.1_Missense_Mutation_p.A825T	NM_080751	NP_542789	Q8TDI7	TMC2_HUMAN	transmembrane cochlear-expressed protein 2	841	Cytoplasmic (Potential).					integral to membrane				ovary(3)	3																		---	---	---	---
SLC4A11	83959	broad.mit.edu	37	20	3210181	3210181	+	Silent	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:3210181T>C	uc002wig.2	-	13	1827	c.1779A>G	c.(1777-1779)CAA>CAG	p.Q593Q	SLC4A11_uc010zqe.1_Silent_p.Q620Q|SLC4A11_uc002wih.2_RNA|SLC4A11_uc010zqf.1_Silent_p.Q577Q	NM_032034	NP_114423	Q8NBS3	S4A11_HUMAN	solute carrier family 4 member 11	593	Membrane (bicarbonate transporter).|Cytoplasmic (Potential).				cellular cation homeostasis|fluid transport|phosphoenolpyruvate-dependent sugar phosphotransferase system	basolateral plasma membrane|integral to membrane	bicarbonate transmembrane transporter activity|borate transmembrane transporter activity|hydrogen ion channel activity|inorganic anion exchanger activity|sodium channel activity|sugar:hydrogen symporter activity			ovary(1)	1																		---	---	---	---
TASP1	55617	broad.mit.edu	37	20	13539704	13539704	+	Missense_Mutation	SNP	A	G	G	rs112168352		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:13539704A>G	uc002woi.2	-	8	743	c.626T>C	c.(625-627)GTG>GCG	p.V209A	TASP1_uc010zri.1_Intron|TASP1_uc002woh.2_Missense_Mutation_p.V186A|TASP1_uc010zrj.1_RNA	NM_017714	NP_060184	Q9H6P5	TASP1_HUMAN	taspase 1 precursor	209					asparagine catabolic process via L-aspartate|positive regulation of transcription, DNA-dependent|protein maturation		threonine-type endopeptidase activity				0																		---	---	---	---
HM13	81502	broad.mit.edu	37	20	30155910	30155910	+	Intron	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:30155910A>G	uc002wwe.2	+						HM13_uc002wwc.2_Missense_Mutation_p.H355R|HM13_uc002wwd.2_Missense_Mutation_p.H355R|HM13_uc002wwf.2_Missense_Mutation_p.H231R|HM13_uc010gdu.2_Intron	NM_030789	NP_110416			minor histocompatibility antigen 13 isoform 1						membrane protein proteolysis	cell surface|endoplasmic reticulum membrane|integral to membrane|plasma membrane	aspartic-type endopeptidase activity|protein binding			breast(1)	1	all_cancers(5;3.44e-05)|Lung NSC(7;4.38e-06)|all_lung(7;7.65e-06)|all_hematologic(12;0.158)|Ovarian(7;0.198)		all cancers(5;0.000479)|Colorectal(19;0.00202)|COAD - Colon adenocarcinoma(19;0.0264)															---	---	---	---
CEP250	11190	broad.mit.edu	37	20	34057798	34057798	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:34057798C>T	uc002xcm.2	+	11	1606	c.935C>T	c.(934-936)ACA>ATA	p.T312I	CEP250_uc010zve.1_5'UTR|CEP250_uc010zvd.1_RNA|CEP250_uc002xco.2_Missense_Mutation_p.T119I	NM_007186	NP_009117	Q9BV73	CP250_HUMAN	centrosomal protein 2	312	Potential.				centriole-centriole cohesion|G2/M transition of mitotic cell cycle|protein localization|regulation of centriole-centriole cohesion	centriole|cilium|cytosol|microtubule basal body|perinuclear region of cytoplasm|protein complex	protein C-terminus binding|protein kinase binding			ovary(4)|central_nervous_system(1)	5	Lung NSC(9;0.00156)|all_lung(11;0.00243)		BRCA - Breast invasive adenocarcinoma(18;0.0106)															---	---	---	---
SAMHD1	25939	broad.mit.edu	37	20	35539626	35539626	+	Missense_Mutation	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:35539626A>G	uc002xgh.1	-	11	1395	c.1265T>C	c.(1264-1266)CTG>CCG	p.L422P		NM_015474	NP_056289	Q9Y3Z3	SAMH1_HUMAN	SAM domain- and HD domain-containing protein 1	422					defense response to virus|innate immune response|regulation of innate immune response	nucleus	metal ion binding|phosphoric diester hydrolase activity				0		Myeloproliferative disorder(115;0.00878)																---	---	---	---
KCNS1	3787	broad.mit.edu	37	20	43726532	43726532	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:43726532G>A	uc002xnc.2	-	4	1278	c.881C>T	c.(880-882)GCG>GTG	p.A294V	KCNS1_uc002xnd.2_Missense_Mutation_p.A294V	NM_002251	NP_002242	Q96KK3	KCNS1_HUMAN	potassium voltage-gated channel	294	Helical; Name=Segment S2; (Potential).					voltage-gated potassium channel complex	delayed rectifier potassium channel activity|potassium channel regulator activity|protein binding				0		Myeloproliferative disorder(115;0.0122)																---	---	---	---
ATP9A	10079	broad.mit.edu	37	20	50221365	50221365	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:50221365C>T	uc002xwg.1	-	27	2998	c.2998G>A	c.(2998-3000)GAG>AAG	p.E1000K	ATP9A_uc010gih.1_Missense_Mutation_p.E864K|ATP9A_uc002xwf.1_Missense_Mutation_p.E172K	NM_006045	NP_006036	O75110	ATP9A_HUMAN	ATPase, class II, type 9A	1000	Extracellular (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(4)	4																		---	---	---	---
ATP9A	10079	broad.mit.edu	37	20	50238695	50238695	+	Missense_Mutation	SNP	C	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:50238695C>A	uc002xwg.1	-	19	2033	c.2033G>T	c.(2032-2034)GGG>GTG	p.G678V	ATP9A_uc010gih.1_Missense_Mutation_p.G542V|ATP9A_uc002xwf.1_Intron	NM_006045	NP_006036	O75110	ATP9A_HUMAN	ATPase, class II, type 9A	678	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(4)	4																		---	---	---	---
ZFP64	55734	broad.mit.edu	37	20	50769044	50769044	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:50769044C>T	uc002xwl.2	-	6	2036	c.1687G>A	c.(1687-1689)GCA>ACA	p.A563T	ZFP64_uc002xwk.2_Intron|ZFP64_uc002xwm.2_Missense_Mutation_p.A561T|ZFP64_uc002xwn.2_Missense_Mutation_p.A509T	NM_018197	NP_060667	Q9NPA5	ZF64A_HUMAN	zinc finger protein 64 isoform a	563					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2																		---	---	---	---
GNAS	2778	broad.mit.edu	37	20	57428667	57428667	+	Missense_Mutation	SNP	C	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:57428667C>A	uc002xzw.2	+	1	632	c.347C>A	c.(346-348)CCT>CAT	p.P116H	GNASAS_uc002xzs.1_5'Flank|GNAS_uc002xzt.2_Intron|GNAS_uc002xzu.3_Intron|GNAS_uc010gjq.2_Intron|GNAS_uc002xzv.2_RNA	NM_080425	NP_536350	P63092	GNAS2_HUMAN	GNAS complex locus XLas	Error:Variant_position_missing_in_P63092_after_alignment					activation of adenylate cyclase activity|cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|intracellular transport|platelet activation|regulation of insulin secretion|sensory perception of smell|transmembrane transport|water transport	heterotrimeric G-protein complex|intrinsic to membrane|trans-Golgi network membrane	adenylate cyclase activity|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|identical protein binding|signal transducer activity			pituitary(201)|thyroid(35)|ovary(15)|adrenal_gland(9)|liver(7)|large_intestine(5)|parathyroid(5)|kidney(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|testis(1)|stomach(1)|small_intestine(1)|autonomic_ganglia(1)|pancreas(1)	292	all_lung(29;0.0104)		BRCA - Breast invasive adenocarcinoma(13;2.19e-08)|Colorectal(105;0.109)					Mis		pituitary adenoma		McCune-Albright syndrome; pseudohypoparathyroidism|type IA		3-Methylglutaconic_Aciduria_and_Myelodysplasia|McCune-Albright_syndrome|Mazabraud_syndrome	TSP Lung(22;0.16)			---	---	---	---
STMN3	50861	broad.mit.edu	37	20	62275102	62275102	+	Intron	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:62275102T>C	uc002yfr.1	-						STMN3_uc011abb.1_Intron	NM_015894	NP_056978			SCG10-like-protein						cytoplasmic microtubule organization|intracellular signal transduction|negative regulation of Rac protein signal transduction|neuron projection development|regulation of cytoskeleton organization|regulation of Rac GTPase activity	cytoplasm	protein domain specific binding				0	all_cancers(38;2.31e-11)|all_epithelial(29;7.76e-13)		Epithelial(9;1.9e-09)|all cancers(9;1.22e-08)|BRCA - Breast invasive adenocarcinoma(10;8.86e-06)|OV - Ovarian serous cystadenocarcinoma(5;0.00559)															---	---	---	---
TPTE	7179	broad.mit.edu	37	21	10959792	10959792	+	Missense_Mutation	SNP	G	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:10959792G>T	uc002yip.1	-	8	550	c.182C>A	c.(181-183)GCA>GAA	p.A61E	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Missense_Mutation_p.A43E|TPTE_uc002yir.1_Intron|TPTE_uc010gkv.1_Intron	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	61					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)														---	---	---	---
NCAM2	4685	broad.mit.edu	37	21	22910227	22910227	+	Silent	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:22910227T>C	uc002yld.1	+	18	2712	c.2463T>C	c.(2461-2463)ATT>ATC	p.I821I	NCAM2_uc011acb.1_Silent_p.I679I	NM_004540	NP_004531	O15394	NCAM2_HUMAN	neural cell adhesion molecule 2 precursor	821	Cytoplasmic (Potential).				neuron cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)	4		Lung NSC(9;0.195)		all cancers(11;0.00102)|OV - Ovarian serous cystadenocarcinoma(11;0.00121)|Epithelial(23;0.00147)|Colorectal(24;0.174)														---	---	---	---
LOC96610	96610	broad.mit.edu	37	22	22724194	22724194	+	RNA	SNP	T	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:22724194T>G	uc011aim.1	+	43		c.4467T>G								Parts of antibodies, mostly variable regions.												0																		---	---	---	---
SUSD2	56241	broad.mit.edu	37	22	24583244	24583244	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:24583244G>A	uc002zzn.1	+	11	1761	c.1717G>A	c.(1717-1719)GTG>ATG	p.V573M		NM_019601	NP_062547	Q9UGT4	SUSD2_HUMAN	sushi domain containing 2 precursor	573	VWFD.|Extracellular (Potential).				immune response	integral to membrane	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1																		---	---	---	---
IGLL3	91353	broad.mit.edu	37	22	25715884	25715884	+	Missense_Mutation	SNP	A	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:25715884A>C	uc003abr.2	+	2	606	c.506A>C	c.(505-507)CAG>CCG	p.Q169P		NM_001013618	NP_001013640			immunoglobulin lambda-like polypeptide 3												0																		---	---	---	---
ZNRF3	84133	broad.mit.edu	37	22	29446744	29446744	+	Nonsense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:29446744C>T	uc003aeg.2	+	8	2440	c.2275C>T	c.(2275-2277)CGA>TGA	p.R759*	ZNRF3_uc003aeh.1_Nonsense_Mutation_p.R759*	NM_032173	NP_115549	Q9ULT6	ZNRF3_HUMAN	zinc and ring finger 3	859	Cytoplasmic (Potential).					integral to membrane	zinc ion binding			ovary(1)	1																		---	---	---	---
ASCC2	84164	broad.mit.edu	37	22	30221652	30221652	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:30221652C>T	uc003agr.2	-	3	304	c.199G>A	c.(199-201)GAC>AAC	p.D67N	ASCC2_uc003ags.2_RNA|ASCC2_uc003agt.2_Missense_Mutation_p.D67N|ASCC2_uc011akr.1_Intron	NM_032204	NP_115580	Q9H1I8	ASCC2_HUMAN	activating signal cointegrator 1 complex subunit	67					regulation of transcription, DNA-dependent|transcription, DNA-dependent						0			OV - Ovarian serous cystadenocarcinoma(5;0.000103)|Epithelial(10;0.0169)|all cancers(5;0.0259)															---	---	---	---
GALR3	8484	broad.mit.edu	37	22	38220959	38220959	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:38220959G>A	uc003aub.1	+	2	614	c.589G>A	c.(589-591)GTG>ATG	p.V197M		NM_003614	NP_003605	O60755	GALR3_HUMAN	galanin receptor 3	197	Helical; Name=5; (Potential).				feeding behavior|learning or memory|negative regulation of adenylate cyclase activity	integral to membrane|plasma membrane	galanin receptor activity				0	Melanoma(58;0.045)																	---	---	---	---
ZC3H7B	23264	broad.mit.edu	37	22	41735150	41735150	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:41735150C>T	uc003azw.2	+	9	987	c.771C>T	c.(769-771)GAC>GAT	p.D257D	ZC3H7B_uc010gyl.1_Intron	NM_017590	NP_060060	Q9UGR2	Z3H7B_HUMAN	zinc finger CCCH-type containing 7B	273					interspecies interaction between organisms	nucleus	nucleic acid binding|protein binding|zinc ion binding			central_nervous_system(1)	1																		---	---	---	---
XRCC6	2547	broad.mit.edu	37	22	42032509	42032509	+	Intron	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:42032509C>T	uc003bao.1	+						XRCC6_uc003bap.1_Intron|XRCC6_uc011apc.1_Intron|XRCC6_uc003baq.1_Intron|XRCC6_uc003bar.1_Intron|XRCC6_uc003bas.1_Intron	NM_001469	NP_001460			ATP-dependent DNA helicase II, 70 kDa subunit						DNA ligation|double-strand break repair via nonhomologous end joining|initiation of viral infection|negative regulation of transcription, DNA-dependent|positive regulation of transcription from RNA polymerase II promoter|provirus integration|telomere maintenance|transcription, DNA-dependent	DNA-dependent protein kinase-DNA ligase 4 complex|Ku70:Ku80 complex|membrane fraction|nuclear telomere cap complex|transcription factor complex	5'-deoxyribose-5-phosphate lyase activity|ATP binding|ATP-dependent DNA helicase activity|double-stranded DNA binding|protein C-terminus binding|transcription regulatory region DNA binding			skin(2)|ovary(1)|lung(1)|kidney(1)	5													Direct_reversal_of_damage|NHEJ					---	---	---	---
SMC1B	27127	broad.mit.edu	37	22	45809402	45809402	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:45809402C>T	uc003bgc.2	-	1	99	c.47G>A	c.(46-48)CGG>CAG	p.R16Q	SMC1B_uc003bgd.2_Missense_Mutation_p.R16Q|RIBC2_uc011aqs.1_5'Flank	NM_148674	NP_683515	Q8NDV3	SMC1B_HUMAN	SMC1 structural maintenance of chromosomes	16					chromosome organization|meiosis	chromosome, centromeric region|cytoplasm|meiotic cohesin complex|nucleus	ATP binding			ovary(2)	2		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)														---	---	---	---
GRAMD4	23151	broad.mit.edu	37	22	47057337	47057337	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:47057337C>T	uc003bhx.2	+	4	503	c.464C>T	c.(463-465)GCA>GTA	p.A155V	GRAMD4_uc010had.2_Missense_Mutation_p.A94V	NM_015124	NP_055939	Q6IC98	GRAM4_HUMAN	death-inducing-protein	155					apoptosis	integral to membrane|mitochondrial membrane				ovary(1)	1		Breast(42;0.00571)|Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)|BRCA - Breast invasive adenocarcinoma(115;0.166)														---	---	---	---
ZBED4	9889	broad.mit.edu	37	22	50280283	50280283	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:50280283C>T	uc003bix.2	+	2	3443	c.2973C>T	c.(2971-2973)AGC>AGT	p.S991S		NM_014838	NP_055653	O75132	ZBED4_HUMAN	zinc finger, BED-type containing 4	991						cytoplasm|nucleus	DNA binding|metal ion binding|protein dimerization activity			ovary(2)	2		all_cancers(38;8.58e-10)|all_epithelial(38;1.15e-08)|all_lung(38;0.000109)|Lung NSC(38;0.0018)|Breast(42;0.00191)|Ovarian(80;0.0164)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.168)|BRCA - Breast invasive adenocarcinoma(115;0.2)|LUAD - Lung adenocarcinoma(64;0.247)														---	---	---	---
TUBGCP6	85378	broad.mit.edu	37	22	50656526	50656526	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:50656526G>A	uc003bkb.1	-	24	5701	c.5189C>T	c.(5188-5190)GCG>GTG	p.A1730V	TUBGCP6_uc003bka.1_Missense_Mutation_p.A800V|TUBGCP6_uc010har.1_Missense_Mutation_p.A1722V|TUBGCP6_uc010has.1_RNA	NM_020461	NP_065194	Q96RT7	GCP6_HUMAN	tubulin, gamma complex associated protein 6	1730					G2/M transition of mitotic cell cycle|microtubule nucleation	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	microtubule binding			ovary(2)|central_nervous_system(2)	4		all_cancers(38;5.79e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		LUAD - Lung adenocarcinoma(64;0.109)|BRCA - Breast invasive adenocarcinoma(115;0.21)														---	---	---	---
ASMTL	8623	broad.mit.edu	37	X	1522152	1522152	+	3'UTR	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:1522152T>C	uc004cpx.1	-	13					NCRNA00105_uc004cpv.2_Intron|NCRNA00105_uc004cpw.2_Intron|ASMTL_uc011mhe.1_3'UTR|ASMTL_uc004cpy.1_3'UTR|ASMTL_uc011mhf.1_3'UTR	NM_004192	NP_004183			acetylserotonin O-methyltransferase-like						melatonin biosynthetic process	cytoplasm	acetylserotonin O-methyltransferase activity				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)																---	---	---	---
PHKA2	5256	broad.mit.edu	37	X	18912406	18912406	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:18912406C>T	uc004cyv.3	-	32	3883	c.3453G>A	c.(3451-3453)TCG>TCA	p.S1151S	uc004cyt.2_RNA|PHKA2_uc004cyu.3_Silent_p.S457S|PHKA2_uc010nfe.1_Silent_p.S183S|PHKA2_uc010nff.1_RNA	NM_000292	NP_000283	P46019	KPB2_HUMAN	phosphorylase kinase, alpha 2 (liver)	1151					glucose metabolic process|glycogen catabolic process	cytosol|phosphorylase kinase complex|plasma membrane	calmodulin binding|glucan 1,4-alpha-glucosidase activity|phosphorylase kinase activity			ovary(1)|central_nervous_system(1)	2	Hepatocellular(33;0.183)																	---	---	---	---
KLHL34	257240	broad.mit.edu	37	X	21674117	21674117	+	Missense_Mutation	SNP	A	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:21674117A>T	uc004czz.1	-	1	2332	c.1790T>A	c.(1789-1791)CTC>CAC	p.L597H		NM_153270	NP_695002	Q8N239	KLH34_HUMAN	kelch-like 34	597	Kelch 6.									ovary(1)	1																		---	---	---	---
POLA1	5422	broad.mit.edu	37	X	24745948	24745948	+	Silent	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:24745948G>A	uc004dbl.2	+	15	1586	c.1563G>A	c.(1561-1563)TTG>TTA	p.L521L	POLA1_uc004dbm.2_Silent_p.L527L|POLA1_uc004dbn.2_Silent_p.L385L	NM_016937	NP_058633	P09884	DPOLA_HUMAN	DNA-directed DNA polymerase alpha 1	521					cell proliferation|DNA replication checkpoint|DNA replication, synthesis of RNA primer|DNA-dependent DNA replication initiation|double-strand break repair via nonhomologous end joining|interspecies interaction between organisms|lagging strand elongation|leading strand elongation|M/G1 transition of mitotic cell cycle|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|cytoplasm|nuclear envelope|nuclear matrix|nucleolus|nucleoplasm	chromatin binding|DNA-directed DNA polymerase activity|metal ion binding|nucleoside binding			ovary(2)|skin(1)	3					Clofarabine(DB00631)|Fludarabine(DB01073)													---	---	---	---
FAM47A	158724	broad.mit.edu	37	X	34148626	34148626	+	Missense_Mutation	SNP	G	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:34148626G>C	uc004ddg.2	-	1	1803	c.1770C>G	c.(1768-1770)AGC>AGG	p.S590R		NM_203408	NP_981953	Q5JRC9	FA47A_HUMAN	hypothetical protein LOC158724	590										ovary(4)|central_nervous_system(1)	5																		---	---	---	---
CXorf59	286464	broad.mit.edu	37	X	36122657	36122657	+	Silent	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:36122657T>C	uc004ddk.1	+	8	1080	c.894T>C	c.(892-894)AAT>AAC	p.N298N		NM_173695	NP_775966	Q8N9S7	CX059_HUMAN	hypothetical protein LOC286464	298						integral to membrane				central_nervous_system(1)	1																		---	---	---	---
RPGR	6103	broad.mit.edu	37	X	38182642	38182642	+	Intron	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:38182642T>C	uc004ded.1	-						RPGR_uc004deb.2_Intron|RPGR_uc004dea.2_Intron|RPGR_uc004dec.2_Intron	NM_001034853	NP_001030025			retinitis pigmentosa GTPase regulator isoform C						intracellular protein transport|response to stimulus|visual perception	Golgi apparatus|photoreceptor outer segment	guanyl-nucleotide exchange factor activity|protein binding			ovary(1)	1																		---	---	---	---
ZNF630	57232	broad.mit.edu	37	X	47919908	47919908	+	Missense_Mutation	SNP	T	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:47919908T>G	uc004div.3	-	4	411	c.159A>C	c.(157-159)AAA>AAC	p.K53N	ZNF630_uc010nhz.1_RNA|ZNF630_uc004diw.2_5'UTR	NM_001037735	NP_001032824	Q2M218	ZN630_HUMAN	zinc finger protein 630	53	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|lung(1)	2																		---	---	---	---
PQBP1	10084	broad.mit.edu	37	X	48759531	48759531	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:48759531G>A	uc004dle.2	+	5	503	c.314G>A	c.(313-315)CGG>CAG	p.R105Q	PQBP1_uc004dlf.2_Missense_Mutation_p.R105Q|PQBP1_uc004dlg.2_Missense_Mutation_p.R105Q|PQBP1_uc004dld.2_RNA|PQBP1_uc004dlh.2_Missense_Mutation_p.R105Q|PQBP1_uc004dli.2_Missense_Mutation_p.R105Q|PQBP1_uc004dlj.1_Missense_Mutation_p.R105Q|PQBP1_uc004dln.2_Missense_Mutation_p.R105Q|PQBP1_uc010nih.2_RNA|PQBP1_uc010nii.2_Missense_Mutation_p.R63Q|PQBP1_uc004dlk.2_Intron|PQBP1_uc004dll.2_Intron|PQBP1_uc004dlm.2_Missense_Mutation_p.R63Q|PQBP1_uc010nij.2_Intron	NM_001032382	NP_001027554	O60828	PQBP1_HUMAN	polyglutamine binding protein 1	105	Potential.|5 X 7 AA approximate tandem repeats of D- R-[SG]-H-D-K-S.|1-1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|transcription coactivator activity			large_intestine(1)	1																		---	---	---	---
DGKK	139189	broad.mit.edu	37	X	50130606	50130606	+	Missense_Mutation	SNP	C	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:50130606C>A	uc010njr.1	-	14	2124	c.2064G>T	c.(2062-2064)AAG>AAT	p.K688N		NM_001013742	NP_001013764	Q5KSL6	DGKK_HUMAN	diacylglycerol kinase kappa	688					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|diacylglycerol metabolic process|intracellular signal transduction|platelet activation|response to oxidative stress	cytoplasm|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)	2	Ovarian(276;0.236)																	---	---	---	---
RIBC1	158787	broad.mit.edu	37	X	53457857	53457857	+	Missense_Mutation	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:53457857A>G	uc004dsk.2	+	8	1214	c.1061A>G	c.(1060-1062)CAG>CGG	p.Q354R		NM_001031745	NP_001026915	Q8N443	RIBC1_HUMAN	RIB43A domain with coiled-coils 1 isoform 1	354											0																		---	---	---	---
WNK3	65267	broad.mit.edu	37	X	54259313	54259313	+	Missense_Mutation	SNP	C	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:54259313C>A	uc004dtd.1	-	21	5067	c.4628G>T	c.(4627-4629)AGA>ATA	p.R1543I	WNK3_uc004dtc.1_Missense_Mutation_p.R1590I	NM_001002838	NP_001002838	Q9BYP7	WNK3_HUMAN	WNK lysine deficient protein kinase 3 isoform 2	1543					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																		---	---	---	---
FGD1	2245	broad.mit.edu	37	X	54521707	54521707	+	Silent	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:54521707G>A	uc004dtg.2	-	1	893	c.159C>T	c.(157-159)GGC>GGT	p.G53G		NM_004463	NP_004454	P98174	FGD1_HUMAN	faciogenital dysplasia protein	53	Pro-rich.				actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|organ morphogenesis|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|Golgi apparatus|lamellipodium|nucleus|plasma membrane|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(3)|skin(2)|central_nervous_system(1)	6																		---	---	---	---
ZXDB	158586	broad.mit.edu	37	X	57619559	57619559	+	Nonsense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:57619559C>T	uc004dvd.2	+	1	1291	c.1078C>T	c.(1078-1080)CAG>TAG	p.Q360*		NM_007157	NP_009088	P98169	ZXDB_HUMAN	zinc finger, X-linked, duplicated B	360	Required for interaction with ZXDC (By similarity).				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding				0																		---	---	---	---
KIF4A	24137	broad.mit.edu	37	X	69595044	69595044	+	Intron	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:69595044C>T	uc004dyg.2	+						KIF4A_uc010nkw.2_Intron|KIF4A_uc004dyf.1_Intron	NM_012310	NP_036442			kinesin family member 4						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																		---	---	---	---
PHKA1	5255	broad.mit.edu	37	X	71915722	71915722	+	Missense_Mutation	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:71915722T>C	uc004eax.3	-	4	591	c.290A>G	c.(289-291)GAT>GGT	p.D97G	PHKA1_uc004eay.3_Missense_Mutation_p.D97G|PHKA1_uc011mqi.1_Missense_Mutation_p.D97G	NM_002637	NP_002628	P46020	KPB1_HUMAN	phosphorylase kinase, alpha 1 (muscle) isoform	97					glucose metabolic process|glycogen catabolic process	cytosol|plasma membrane	calmodulin binding|glucan 1,4-alpha-glucosidase activity|phosphorylase kinase activity			ovary(3)|skin(1)	4	Renal(35;0.156)																	---	---	---	---
ATP7A	538	broad.mit.edu	37	X	77218306	77218306	+	Intron	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:77218306T>C	uc004ecx.3	+						ATP7A_uc004ecv.2_RNA|ATP7A_uc004ecw.2_Intron	NM_000052	NP_000043			ATPase, Cu++ transporting, alpha polypeptide						ATP biosynthetic process|blood vessel development|blood vessel remodeling|cartilage development|cellular copper ion homeostasis|cerebellar Purkinje cell differentiation|collagen fibril organization|copper ion import|detoxification of copper ion|dopamine metabolic process|elastic fiber assembly|elastin biosynthetic process|epinephrine metabolic process|hair follicle morphogenesis|locomotory behavior|lung alveolus development|negative regulation of metalloenzyme activity|neuroprotection|peptidyl-lysine modification|pigmentation|positive regulation of metalloenzyme activity|positive regulation of oxidoreductase activity|pyramidal neuron development|regulation of oxidative phosphorylation|removal of superoxide radicals|serotonin metabolic process|skin development|T-helper cell differentiation|tryptophan metabolic process	basolateral plasma membrane|cytosol|endoplasmic reticulum|endoplasmic reticulum|integral to membrane|late endosome|neuron projection|neuronal cell body|perinuclear region of cytoplasm|trans-Golgi network|trans-Golgi network transport vesicle	ATP binding|copper-dependent protein binding|copper-exporting ATPase activity|superoxide dismutase copper chaperone activity				0																		---	---	---	---
APOOL	139322	broad.mit.edu	37	X	84258931	84258931	+	Missense_Mutation	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:84258931A>G	uc004eem.2	+	1	27	c.13A>G	c.(13-15)AGG>GGG	p.R5G	APOOL_uc010nmp.2_RNA	NM_198450	NP_940852	Q6UXV4	APOOL_HUMAN	apolipoprotein O-like precursor	5						extracellular region					0																		---	---	---	---
DACH2	117154	broad.mit.edu	37	X	85404009	85404009	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:85404009C>T	uc004eew.2	+	1	555	c.385C>T	c.(385-387)CGG>TGG	p.R129W	DACH2_uc004eex.2_Missense_Mutation_p.R129W|DACH2_uc010nmq.2_5'UTR	NM_053281	NP_444511	Q96NX9	DACH2_HUMAN	dachshund 2 isoform a	129	DACHbox-N.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|nucleotide binding			ovary(4)|pancreas(1)	5																		---	---	---	---
KLHL4	56062	broad.mit.edu	37	X	86887421	86887421	+	Silent	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:86887421T>C	uc004efb.2	+	7	1718	c.1536T>C	c.(1534-1536)CAT>CAC	p.H512H	KLHL4_uc004efa.2_Silent_p.H512H	NM_019117	NP_061990	Q9C0H6	KLHL4_HUMAN	kelch-like 4 isoform 1	512	Kelch 2.					cytoplasm|microtubule cytoskeleton|nucleolus	actin binding			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5																		---	---	---	---
PCDH19	57526	broad.mit.edu	37	X	99597078	99597078	+	Intron	SNP	G	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:99597078G>T	uc010nmz.2	-						PCDH19_uc004efw.3_Intron|PCDH19_uc004efx.3_Intron	NM_020766	NP_001098713			protocadherin 19 isoform b						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																		---	---	---	---
GPRASP2	114928	broad.mit.edu	37	X	101969939	101969939	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:101969939G>A	uc004ejk.2	+	4	1476	c.142G>A	c.(142-144)GCA>ACA	p.A48T	GPRASP2_uc004ejl.2_Missense_Mutation_p.A48T|GPRASP2_uc004ejm.2_Missense_Mutation_p.A48T|GPRASP2_uc011mrp.1_5'Flank	NM_138437	NP_612446	Q96D09	GASP2_HUMAN	G protein-coupled receptor associated sorting	48						cytoplasm	protein binding			ovary(1)	1																		---	---	---	---
NXF3	56000	broad.mit.edu	37	X	102335077	102335077	+	Missense_Mutation	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:102335077T>C	uc004eju.2	-	11	1066	c.995A>G	c.(994-996)AAG>AGG	p.K332R	NXF3_uc010noi.1_Missense_Mutation_p.K182R	NM_022052	NP_071335	Q9H4D5	NXF3_HUMAN	nuclear RNA export factor 3	332						cytoplasm|nuclear RNA export factor complex	nucleocytoplasmic transporter activity|nucleotide binding|protein binding			ovary(1)|lung(1)|central_nervous_system(1)	3																		---	---	---	---
TSC22D3	1831	broad.mit.edu	37	X	107018613	107018613	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:107018613C>T	uc004enh.2	-	1	405	c.37G>A	c.(37-39)GGC>AGC	p.G13S	TSC22D3_uc004eni.2_Missense_Mutation_p.G13S|TSC22D3_uc004enj.2_Missense_Mutation_p.G13S	NM_198057	NP_932174	Q99576	T22D3_HUMAN	TSC22 domain family, member 3 isoform 1	Error:Variant_position_missing_in_Q99576_after_alignment							sequence-specific DNA binding transcription factor activity				0																		---	---	---	---
COL4A6	1288	broad.mit.edu	37	X	107417676	107417676	+	Silent	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:107417676T>C	uc004enw.3	-	31	3238	c.3135A>G	c.(3133-3135)GGA>GGG	p.G1045G	COL4A6_uc004env.3_Silent_p.G1044G|COL4A6_uc011msn.1_Silent_p.G1044G|COL4A6_uc010npk.2_Silent_p.G1044G	NM_001847	NP_001838	Q14031	CO4A6_HUMAN	type IV alpha 6 collagen isoform A precursor	1045	Triple-helical region.				cell adhesion|extracellular matrix organization	collagen type IV	extracellular matrix structural constituent|protein binding			ovary(6)|urinary_tract(1)|large_intestine(1)	8														Alport_syndrome_with_Diffuse_Leiomyomatosis				---	---	---	---
RGAG1	57529	broad.mit.edu	37	X	109694416	109694416	+	Missense_Mutation	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:109694416T>C	uc004eor.1	+	3	817	c.571T>C	c.(571-573)TCC>CCC	p.S191P	RGAG1_uc011msr.1_Missense_Mutation_p.S191P	NM_020769	NP_065820	Q8NET4	RGAG1_HUMAN	retrotransposon gag domain containing 1	191										lung(2)|upper_aerodigestive_tract(1)|ovary(1)	4																		---	---	---	---
PLS3	5358	broad.mit.edu	37	X	114883835	114883835	+	Missense_Mutation	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:114883835T>C	uc004eqd.2	+	16	2237	c.1847T>C	c.(1846-1848)ATG>ACG	p.M616T	PLS3_uc011mtf.1_Missense_Mutation_p.M603T|PLS3_uc004eqe.2_Missense_Mutation_p.M616T|PLS3_uc011mtg.1_Missense_Mutation_p.M589T|PLS3_uc011mth.1_Missense_Mutation_p.M571T|PLS3_uc011mti.1_Missense_Mutation_p.M292T|PLS3_uc011mtj.1_Missense_Mutation_p.M210T|PLS3_uc011mtk.1_Missense_Mutation_p.M277T|PLS3_uc011mtl.1_RNA	NM_005032	NP_005023	P13797	PLST_HUMAN	plastin 3	616	CH 4.|Actin-binding 2.					cytoplasm	actin binding|calcium ion binding			lung(1)|breast(1)	2																		---	---	---	---
PGRMC1	10857	broad.mit.edu	37	X	118370319	118370319	+	5'UTR	SNP	C	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:118370319C>G	uc004erb.2	+	1					PGRMC1_uc011mts.1_5'UTR	NM_006667	NP_006658			progesterone receptor membrane component 1							cell surface|endoplasmic reticulum membrane|integral to membrane|microsome|nucleolus	heme binding|protein binding|receptor activity|steroid binding				0																		---	---	---	---
CXorf56	63932	broad.mit.edu	37	X	118699280	118699280	+	Missense_Mutation	SNP	G	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:118699280G>C	uc004erk.1	-	1	85	c.39C>G	c.(37-39)GAC>GAG	p.D13E	CXorf56_uc004erj.1_5'UTR|CXorf56_uc011mtu.1_Missense_Mutation_p.D13E	NM_022101	NP_071384	Q9H5V9	CX056_HUMAN	hypothetical protein LOC63932	13							protein binding				0																		---	---	---	---
FAM70A	55026	broad.mit.edu	37	X	119445103	119445103	+	Intron	SNP	T	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:119445103T>G	uc004eso.3	-						FAM70A_uc004esp.3_Intron|FAM70A_uc010nqo.2_Intron	NM_017938	NP_060408			hypothetical protein LOC55026 isoform 1							integral to membrane				lung(1)|breast(1)	2																		---	---	---	---
ATP1B4	23439	broad.mit.edu	37	X	119504684	119504684	+	Missense_Mutation	SNP	G	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:119504684G>T	uc004esr.2	+	3	527	c.443G>T	c.(442-444)CGG>CTG	p.R148L	ATP1B4_uc004esq.2_Missense_Mutation_p.R144L|ATP1B4_uc011mtx.1_Missense_Mutation_p.R113L|ATP1B4_uc011mty.1_Intron	NM_001142447	NP_001135919	Q9UN42	AT1B4_HUMAN	ATPase, (Na+)/K+ transporting, beta 4	148	Perinuclear space (Potential).				ATP biosynthetic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to plasma membrane|nuclear inner membrane	sodium:potassium-exchanging ATPase activity			ovary(1)|skin(1)	2																		---	---	---	---
DCAF12L1	139170	broad.mit.edu	37	X	125686358	125686358	+	Silent	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:125686358G>A	uc004eul.2	-	1	485	c.234C>T	c.(232-234)TAC>TAT	p.Y78Y		NM_178470	NP_848565	Q5VU92	DC121_HUMAN	DDB1 and CUL4 associated factor 12-like 1	78										skin(3)|ovary(1)	4																		---	---	---	---
ACTRT1	139741	broad.mit.edu	37	X	127185759	127185759	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:127185759C>T	uc004eum.2	-	1	624	c.427G>A	c.(427-429)GCA>ACA	p.A143T		NM_138289	NP_612146	Q8TDG2	ACTT1_HUMAN	actin-related protein T1	143						cytoplasm|cytoskeleton				ovary(2)|central_nervous_system(2)|skin(1)	5																		---	---	---	---
HS6ST2	90161	broad.mit.edu	37	X	132092270	132092270	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:132092270C>T	uc011mve.1	-	2	777	c.361G>A	c.(361-363)GCC>ACC	p.A121T	HS6ST2_uc011mvb.1_5'Flank|HS6ST2_uc011mvc.1_5'Flank|HS6ST2_uc011mvd.1_Missense_Mutation_p.A121T	NM_147175	NP_671704	Q96MM7	H6ST2_HUMAN	heparan sulfate 6-O-sulfotransferase 2 isoform	121	Lumenal (Potential).					integral to membrane	sulfotransferase activity				0	Acute lymphoblastic leukemia(192;0.000127)																	---	---	---	---
MAGEC3	139081	broad.mit.edu	37	X	140984487	140984487	+	Intron	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:140984487C>T	uc011mwp.1	+						MAGEC3_uc004fbs.2_Nonsense_Mutation_p.Q17*|MAGEC3_uc010nsj.2_Nonsense_Mutation_p.Q17*	NM_138702	NP_619647			melanoma antigen family C, 3 isoform 1											skin(2)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)																	---	---	---	---
SLITRK2	84631	broad.mit.edu	37	X	144904206	144904206	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:144904206C>T	uc004fcd.2	+	5	1253	c.263C>T	c.(262-264)GCG>GTG	p.A88V	SLITRK2_uc010nsp.2_Missense_Mutation_p.A88V|SLITRK2_uc010nso.2_Missense_Mutation_p.A88V|SLITRK2_uc011mwq.1_Missense_Mutation_p.A88V|SLITRK2_uc011mwr.1_Missense_Mutation_p.A88V|SLITRK2_uc011mws.1_Missense_Mutation_p.A88V|SLITRK2_uc004fcg.2_Missense_Mutation_p.A88V|SLITRK2_uc011mwt.1_Missense_Mutation_p.A88V	NM_032539	NP_115928	Q9H156	SLIK2_HUMAN	SLIT and NTRK-like family, member 2 precursor	88	Extracellular (Potential).|LRR 2.					integral to membrane				ovary(5)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(192;6.56e-05)																	---	---	---	---
FMR1	2332	broad.mit.edu	37	X	147010315	147010315	+	Silent	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:147010315T>C	uc010nst.2	+	5	598	c.409T>C	c.(409-411)TTA>CTA	p.L137L	FMR1_uc011mwz.1_Silent_p.L137L|FMR1_uc004fcj.2_Silent_p.L137L|FMR1_uc004fck.3_Silent_p.L137L|FMR1_uc004fcl.3_5'UTR|FMR1_uc011mxa.1_5'Flank	NM_002024	NP_002015	Q06787	FMR1_HUMAN	fragile X mental retardation 1	137					mRNA transport|negative regulation of translational initiation	cytoplasm|mRNA cap binding complex|nucleolus|nucleoplasm|soluble fraction	mRNA binding|protein binding			ovary(2)|pancreas(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)													Fragile_X_syndrome				---	---	---	---
AFF2	2334	broad.mit.edu	37	X	148037360	148037360	+	Silent	SNP	A	G	G			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:148037360A>G	uc004fcp.2	+	11	2264	c.1785A>G	c.(1783-1785)AAA>AAG	p.K595K	AFF2_uc004fcq.2_Silent_p.K585K|AFF2_uc004fcr.2_Silent_p.K556K|AFF2_uc011mxb.1_Silent_p.K560K|AFF2_uc004fcs.2_Silent_p.K562K|AFF2_uc011mxc.1_Silent_p.K236K	NM_002025	NP_002016	P51816	AFF2_HUMAN	fragile X mental retardation 2	595					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)																	---	---	---	---
MAGEA12	4111	broad.mit.edu	37	X	151900005	151900005	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:151900005G>A	uc010ntp.2	-	3	1150	c.796C>T	c.(796-798)CCT>TCT	p.P266S	MAGEA12_uc004fgb.2_Intron|MAGEA12_uc004fgc.2_Missense_Mutation_p.P266S	NM_005367	NP_005358	P43365	MAGAC_HUMAN	melanoma antigen family A, 12	266	MAGE.									skin(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)																	---	---	---	---
ATP2B3	492	broad.mit.edu	37	X	152818542	152818542	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:152818542C>T	uc004fht.1	+	11	1999	c.1873C>T	c.(1873-1875)CGG>TGG	p.R625W	ATP2B3_uc004fhs.1_Missense_Mutation_p.R625W	NM_001001344	NP_001001344	Q16720	AT2B3_HUMAN	plasma membrane calcium ATPase 3 isoform 3b	625	Cytoplasmic (Potential).				ATP biosynthetic process|platelet activation	integral to membrane|plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding			pancreas(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)																	---	---	---	---
PNCK	139728	broad.mit.edu	37	X	152938109	152938109	+	Missense_Mutation	SNP	C	T	T	rs144452893		TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:152938109C>T	uc011myu.1	-	3	547	c.361G>A	c.(361-363)GCA>ACA	p.A121T	PNCK_uc011myt.1_Missense_Mutation_p.A55T|PNCK_uc004fia.2_Missense_Mutation_p.A50T|PNCK_uc004fhz.3_5'UTR|PNCK_uc010nuh.2_Missense_Mutation_p.A121T|PNCK_uc011myv.1_Missense_Mutation_p.A65T|PNCK_uc011myw.1_Missense_Mutation_p.A65T	NM_001039582	NP_001034671	Q6P2M8	KCC1B_HUMAN	pregnancy upregulated non-ubiquitously expressed	38	Protein kinase.					cytoplasm|nucleus	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			breast(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)																	---	---	---	---
PLXNA3	55558	broad.mit.edu	37	X	153698447	153698447	+	Silent	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:153698447C>T	uc004flm.2	+	29	5096	c.4923C>T	c.(4921-4923)CGC>CGT	p.R1641R		NM_017514	NP_059984	P51805	PLXA3_HUMAN	plexin A3 precursor	1641	Cytoplasmic (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)																	---	---	---	---
F8	2157	broad.mit.edu	37	X	154128211	154128211	+	Missense_Mutation	SNP	T	C	C			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:154128211T>C	uc004fmt.2	-	21	6374	c.6203A>G	c.(6202-6204)AAG>AGG	p.K2068R	F8_uc010nvi.1_Intron	NM_000132	NP_000123	P00451	FA8_HUMAN	coagulation factor VIII isoform a precursor	2068	F5/8 type C 1.				acute-phase response|blood coagulation, intrinsic pathway|cell adhesion|platelet activation|platelet degranulation	extracellular space|plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity|protein binding			ovary(5)|large_intestine(2)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	11	all_cancers(53;7.19e-17)|all_epithelial(53;9.83e-11)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Drotrecogin alfa(DB00055)													---	---	---	---
F8	2157	broad.mit.edu	37	X	154194366	154194366	+	Missense_Mutation	SNP	T	A	A			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:154194366T>A	uc004fmt.2	-	9	1493	c.1322A>T	c.(1321-1323)AAG>ATG	p.K441M		NM_000132	NP_000123	P00451	FA8_HUMAN	coagulation factor VIII isoform a precursor	441	F5/8 type A 2.|Plastocyanin-like 3.				acute-phase response|blood coagulation, intrinsic pathway|cell adhesion|platelet activation|platelet degranulation	extracellular space|plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity|protein binding			ovary(5)|large_intestine(2)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	11	all_cancers(53;7.19e-17)|all_epithelial(53;9.83e-11)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Drotrecogin alfa(DB00055)													---	---	---	---
FUNDC2	65991	broad.mit.edu	37	X	154261743	154261743	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4465-01A-01D-1158-08	TCGA-CG-4465-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:154261743C>T	uc004fmw.2	+	2	349	c.199C>T	c.(199-201)CGT>TGT	p.R67C		NM_023934	NP_076423	Q9BWH2	FUND2_HUMAN	FUN14 domain containing 2	67						mitochondrion					0	all_cancers(53;3.51e-17)|all_epithelial(53;5.13e-11)|all_lung(58;3.84e-07)|Lung NSC(58;1.2e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)																	---	---	---	---
